vmd-1.9-compile.log

vmd-1.9-compile.log (text/plain), 573.39 KB, created by Bjoern Olausson on 2011-04-27 08:30:31 UTC

 * vmd-1.9.src.tar.gz RMD160 SHA1 SHA256 size ;-) ...                    [ ok ]
 * checking ebuild checksums ;-) ...                                     [ ok ]
 * checking auxfile checksums ;-) ...                                    [ ok ]
 * checking miscfile checksums ;-) ...                                   [ ok ]
 * checking vmd-1.9.src.tar.gz ;-) ...                                   [ ok ]
 * Package:    sci-chemistry/vmd-1.9
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail],[e-mail]
 * USE:        amd64 cuda elibc_glibc kernel_linux msms multilib povray tachyon userland_GNU xinerama
 * FEATURES:   ccache preserve-libs sandbox userpriv usersandbox
>>> [1m[37mcfg-update-1.8.2-r1[0m[0m: Checksum index is up-to-date ...
>>> Unpacking source...
>>> Unpacking vmd-1.9.src.tar.gz to /var/tmp/portage/sci-chemistry/vmd-1.9/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/vmd-1.9/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/vmd-1.9/work/vmd-1.9 ...
 * Applying vmd-1.9-gentoo-plugins.patch ...
 [ ok ]
 * Applying vmd-1.9-gentoo-base.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/vmd-1.9/work/vmd-1.9 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/vmd-1.9/work/vmd-1.9 ...
make -j4 TCLINC=-I/usr/include TCLLIB=-L/usr/lib64 'NETCDFLIB= ' 'NETCDFINC= ' 'NETCDFLDFLAGS=-lnetcdf  ' LINUX 
make dynlibs  bins \
	"ARCH = LINUX" \
	"COPTO = -fPIC -o" \
	"LOPTO = -Wl,-O1 -Wl,--as-needed -fPIC -o" \
	"CC = x86_64-pc-linux-gnu-gcc" \
	"CXX = x86_64-pc-linux-gnu-g++" \
	"DEF = -D" \
	"CCFLAGS = -march=nocona -O2 -pipe -fomit-frame-pointer" \
	"CXXFLAGS = -march=nocona -O2 -pipe -fomit-frame-pointer" \
	"TCLLDFLAGS = -ltcl -ldl" \
	"NETCDFLDFLAGS = -lnetcdf " \
	"AR = ar" \
	"NM = nm -p" \
	"RANLIB = touch" \
	"SHLD = x86_64-pc-linux-gnu-gcc -shared -shared" \
	"SHXXLD = x86_64-pc-linux-gnu-g++ -shared -shared"
make[1]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins'
make -C molfile_plugin dynlibs
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molfile_plugin'
mkdir -p ../compile/lib_LINUX/molfile
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/abinitplugin.c -fPIC -o../compile/lib_LINUX/molfile/abinitplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/biomoccaplugin.C -fPIC -o../compile/lib_LINUX/molfile/biomoccaplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/cpmdplugin.c -fPIC -o../compile/lib_LINUX/molfile/cpmdplugin.o
Building Molecule File Reader plugins
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/psfplugin.c -fPIC -o../compile/lib_LINUX/molfile/psfplugin.o
src/cpmdplugin.c: In function 'open_cpmd_read':
src/cpmdplugin.c:52:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/cpmdplugin.c:66:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/pdbplugin.c -fPIC -o../compile/lib_LINUX/molfile/pdbplugin.o
src/abinitplugin.c: In function 'DEN_read_volumetric_data':
src/abinitplugin.c:965:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/abinitplugin.c:966:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/abinitplugin.c: In function 'POT_read_volumetric_data':
src/abinitplugin.c:1108:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/abinitplugin.c:1109:10: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/abinitplugin.c: In function 'abinit_header':
src/abinitplugin.c:1506:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/abinitplugin.c: In function 'GEO_read_next_timestep':
src/abinitplugin.c:614:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/dcdplugin.c -fPIC -o../compile/lib_LINUX/molfile/dcdplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/babelplugin.c -fPIC -o../compile/lib_LINUX/molfile/babelplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/gromacsplugin.C -fPIC -o../compile/lib_LINUX/molfile/gromacsplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/parmplugin.C -fPIC -o../compile/lib_LINUX/molfile/parmplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/crdplugin.c -fPIC -o../compile/lib_LINUX/molfile/crdplugin.o
src/babelplugin.c: In function 'open_babel_read':
src/babelplugin.c:389:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result
src/babelplugin.c:431:13: warning: ignoring return value of 'system', declared with attribute warn_unused_result
src/babelplugin.c: In function 'delete_all':
src/babelplugin.c:129:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/namdbinplugin.c -fPIC -o../compile/lib_LINUX/molfile/namdbinplugin.o
src/Gromacs.h: In function 'int mdio_readline(md_file*, char*, int, int)':
src/Gromacs.h:426:22: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM.h: In member function 'int<unnamed>::ReadPARM::readparm(FILE*)':
src/ReadPARM.h:435:51: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:444:43: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:510:46: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:517:47: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:524:46: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:531:47: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:538:46: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:545:46: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:552:49: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:559:49: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:567:47: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:575:47: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:756:48: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:763:47: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:771:40: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:854:46: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM.h:869:40: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/binposplugin.c -fPIC -o../compile/lib_LINUX/molfile/binposplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/graspplugin.C -fPIC -o../compile/lib_LINUX/molfile/graspplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/msmsplugin.C -fPIC -o../compile/lib_LINUX/molfile/msmsplugin.o
src/namdbinplugin.c: In function 'write_timestep':
src/namdbinplugin.c:177:9: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
src/namdbinplugin.c: In function 'open_namdbin_read':
src/namdbinplugin.c:65:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/stlplugin.C -fPIC -o../compile/lib_LINUX/molfile/stlplugin.o
src/binposplugin.c: In function 'write_timestep':
src/binposplugin.c:190:9: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
src/binposplugin.c: In function 'open_binpos_write':
src/binposplugin.c:173:9: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
src/binposplugin.c: In function 'open_binpos_read':
src/binposplugin.c:59:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/binposplugin.c:67:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result
src/graspplugin.C: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)':
src/graspplugin.C:279:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:280:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:286:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:300:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:301:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:302:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:306:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:308:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:313:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:314:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:315:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:323:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:324:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:325:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:349:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:350:50: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:351:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:352:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:353:50: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:354:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:355:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:356:50: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:357:29: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:366:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:367:57: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:368:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:369:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:370:56: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:389:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:390:60: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:391:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:392:31: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C:393:56: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/graspplugin.C: In function 'void line3(FILE*, GRASSP*)':
src/graspplugin.C:181:30: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/cubeplugin.C -fPIC -o../compile/lib_LINUX/molfile/cubeplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/edmplugin.C -fPIC -o../compile/lib_LINUX/molfile/edmplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/ccp4plugin.C -fPIC -o../compile/lib_LINUX/molfile/ccp4plugin.o
src/edmplugin.C: In function 'int read_edm_data(void*, int, float*, float*)':
src/edmplugin.C:265:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/edmplugin.C: In function 'void eatline(FILE*)':
src/edmplugin.C:39:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/dsn6plugin.C -fPIC -o../compile/lib_LINUX/molfile/dsn6plugin.o
src/cubeplugin.C: In function 'void* open_cube_read(const char*, const char*, int*)':
src/cubeplugin.C:176:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/cubeplugin.C:346:41: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/cubeplugin.C:351:35: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/cubeplugin.C: In function 'void eatline(FILE*)':
src/cubeplugin.C:136:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/brixplugin.C -fPIC -o../compile/lib_LINUX/molfile/brixplugin.o
src/stlplugin.C: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)':
src/stlplugin.C:91:28: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:100:28: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:119:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:135:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:155:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:165:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/stlplugin.C:175:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/pltplugin.C -fPIC -o../compile/lib_LINUX/molfile/pltplugin.o
src/ccp4plugin.C: In function 'void* open_ccp4_read(const char*, const char*, int*)':
src/ccp4plugin.C:178:29: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/raster3dplugin.C -fPIC -o../compile/lib_LINUX/molfile/raster3dplugin.o
src/brixplugin.C: In function 'int read_brix_data(void*, int, float*, float*)':
src/brixplugin.C:242:44: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/brixplugin.C: In function 'void* open_brix_read(const char*, const char*, int*)':
src/brixplugin.C:74:29: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:81:62: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:88:62: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:95:65: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:105:74: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:118:39: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:123:39: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/brixplugin.C:130:40: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/parm7plugin.C -fPIC -o../compile/lib_LINUX/molfile/parm7plugin.o
src/dsn6plugin.C: In function 'int read_dsn6_data(void*, int, float*, float*)':
src/dsn6plugin.C:228:44: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/dsn6plugin.C: In function 'void* open_dsn6_read(const char*, const char*, int*)':
src/dsn6plugin.C:86:43: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/rst7plugin.c -fPIC -o../compile/lib_LINUX/molfile/rst7plugin.o
src/pltplugin.C: In function 'void* open_plt_read(const char*, const char*, int*)':
src/pltplugin.C:64:39: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/pltplugin.C:77:43: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/tinkerplugin.c -fPIC -o../compile/lib_LINUX/molfile/tinkerplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/uhbdplugin.C -fPIC -o../compile/lib_LINUX/molfile/uhbdplugin.o
src/parm7plugin.C: In function 'int read_parm7_structure(void*, int*, molfile_atom_t*)':
src/parm7plugin.C:71:30: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'int parse_parm7_atoms(const char*, int, molfile_atom_t*, FILE*)':
src/ReadPARM7.h:202:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'int parse_parm7_atype(const char*, int, molfile_atom_t*, FILE*)':
src/ReadPARM7.h:254:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'int parse_parm7_resnames(const char*, int, char*, FILE*)':
src/ReadPARM7.h:272:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'int parse_parm7_respointers(const char*, int, molfile_atom_t*, int, const char*, FILE*)':
src/ReadPARM7.h:286:28: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'parmstruct* read_parm7_header(FILE*)':
src/ReadPARM7.h:365:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h:379:46: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h:407:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/ReadPARM7.h:422:35: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h:426:34: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h:429:48: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h:431:36: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h: In function 'int read_parm7_flag(FILE*, const char*, const char*)':
src/ReadPARM7.h:78:28: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h:86:28: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
src/ReadPARM7.h:96:28: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspchgcarplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspchgcarplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspparchgplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspparchgplugin.o
src/rst7plugin.c: In function 'open_rst_read':
src/rst7plugin.c:52:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/rst7plugin.c:55:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspposcarplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspposcarplugin.o
src/uhbdplugin.C: In function 'char* uhbdgets(char*, int, FILE*, const char*)':
src/uhbdplugin.C:61:15: warning: format not a string literal and no format arguments
src/uhbdplugin.C:65:15: warning: format not a string literal and no format arguments
src/uhbdplugin.C:71:17: warning: format not a string literal and no format arguments
src/uhbdplugin.C: In function 'void* open_uhbd_read(const char*, const char*, int*)':
src/uhbdplugin.C:97:41: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspoutcarplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspoutcarplugin.o
src/vaspchgcarplugin.c: In function 'read_vaspchgcar_data':
src/vaspchgcarplugin.c:232:65: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:277:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c: In function 'read_vaspchgcar_metadata':
src/vaspchgcarplugin.c:145:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c: In function 'open_vaspchgcar_read':
src/vaspchgcarplugin.c:66:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:70:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:76:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:87:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:98:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspchgcarplugin.c:126:49: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspxdatcarplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspxdatcarplugin.o
src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_timestep':
src/vaspxdatcarplugin.c:278:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c: In function 'read_vaspxdatcar_structure':
src/vaspxdatcarplugin.c:223:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:228:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:232:36: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:247:49: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c: In function 'open_vaspxdatcar_read':
src/vaspxdatcarplugin.c:84:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:87:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:92:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:106:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxdatcarplugin.c:116:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vaspxmlplugin.c -fPIC -o../compile/lib_LINUX/molfile/vaspxmlplugin.o
src/vaspparchgplugin.c: In function 'read_vaspparchg_data':
src/vaspparchgplugin.c:233:65: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c: In function 'read_vaspparchg_metadata':
src/vaspparchgplugin.c:145:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c: In function 'open_vaspparchg_read':
src/vaspparchgplugin.c:66:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c:70:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c:76:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c:87:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c:98:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspparchgplugin.c:126:49: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/dlpolyplugin.c -fPIC -o../compile/lib_LINUX/molfile/dlpolyplugin.o
src/vaspoutcarplugin.c: In function 'read_vaspoutcar_timestep':
src/vaspoutcarplugin.c:234:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspoutcarplugin.c:237:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspoutcarplugin.c: In function 'read_vaspoutcar_structure':
src/vaspoutcarplugin.c:199:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspoutcarplugin.c: In function 'open_vaspoutcar_read':
src/vaspoutcarplugin.c:82:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/lammpsplugin.c -fPIC -o../compile/lib_LINUX/molfile/lammpsplugin.o
src/vaspposcarplugin.c: In function 'read_vaspposcar_timestep':
src/vaspposcarplugin.c:226:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:231:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:240:48: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:243:327: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:250:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c: In function 'read_vaspposcar_structure':
src/vaspposcarplugin.c:189:47: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:192:326: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:197:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c: In function 'open_vaspposcar_read':
src/vaspposcarplugin.c:64:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:68:32: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspposcarplugin.c:81:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/vtfplugin.c -fPIC -o../compile/lib_LINUX/molfile/vtfplugin.o
src/vaspxmlplugin.c: In function 'read_vaspxml_structure':
src/vaspxmlplugin.c:134:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxmlplugin.c:139:14: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxmlplugin.c: In function 'open_vaspxml_read':
src/vaspxmlplugin.c:81:13: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/vaspxmlplugin.c:87:13: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/xyzplugin.c -fPIC -o../compile/lib_LINUX/molfile/xyzplugin.o
src/dlpolyplugin.c: In function 'read_dlpoly_timestep':
src/dlpolyplugin.c:413:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/corplugin.c -fPIC -o../compile/lib_LINUX/molfile/corplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/moldenplugin.c -fPIC -o../compile/lib_LINUX/molfile/moldenplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/phiplugin.C -fPIC -o../compile/lib_LINUX/molfile/phiplugin.o
src/vtfplugin.c: In function 'vtf_error':
src/vtfplugin.c:90:5: warning: format not a string literal and no format arguments
src/vtfplugin.c: In function 'vtf_parse_atom':
src/vtfplugin.c:229:7: warning: format '%16s' expects type 'char *', but argument 3 has type 'char (*)[16]'
src/vtfplugin.c:238:7: warning: format '%16s' expects type 'char *', but argument 3 has type 'char (*)[16]'
src/vtfplugin.c:264:2: warning: format '%8s' expects type 'char *', but argument 3 has type 'char (*)[8]'
src/vtfplugin.c:279:7: warning: format '%8s' expects type 'char *', but argument 3 has type 'char (*)[8]'
src/vtfplugin.c:288:7: warning: format '%2s' expects type 'char *', but argument 3 has type 'char (*)[2]'
src/vtfplugin.c:300:2: warning: format '%2s' expects type 'char *', but argument 3 has type 'char (*)[2]'
src/vtfplugin.c:334:2: warning: format '%2s' expects type 'char *', but argument 3 has type 'char (*)[2]'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/pbeqplugin.C -fPIC -o../compile/lib_LINUX/molfile/pbeqplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/grdplugin.C -fPIC -o../compile/lib_LINUX/molfile/grdplugin.o
src/moldenplugin.c: In function 'eatline':
src/qmplugin.h:835:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/moldenplugin.c: In function 'open_molden_read':
src/moldenplugin.c:202:17: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/situsplugin.C -fPIC -o../compile/lib_LINUX/molfile/situsplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/dxplugin.C -fPIC -o../compile/lib_LINUX/molfile/dxplugin.o
src/pbeqplugin.C: In function 'int read_pbeq_data(void*, int, float*, float*)':
src/pbeqplugin.C:257:55: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/spiderplugin.C -fPIC -o../compile/lib_LINUX/molfile/spiderplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/mapplugin.C -fPIC -o../compile/lib_LINUX/molfile/mapplugin.o
src/dxplugin.C: In function 'int write_dx_data(void*, molfile_volumetric_t*, float*, float*)':
src/dxplugin.C:413:35: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/avsplugin.C -fPIC -o../compile/lib_LINUX/molfile/avsplugin.o
src/spiderplugin.C: In function 'int read_spider_data(void*, int, float*, float*)':
src/spiderplugin.C:281:49: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/fs4plugin.C -fPIC -o../compile/lib_LINUX/molfile/fs4plugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/pqrplugin.c -fPIC -o../compile/lib_LINUX/molfile/pqrplugin.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/mol2plugin.C -fPIC -o../compile/lib_LINUX/molfile/mol2plugin.o
src/fs4plugin.C: In function 'void* open_fs4_read(const char*, const char*, int*)':
src/fs4plugin.C:74:40: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/gridplugin.C -fPIC -o../compile/lib_LINUX/molfile/gridplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/carplugin.c -fPIC -o../compile/lib_LINUX/molfile/carplugin.o
src/mol2plugin.C: In function 'int read_mol2_timestep(void*, int, molfile_timestep_t*)':
src/mol2plugin.C:270:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:284:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C: In function 'int read_mol2_bonds_aux(void*, int*, int**, int**, float**)':
src/mol2plugin.C:194:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:204:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C: In function 'int read_mol2(void*, int*, molfile_atom_t*)':
src/mol2plugin.C:122:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:133:33: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C: In function 'void* open_mol2_read(const char*, const char*, int*)':
src/mol2plugin.C:69:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:76:23: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:77:23: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:86:23: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mol2plugin.C:87:23: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/mdfplugin.C -fPIC -o../compile/lib_LINUX/molfile/mdfplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/gamessplugin.c -fPIC -o../compile/lib_LINUX/molfile/gamessplugin.o
src/carplugin.c: In function 'read_car_timestep':
src/carplugin.c:321:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:334:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:339:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:344:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:358:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:368:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c: In function 'read_car_structure':
src/carplugin.c:261:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:263:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:267:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:290:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:300:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c: In function 'open_car_read':
src/carplugin.c:164:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:174:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:177:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:205:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:208:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:219:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:221:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:225:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:229:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/carplugin.c:240:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/xsfplugin.C -fPIC -o../compile/lib_LINUX/molfile/xsfplugin.o
src/mdfplugin.C: In function 'int read_mdf_bonds(void*, int*, int**, int**, float**, int**, int*, char***)':
src/mdfplugin.C:275:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:294:34: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:316:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:354:34: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C: In function 'int read_mdf_structure(void*, int*, molfile_atom_t*)':
src/mdfplugin.C:220:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:238:34: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C: In function 'void* open_mdf_read(const char*, const char*, int*)':
src/mdfplugin.C:161:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:173:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/mdfplugin.C:180:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/bgfplugin.C -fPIC -o../compile/lib_LINUX/molfile/bgfplugin.o
src/gridplugin.C: In function 'void* open_grid_read(const char*, const char*, int*)':
src/gridplugin.C:79:40: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/xbgfplugin.C -fPIC -o../compile/lib_LINUX/molfile/xbgfplugin.o
src/gamessplugin.c: In function 'eatline':
src/qmplugin.h:835:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/jsplugin.c -fPIC -o../compile/lib_LINUX/molfile/jsplugin.o
src/xsfplugin.C: In function 'void eatline(FILE*)':
src/xsfplugin.C:229:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C: In function 'void* open_xsf_read(const char*, const char*, int*)':
src/xsfplugin.C:400:37: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:434:43: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:436:43: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:438:43: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:440:43: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:442:43: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:462:45: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xsfplugin.C:499:39: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/dtrplugin.cxx -fPIC -o../compile/lib_LINUX/molfile/dtrplugin.o
src/bgfplugin.C: In function 'int read_bgf_timestep(void*, int, molfile_timestep_t*)':
src/bgfplugin.C:238:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C:247:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C: In function 'int read_bgf_bonds_aux(void*, int*, int**, int**, float**)':
src/bgfplugin.C:323:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C:341:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C:350:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C:414:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C: In function 'int read_bgf_structure(void*, int*, molfile_atom_t*)':
src/bgfplugin.C:189:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C:198:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/bgfplugin.C: In function 'void* open_bgf_read(const char*, const char*, int*)':
src/bgfplugin.C:54:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/maeffplugin.cxx -fPIC -o../compile/lib_LINUX/molfile/maeffplugin.o
src/xbgfplugin.C: In function 'int read_xbgf_timestep(void*, int, molfile_timestep_t*)':
src/xbgfplugin.C:283:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C:292:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C: In function 'int read_xbgf_bonds_aux(void*, int*, int**, int**, float**)':
src/xbgfplugin.C:360:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C:382:30: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C:390:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C:450:36: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C: In function 'int read_xbgf_structure(void*, int*, molfile_atom_t*)':
src/xbgfplugin.C:236:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C:245:32: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/xbgfplugin.C: In function 'void* open_xbgf_read(const char*, const char*, int*)':
src/xbgfplugin.C:67:25: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I../include -Isrc -c src/basissetplugin.c -fPIC -o../compile/lib_LINUX/molfile/basissetplugin.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer  -I/usr/include -I../include -Isrc -c src/webpdbplugin.c -fPIC -o../compile/lib_LINUX/molfile/webpdbplugin.o
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/abinitplugin.so ../compile/lib_LINUX/molfile/abinitplugin.o -Wl,-O1 -Wl,--as-needed
src/maeffplugin.cxx: In function 'int<unnamed>::write_timestep(void*, const molfile_timestep_t*)':
src/maeffplugin.cxx:1968:31: warning: format not a string literal and no format arguments
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/biomoccaplugin.so ../compile/lib_LINUX/molfile/biomoccaplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/cpmdplugin.so ../compile/lib_LINUX/molfile/cpmdplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/psfplugin.so ../compile/lib_LINUX/molfile/psfplugin.o -Wl,-O1 -Wl,--as-needed
src/dtrplugin.cxx: In destructor 'desres::molfile::DtrWriter::~DtrWriter()':
src/dtrplugin.cxx:1935:56: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/dtrplugin.cxx:1936:64: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
src/dtrplugin.cxx: In member function 'bool desres::molfile::DtrWriter::init(const std::string&)':
src/dtrplugin.cxx:1679:37: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/pdbplugin.so ../compile/lib_LINUX/molfile/pdbplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/dcdplugin.so ../compile/lib_LINUX/molfile/dcdplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/babelplugin.so ../compile/lib_LINUX/molfile/babelplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/gromacsplugin.so ../compile/lib_LINUX/molfile/gromacsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/parmplugin.so ../compile/lib_LINUX/molfile/parmplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/crdplugin.so ../compile/lib_LINUX/molfile/crdplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/namdbinplugin.so ../compile/lib_LINUX/molfile/namdbinplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/binposplugin.so ../compile/lib_LINUX/molfile/binposplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/graspplugin.so ../compile/lib_LINUX/molfile/graspplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/msmsplugin.so ../compile/lib_LINUX/molfile/msmsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/stlplugin.so ../compile/lib_LINUX/molfile/stlplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/cubeplugin.so ../compile/lib_LINUX/molfile/cubeplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/edmplugin.so ../compile/lib_LINUX/molfile/edmplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/ccp4plugin.so ../compile/lib_LINUX/molfile/ccp4plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/dsn6plugin.so ../compile/lib_LINUX/molfile/dsn6plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/brixplugin.so ../compile/lib_LINUX/molfile/brixplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/pltplugin.so ../compile/lib_LINUX/molfile/pltplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/raster3dplugin.so ../compile/lib_LINUX/molfile/raster3dplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/parm7plugin.so ../compile/lib_LINUX/molfile/parm7plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/rst7plugin.so ../compile/lib_LINUX/molfile/rst7plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/tinkerplugin.so ../compile/lib_LINUX/molfile/tinkerplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/uhbdplugin.so ../compile/lib_LINUX/molfile/uhbdplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspchgcarplugin.so ../compile/lib_LINUX/molfile/vaspchgcarplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspparchgplugin.so ../compile/lib_LINUX/molfile/vaspparchgplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspposcarplugin.so ../compile/lib_LINUX/molfile/vaspposcarplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspoutcarplugin.so ../compile/lib_LINUX/molfile/vaspoutcarplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspxdatcarplugin.so ../compile/lib_LINUX/molfile/vaspxdatcarplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vaspxmlplugin.so ../compile/lib_LINUX/molfile/vaspxmlplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/dlpolyplugin.so ../compile/lib_LINUX/molfile/dlpolyplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/lammpsplugin.so ../compile/lib_LINUX/molfile/lammpsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/vtfplugin.so ../compile/lib_LINUX/molfile/vtfplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/xyzplugin.so ../compile/lib_LINUX/molfile/xyzplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/corplugin.so ../compile/lib_LINUX/molfile/corplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/moldenplugin.so ../compile/lib_LINUX/molfile/moldenplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/phiplugin.so ../compile/lib_LINUX/molfile/phiplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/pbeqplugin.so ../compile/lib_LINUX/molfile/pbeqplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/grdplugin.so ../compile/lib_LINUX/molfile/grdplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/situsplugin.so ../compile/lib_LINUX/molfile/situsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/dxplugin.so ../compile/lib_LINUX/molfile/dxplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/spiderplugin.so ../compile/lib_LINUX/molfile/spiderplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/mapplugin.so ../compile/lib_LINUX/molfile/mapplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/avsplugin.so ../compile/lib_LINUX/molfile/avsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/fs4plugin.so ../compile/lib_LINUX/molfile/fs4plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/pqrplugin.so ../compile/lib_LINUX/molfile/pqrplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/mol2plugin.so ../compile/lib_LINUX/molfile/mol2plugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/gridplugin.so ../compile/lib_LINUX/molfile/gridplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/carplugin.so ../compile/lib_LINUX/molfile/carplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/mdfplugin.so ../compile/lib_LINUX/molfile/mdfplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/gamessplugin.so ../compile/lib_LINUX/molfile/gamessplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/xsfplugin.so ../compile/lib_LINUX/molfile/xsfplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/bgfplugin.so ../compile/lib_LINUX/molfile/bgfplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/xbgfplugin.so ../compile/lib_LINUX/molfile/xbgfplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/jsplugin.so ../compile/lib_LINUX/molfile/jsplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/dtrplugin.so ../compile/lib_LINUX/molfile/dtrplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/maeffplugin.so ../compile/lib_LINUX/molfile/maeffplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/basissetplugin.so ../compile/lib_LINUX/molfile/basissetplugin.o -Wl,-O1 -Wl,--as-needed
x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/molfile/webpdbplugin.so ../compile/lib_LINUX/molfile/webpdbplugin.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molfile_plugin'
for dir in apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb gofrgui hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot psfgen qmtool ramaplot readcharmmpar readcharmmtop resptool rnaview rmsd rmsdtt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do make -C $dir dynlibs; done
for dir in apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb gofrgui hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot psfgen qmtool ramaplot readcharmmpar readcharmmtop resptool rnaview rmsd rmsdtt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do make -C $dir bins; done
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/apbsrun'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/apbsrun'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/apbsrun'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/apbsrun'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/atomedit'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/atomedit'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/atomedit'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/atomedit'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoimd'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoimd'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoimd'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoimd'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoionize'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoionize'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoionize'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autoionize'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autopsf'
mkdir -p ../compile/lib_LINUX/tcl/autopsf1.3
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfatom.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfatom.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfcheck.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfcheck.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfreslist.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfreslist.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autopsf'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autopsf'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/bignum'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/bignum'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/biocore'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/biocore'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/catdcd'
mkdir -p ../compile/lib_LINUX/bin/catdcd4.0
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfres.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfres.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./hash.c -fPIC -o../compile/lib_LINUX/bin/catdcd4.0/hash.o
src/psfcheck.C: In function 'PsfRes* addTopRes(char*, FILE*, FILE*)':
src/psfcheck.C:36:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
src/psfcheck.C:54:27: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psftype.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psftype.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psftypelist.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psftypelist.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfbond.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfbond.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./catdcd.c -fPIC -o../compile/lib_LINUX/bin/catdcd4.0/catdcd.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/psfatomlist.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfatomlist.o
make[2]: *** No rule to make target `../compile/lib_LINUX/molfile/libmolfile_plugin.a', needed by `../compile/lib_LINUX/bin/catdcd4.0/catdcd'.  Stop.
make[2]: *** Waiting for unfinished jobs....
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -I../molfile_plugin/src -c src/psfcheck_wrap.C -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfcheck_wrap.o
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfcheck.so ../compile/lib_LINUX/tcl/autopsf1.3/psfatom.o ../compile/lib_LINUX/tcl/autopsf1.3/psfcheck.o ../compile/lib_LINUX/tcl/autopsf1.3/psfreslist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfres.o ../compile/lib_LINUX/tcl/autopsf1.3/psftype.o ../compile/lib_LINUX/tcl/autopsf1.3/psftypelist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfbond.o ../compile/lib_LINUX/tcl/autopsf1.3/psfatomlist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfcheck_wrap.o -L/usr/lib64 -ltcl -ldl; \
	else x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/autopsf1.3/psfcheck.so ../compile/lib_LINUX/tcl/autopsf1.3/psfatom.o ../compile/lib_LINUX/tcl/autopsf1.3/psfcheck.o ../compile/lib_LINUX/tcl/autopsf1.3/psfreslist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfres.o ../compile/lib_LINUX/tcl/autopsf1.3/psftype.o ../compile/lib_LINUX/tcl/autopsf1.3/psftypelist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfbond.o ../compile/lib_LINUX/tcl/autopsf1.3/psfatomlist.o ../compile/lib_LINUX/tcl/autopsf1.3/psfcheck_wrap.o -L/usr/lib64 -ltcl -ldl; \
	fi
./catdcd.c:17:31: fatal error: libmolfile_plugin.h: No such file or directory
compilation terminated.
make[2]: *** [../compile/lib_LINUX/bin/catdcd4.0/catdcd.o] Error 1
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/catdcd'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cgtools'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cgtools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/chirality'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/chirality'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cionize'
mkdir -p ../compile/lib_LINUX/bin/cionize1.0
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./hash.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/hash.o
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./threads.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/threads.o
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./util.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/util.o
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./getplugins.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/getplugins.o
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./cionize_gridio.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/cionize_gridio.o
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./cionize_molfileio.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/cionize_molfileio.o
./cionize_gridio.c: In function 'read_grid':
./cionize_gridio.c:186:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:189:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:200:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:201:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:202:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:203:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:207:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c:212:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
./cionize_gridio.c: In function 'write_grid_dx':
./cionize_gridio.c:66:25: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc  -march=nocona -O2 -pipe -fomit-frame-pointer -I. -I../include -I../compile/lib_LINUX/molfile -c ./cionize_internals.c -fPIC -o../compile/lib_LINUX/bin/cionize1.0/cionize_internals.o
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/autopsf'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/bignum'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/bignum'
In file included from ./getplugins.c:6:0:
./getplugins.h:13:31: fatal error: libmolfile_plugin.h: No such file or directory
compilation terminated.
make[2]: *** [../compile/lib_LINUX/bin/cionize1.0/getplugins.o] Error 1
make[2]: *** Waiting for unfinished jobs....
In file included from ./cionize_molfileio.c:2:0:
./getplugins.h:13:31: fatal error: libmolfile_plugin.h: No such file or directory
compilation terminated.
In file included from ./cionize_internals.c:1:0:
./cionize_structs.h:4:31: fatal error: libmolfile_plugin.h: No such file or directory
compilation terminated.
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/biocore'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/biocore'
make[2]: *** [../compile/lib_LINUX/bin/cionize1.0/cionize_molfileio.o] Error 1
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/catdcd'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/catdcd'
make[2]: *** [../compile/lib_LINUX/bin/cionize1.0/cionize_internals.o] Error 1
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cionize'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cgtools'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cgtools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cispeptide'
make[2]: Nothing to be done for `bins'.
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/chirality'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cispeptide'
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/chirality'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cionize'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cionize'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cliptool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cliptool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cispeptide'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cispeptide'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clonerep'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clonerep'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cliptool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/cliptool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/colorscalebar'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/colorscalebar'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/contactmap'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clonerep'
make[2]: Nothing to be done for `bins'.
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/contactmap'
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clonerep'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dataimport'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dataimport'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/colorscalebar'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/colorscalebar'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/demomaster'
make[2]: Nothing to be done for `bins'.
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/contactmap'
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/demomaster'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/contactmap'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dipwatch'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dipwatch'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dataimport'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dataimport'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dowser'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dowser'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/demomaster'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/demomaster'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/exectool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/exectool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dipwatch'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dipwatch'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/extendedpdb'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/extendedpdb'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dowser'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/dowser'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/gofrgui'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/gofrgui'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/exectool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/exectool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hbonds'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hbonds'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/extendedpdb'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/extendedpdb'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hesstrans'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hesstrans'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/gofrgui'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/gofrgui'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/idatm'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/idatm'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hbonds'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hbonds'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ilstools'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ilstools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hesstrans'
mkdir -p ../compile/lib_LINUX/tcl/hesstrans1.0
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat1.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat1.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat2.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat2.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/imdmenu'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/imdmenu'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat3.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat3.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/inorganicbuilder'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/inorganicbuilder'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/irspecgui'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/irspecgui'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat4.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat4.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mdff'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mdff'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat5.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat5.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/membrane'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/membrane'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat6.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat6.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mergestructs'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mergestructs'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat7.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat7.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molefacture'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molefacture'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat8.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat8.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmat9.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmat9.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/moltoptools'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/moltoptools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multimolanim'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multimolanim'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiplot'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiplot'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmatex.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmatex.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multitext'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multitext'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mutator'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mutator'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/bandmat.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/bandmat.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdenergy'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdenergy'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdgui'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdgui'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/submat.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/submat.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdplot'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdplot'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdserver'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdserver'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/nanotube'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/nanotube'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/myexcept.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/myexcept.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navfly'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navfly'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navigate'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navigate'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/cholesky.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/cholesky.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/optimization'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/optimization'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/palettetool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/palettetool'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/evalue.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/evalue.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/paratool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/paratool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/parsefep'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/parsefep'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/fft.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/fft.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pbctools'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pbctools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pdbtool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pdbtool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/plumed'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/plumed'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/hholder.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/hholder.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pmepot'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pmepot'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psfgen'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psfgen'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/qmtool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/qmtool'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/jacobi.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/jacobi.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newfft.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newfft.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ramaplot'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ramaplot'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmpar'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmpar'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmtop'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmtop'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/resptool'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/resptool'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/sort.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/sort.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rnaview'
mkdir -p ../compile/lib_LINUX/tcl/rnaview1.1
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/analyze.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/analyze.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/svd.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/svd.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/newmatrm.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/newmatrm.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -I../molfile_plugin/src -c src/hesstrans_wrap.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans_wrap.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../molfile_plugin/src -c src/hesstrans.C -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans.o
src/analyze.c: In function 'bp_analyze':
src/analyze.c:117:5: warning: format '%4d' expects type 'int', but argument 2 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/fpair.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/fpair.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/fpair_sub.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/fpair_sub.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/multiple.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/multiple.o
src/hesstrans_wrap.C:1094:25: warning: deprecated conversion from string constant to 'char*'
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans.so ../compile/lib_LINUX/tcl/hesstrans1.0/newmat1.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat2.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat3.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat4.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat5.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat6.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat7.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat8.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat9.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmatex.o ../compile/lib_LINUX/tcl/hesstrans1.0/bandmat.o ../compile/lib_LINUX/tcl/hesstrans1.0/submat.o ../compile/lib_LINUX/tcl/hesstrans1.0/myexcept.o ../compile/lib_LINUX/tcl/hesstrans1.0/cholesky.o ../compile/lib_LINUX/tcl/hesstrans1.0/evalue.o ../compile/lib_LINUX/tcl/hesstrans1.0/fft.o ../compile/lib_LINUX/tcl/hesstrans1.0/hholder.o ../compile/lib_LINUX/tcl/hesstrans1.0/jacobi.o ../compile/lib_LINUX/tcl/hesstrans1.0/newfft.o ../compile/lib_LINUX/tcl/hesstrans1.0/sort.o ../compile/lib_LINUX/tcl/hesstrans1.0/svd.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmatrm.o ../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans_wrap.o ../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans.so ../compile/lib_LINUX/tcl/hesstrans1.0/newmat1.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat2.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat3.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat4.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat5.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat6.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat7.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat8.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmat9.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmatex.o ../compile/lib_LINUX/tcl/hesstrans1.0/bandmat.o ../compile/lib_LINUX/tcl/hesstrans1.0/submat.o ../compile/lib_LINUX/tcl/hesstrans1.0/myexcept.o ../compile/lib_LINUX/tcl/hesstrans1.0/cholesky.o ../compile/lib_LINUX/tcl/hesstrans1.0/evalue.o ../compile/lib_LINUX/tcl/hesstrans1.0/fft.o ../compile/lib_LINUX/tcl/hesstrans1.0/hholder.o ../compile/lib_LINUX/tcl/hesstrans1.0/jacobi.o ../compile/lib_LINUX/tcl/hesstrans1.0/newfft.o ../compile/lib_LINUX/tcl/hesstrans1.0/sort.o ../compile/lib_LINUX/tcl/hesstrans1.0/svd.o ../compile/lib_LINUX/tcl/hesstrans1.0/newmatrm.o ../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans_wrap.o ../compile/lib_LINUX/tcl/hesstrans1.0/hesstrans.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/nrutil.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/nrutil.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pair_type.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/pair_type.o
src/fpair.c: In function 'all_pairs':
src/fpair.c:139:17: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/fpair.c:139:17: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/fpair.c:198:29: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:198:29: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:223:37: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:223:37: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:251:37: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:251:37: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:293:29: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:293:29: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:308:25: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/fpair.c:338:17: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/fpair.c:338:17: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/fpair.c:351:33: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:351:33: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:409:33: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:409:33: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:431:33: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:431:33: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c:454:33: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/fpair.c:454:33: warning: format '%5d' expects type 'int', but argument 8 has type 'long int'
src/fpair.c: In function 'write_best_pairs':
src/fpair.c:1332:21: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
src/fpair.c: In function 'single_BB_Hbond':
src/fpair.c:2203:17: warning: format '%5d' expects type 'int', but argument 2 has type 'long int'
src/fpair.c:2203:17: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pattern.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/pattern.o
src/multiple.c: In function 'write_multiplets':
src/multiple.c:101:17: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/multiple.c:101:17: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/ps-xy.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/ps-xy.o
src/ps-xy.c: In function 'process_2d_fig':
src/ps-xy.c:307:12: warning: format '%4d' expects type 'int', but argument 2 has type 'long int'
src/ps-xy.c:307:12: warning: format '%3d' expects type 'int', but argument 3 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/ps-xy-sub.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/ps-xy-sub.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/rnaview.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/rnaview.o
src/pattern.c: In function 'motif':
src/pattern.c:55:9: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/pattern.c:78:17: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/pattern.c: In function 'reorder_patt':
src/pattern.c:551:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/pattern.c:562:17: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/pattern.c: In function 'user_type_patt':
src/pattern.c:820:9: warning: format '%4d' expects type 'int', but argument 4 has type 'long int'
src/pattern.c:821:9: warning: format '%4d' expects type 'int', but argument 2 has type 'long int'
src/pattern.c:821:9: warning: format '%4d' expects type 'int', but argument 4 has type 'long int'
src/pattern.c:920:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/pattern.c: In function 'write_infor':
src/pattern.c:932:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/rnaxml-new.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/rnaxml-new.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/statistics.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/statistics.o
src/rnaview.c: In function 'process_single_file':
src/rnaview.c:135:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c: In function 'process_multiple_file':
src/rnaview.c:252:5: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/rnaview.c:253:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c:254:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c: In function 'extract_nmr_coord':
src/rnaview.c:448:9: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/rnaview.c:476:13: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c: In function 'rna':
src/rnaview.c:706:16: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c:706:16: warning: format '%4d' expects type 'int', but argument 4 has type 'long int'
src/rnaview.c: In function 'work_horse':
src/rnaview.c:833:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c:833:12: warning: format '%4d' expects type 'int', but argument 4 has type 'long int'
src/rnaview.c:835:12: warning: format '%4d' expects type 'int', but argument 2 has type 'long int'
src/rnaview.c:835:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/rnaview.c: In function 'write_tmp_pdb':
src/rnaview.c:1013:21: warning: format '%5d' expects type 'int', but argument 4 has type 'long int'
src/rnaview.c:1013:21: warning: format '%4d' expects type 'int', but argument 8 has type 'long int'
src/rnaview.c: In function 'delete_file':
src/rnaview.c:159:11: warning: ignoring return value of 'system', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/vrml.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/vrml.o
src/rnaxml-new.c: In function 'write_base_pair_int':
src/rnaxml-new.c:252:25: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:260:25: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c: In function 'xml_molecule':
src/rnaxml-new.c:351:5: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:355:5: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:357:5: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:358:5: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:363:5: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:367:9: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/rnaxml-new.c: In function 'write_helix_mol':
src/rnaxml-new.c:558:25: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/rnaxml-new.c:565:25: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/xml2ps.c -fPIC -o../compile/lib_LINUX/tcl/rnaview1.1/xml2ps.o
src/statistics.c: In function 'print_edge_stat':
src/statistics.c:62:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:62:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:62:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:64:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:64:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:64:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:66:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:66:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:66:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:68:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:68:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:68:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:70:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:70:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:70:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:72:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:72:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:72:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:74:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:74:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:74:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:79:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:79:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:79:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:83:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:83:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:83:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:92:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:92:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:92:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:94:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:94:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:94:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:97:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:97:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:97:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:99:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:99:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:99:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:105:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:105:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:105:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:111:12: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:111:12: warning: format '%4d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:111:12: warning: format '%4d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c: In function 'print_statistic':
src/statistics.c:143:5: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:146:5: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:151:9: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:158:9: warning: format '%4d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:183:13: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:190:9: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:198:9: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:228:13: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:235:9: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:250:9: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c: In function 'write_12_family_table':
src/statistics.c:438:17: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:438:17: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:438:17: warning: format '%5d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:438:17: warning: format '%5d' expects type 'int', but argument 9 has type 'long int'
src/statistics.c:440:17: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:440:17: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:440:17: warning: format '%5d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:440:17: warning: format '%5d' expects type 'int', but argument 9 has type 'long int'
src/statistics.c:442:17: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:442:17: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:442:17: warning: format '%5d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:442:17: warning: format '%5d' expects type 'int', but argument 9 has type 'long int'
src/statistics.c:444:17: warning: format '%5d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:444:17: warning: format '%5d' expects type 'int', but argument 5 has type 'long int'
src/statistics.c:444:17: warning: format '%5d' expects type 'int', but argument 7 has type 'long int'
src/statistics.c:444:17: warning: format '%5d' expects type 'int', but argument 9 has type 'long int'
src/statistics.c: In function 'pair_type_statistics':
src/statistics.c:801:9: warning: format '%9d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:805:9: warning: format '%9d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:809:9: warning: format '%9d' expects type 'int', but argument 3 has type 'long int'
src/statistics.c:809:9: warning: format '%9d' expects type 'int', but argument 4 has type 'long int'
src/statistics.c: In function 'write_single_Hbond_stat':
src/statistics.c:984:13: warning: format '%d' expects type 'int *', but argument 3 has type 'long int *'
src/statistics.c:984:13: warning: format '%d' expects type 'int *', but argument 4 has type 'long int *'
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/hesstrans'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/idatm'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/idatm'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ilstools'
make[2]: Nothing to be done for `dynlibs'.
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/imdmenu'
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mdff'
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/membrane'
make[2]: Nothing to be done for `dynlibs'.
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mergestructs'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mergestructs'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molefacture'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/molefacture'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/moltoptools'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/moltoptools'
src/xml2ps.c: In function 'xml2ps':
src/xml2ps.c:153:9: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c:153:9: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/xml2ps.c:153:9: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
src/xml2ps.c:185:5: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c:186:5: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c:187:5: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c: In function 'read_xy_coord':
src/xml2ps.c:849:49: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c:849:49: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/xml2ps.c: In function 'get_sequence':
src/xml2ps.c:1025:33: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
src/xml2ps.c:1025:33: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
src/xml2ps.c: In function 'label_seq_number':
src/xml2ps.c:1617:25: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1621:25: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c: In function 'label_seq':
src/xml2ps.c:1654:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1658:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1662:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1666:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1674:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1678:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1682:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
src/xml2ps.c:1686:21: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
x86_64-pc-linux-gnu-gcc -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/rnaview1.1/analyze.o ../compile/lib_LINUX/tcl/rnaview1.1/fpair.o ../compile/lib_LINUX/tcl/rnaview1.1/fpair_sub.o ../compile/lib_LINUX/tcl/rnaview1.1/multiple.o ../compile/lib_LINUX/tcl/rnaview1.1/nrutil.o ../compile/lib_LINUX/tcl/rnaview1.1/pair_type.o ../compile/lib_LINUX/tcl/rnaview1.1/pattern.o ../compile/lib_LINUX/tcl/rnaview1.1/ps-xy.o ../compile/lib_LINUX/tcl/rnaview1.1/ps-xy-sub.o ../compile/lib_LINUX/tcl/rnaview1.1/rnaview.o ../compile/lib_LINUX/tcl/rnaview1.1/rnaxml-new.o ../compile/lib_LINUX/tcl/rnaview1.1/statistics.o ../compile/lib_LINUX/tcl/rnaview1.1/vrml.o ../compile/lib_LINUX/tcl/rnaview1.1/xml2ps.o  -o ../compile/lib_LINUX/tcl/rnaview1.1/rnaview -lm
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multimolanim'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multimolanim'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiplot'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiplot'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multitext'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multitext'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mutator'
mkdir -p ../compile/lib_LINUX/tcl/mutator1.2
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc  -c src/libalchemify.c -fPIC -o../compile/lib_LINUX/tcl/mutator1.2/libalchemify.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc  -c src/alchemify_tcl_wrap.c -fPIC -o../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl_wrap.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc  -c src/alchemify_tcl.c -fPIC -o../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl.o
src/libalchemify.c: In function 'readPDB':
src/libalchemify.c:47:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/mutator1.2/libalchemify.so ../compile/lib_LINUX/tcl/mutator1.2/libalchemify.o ../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl_wrap.o ../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/mutator1.2/libalchemify.so ../compile/lib_LINUX/tcl/mutator1.2/libalchemify.o ../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl_wrap.o ../compile/lib_LINUX/tcl/mutator1.2/alchemify_tcl.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
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make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/mutator'
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make[2]: Nothing to be done for `bins'.
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdgui'
make[2]: Nothing to be done for `dynlibs'.
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/symmetrytool'
make[2]: Nothing to be done for `bins'.
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/namdplot'
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/timeline'
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make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/topotools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/nanotube'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/nanotube'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/trunctraj'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/trunctraj'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navfly'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navfly'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/utilities'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/utilities'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navigate'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/navigate'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vdna'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vdna'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/optimization'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/optimization'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewchangerender'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewchangerender'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/palettetool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/palettetool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewmaster'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewmaster'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/paratool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/paratool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volmapgui'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volmapgui'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/parsefep'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/parsefep'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volutil'
mkdir -p ../compile/lib_LINUX/tcl/volutil1.3
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/volmap.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/volmap.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pbctools'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pbctools'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/binary_ops.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/binary_ops.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/convolutions.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/convolutions.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pdbtool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pdbtool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/plumed'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/plumed'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pmepot'
mkdir -p ../compile/lib_LINUX/tcl/pmepot1.0
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pmepot.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/pmepot.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/unary_ops.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/unary_ops.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/gridcharges.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/gridcharges.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/recipspace.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/recipspace.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/dxfile.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/dxfile.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/voxels.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/voxels.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/ops.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/ops.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/vec.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/vec.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/hash.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/hash.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pub3dfft.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/pub3dfft.o
src/ops.C: In member function 'virtual char* RegularOps::name()':
src/ops.C:58:10: warning: deprecated conversion from string constant to 'char*'
src/ops.C: In member function 'virtual char* PMFOps::name()':
src/ops.C:65:10: warning: deprecated conversion from string constant to 'char*'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/getplugins.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/getplugins.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/molfile.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/molfile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -D_LINUX -DPMEPOTTCLDLL_EXPORTS -c src/tcl_pmepot.c -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/tcl_pmepot.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/params.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/params.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/main.C -fPIC -o../compile/lib_LINUX/tcl/volutil1.3/main.o
make[2]: *** No rule to make target `../compile/lib_LINUX/molfile/libmolfile_plugin.a', needed by `../compile/lib_LINUX/tcl/volutil1.3/volutil'.  Stop.
make[2]: *** Waiting for unfinished jobs....
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/libpmepot.so ../compile/lib_LINUX/tcl/pmepot1.0/pmepot.o ../compile/lib_LINUX/tcl/pmepot1.0/gridcharges.o ../compile/lib_LINUX/tcl/pmepot1.0/recipspace.o ../compile/lib_LINUX/tcl/pmepot1.0/dxfile.o ../compile/lib_LINUX/tcl/pmepot1.0/pub3dfft.o ../compile/lib_LINUX/tcl/pmepot1.0/tcl_pmepot.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/pmepot1.0/libpmepot.so ../compile/lib_LINUX/tcl/pmepot1.0/pmepot.o ../compile/lib_LINUX/tcl/pmepot1.0/gridcharges.o ../compile/lib_LINUX/tcl/pmepot1.0/recipspace.o ../compile/lib_LINUX/tcl/pmepot1.0/dxfile.o ../compile/lib_LINUX/tcl/pmepot1.0/pub3dfft.o ../compile/lib_LINUX/tcl/pmepot1.0/tcl_pmepot.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
src/getplugins.C:30:31: fatal error: libmolfile_plugin.h: No such file or directory
compilation terminated.
make[2]: *** [../compile/lib_LINUX/tcl/volutil1.3/getplugins.o] Error 1
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volutil'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmddebug'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmddebug'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdmovie'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdmovie'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdtkcon'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdtkcon'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/zoomseq'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/zoomseq'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/blast'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/blast'
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/pmepot'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clustalw'
mkdir -p ../compile/lib_LINUX/tcl/clustalw1.1
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psfgen'
mkdir -p ../compile/lib_LINUX/tcl/psfgen1.4
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/alnscore.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/alnscore.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/charmm_file.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/charmm_file.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/amenu.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/amenu.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/charmm_parse_topo_defs.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/charmm_parse_topo_defs.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/extract_alias.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/extract_alias.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/hash.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/hash.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/hasharray.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/hasharray.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/calcgapcoeff.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/calcgapcoeff.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/memarena.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/memarena.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/pdb_file.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/pdb_file.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/pdb_file_extract.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/pdb_file_extract.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/calcprf1.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/calcprf1.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/psf_file.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/psf_file.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/psf_file_extract.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/psf_file_extract.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/stringhash.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/stringhash.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/calcprf2.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/calcprf2.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/topo_defs.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/topo_defs.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/calctree.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/calctree.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/topo_mol.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/topo_mol.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/topo_mol_output.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_output.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/clustalw.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/clustalw.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -I../include -I../compile/lib_LINUX/molfile -c src/topo_mol_pluginio.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_pluginio.o
src/calctree.c: In function 'create_tree':
src/calctree.c:362:14: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/gcgcheck.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/gcgcheck.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/interface.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/interface.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -I../include -I../compile/lib_LINUX/molfile -D_LINUX -DPSFGENTCLDLL_EXPORTS -c src/tcl_psfgen.c -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/tcl_psfgen.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/malign.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/malign.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pairalign.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/pairalign.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/prfalign.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/prfalign.o
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/libpsfgen.so ../compile/lib_LINUX/tcl/psfgen1.4/charmm_file.o ../compile/lib_LINUX/tcl/psfgen1.4/charmm_parse_topo_defs.o ../compile/lib_LINUX/tcl/psfgen1.4/extract_alias.o ../compile/lib_LINUX/tcl/psfgen1.4/hash.o ../compile/lib_LINUX/tcl/psfgen1.4/hasharray.o ../compile/lib_LINUX/tcl/psfgen1.4/memarena.o ../compile/lib_LINUX/tcl/psfgen1.4/pdb_file.o ../compile/lib_LINUX/tcl/psfgen1.4/pdb_file_extract.o ../compile/lib_LINUX/tcl/psfgen1.4/psf_file.o ../compile/lib_LINUX/tcl/psfgen1.4/psf_file_extract.o ../compile/lib_LINUX/tcl/psfgen1.4/stringhash.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_defs.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_output.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_pluginio.o ../compile/lib_LINUX/tcl/psfgen1.4/tcl_psfgen.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/psfgen1.4/libpsfgen.so ../compile/lib_LINUX/tcl/psfgen1.4/charmm_file.o ../compile/lib_LINUX/tcl/psfgen1.4/charmm_parse_topo_defs.o ../compile/lib_LINUX/tcl/psfgen1.4/extract_alias.o ../compile/lib_LINUX/tcl/psfgen1.4/hash.o ../compile/lib_LINUX/tcl/psfgen1.4/hasharray.o ../compile/lib_LINUX/tcl/psfgen1.4/memarena.o ../compile/lib_LINUX/tcl/psfgen1.4/pdb_file.o ../compile/lib_LINUX/tcl/psfgen1.4/pdb_file_extract.o ../compile/lib_LINUX/tcl/psfgen1.4/psf_file.o ../compile/lib_LINUX/tcl/psfgen1.4/psf_file_extract.o ../compile/lib_LINUX/tcl/psfgen1.4/stringhash.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_defs.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_output.o ../compile/lib_LINUX/tcl/psfgen1.4/topo_mol_pluginio.o ../compile/lib_LINUX/tcl/psfgen1.4/tcl_psfgen.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/random.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/random.o
src/interface.c: In function 'profile_align':
src/interface.c:2772:16: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c:2799:16: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c: In function 'create_parameter_output':
src/interface.c:4293:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c: In function 'get_tree':
src/interface.c:2669:18: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c: In function 'new_sequence_align':
src/interface.c:2436:16: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c: In function 'open_output_file':
src/interface.c:2225:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/interface.c:2234:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/readmat.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/readmat.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/sequence.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/sequence.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/showpair.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/showpair.o
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psfgen'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/trees.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/trees.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/qmtool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/qmtool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ramaplot'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ramaplot'
src/sequence.c: In function 'get_clustal_seq':
src/sequence.c:158:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:163:30: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c: In function 'get_msf_seq':
src/sequence.c:97:30: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c: In function 'get_seq':
src/sequence.c:724:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:752:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:760:9: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:786:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:820:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:824:11: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c: In function 'get_embl_ss':
src/sequence.c:401:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:406:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:425:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:430:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c: In function 'get_rsf_ss':
src/sequence.c:496:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/sequence.c:501:12: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/util.c -fPIC -o../compile/lib_LINUX/tcl/clustalw1.1/util.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmpar'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmpar'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmtop'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/readcharmmtop'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/resptool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/resptool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rnaview'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rnaview'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rmsd'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rmsd'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rmsdtt'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/rmsdtt'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ruler'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ruler'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/runante'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/runante'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/runsqm'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/runsqm'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/saltbr'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/saltbr'
src/util.c: In function 'do_system':
src/util.c:235:9: warning: ignoring return value of 'system', declared with attribute warn_unused_result
src/util.c: In function 'getint':
src/util.c:213:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/util.c: In function 'getreal':
src/util.c:188:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
src/util.c: In function 'getstr':
src/util.c:177:7: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/clustalw1.1/alnscore.o ../compile/lib_LINUX/tcl/clustalw1.1/amenu.o ../compile/lib_LINUX/tcl/clustalw1.1/calcgapcoeff.o ../compile/lib_LINUX/tcl/clustalw1.1/calcprf1.o ../compile/lib_LINUX/tcl/clustalw1.1/calcprf2.o ../compile/lib_LINUX/tcl/clustalw1.1/calctree.o ../compile/lib_LINUX/tcl/clustalw1.1/clustalw.o ../compile/lib_LINUX/tcl/clustalw1.1/gcgcheck.o ../compile/lib_LINUX/tcl/clustalw1.1/interface.o ../compile/lib_LINUX/tcl/clustalw1.1/malign.o ../compile/lib_LINUX/tcl/clustalw1.1/pairalign.o ../compile/lib_LINUX/tcl/clustalw1.1/prfalign.o ../compile/lib_LINUX/tcl/clustalw1.1/random.o ../compile/lib_LINUX/tcl/clustalw1.1/readmat.o ../compile/lib_LINUX/tcl/clustalw1.1/sequence.o ../compile/lib_LINUX/tcl/clustalw1.1/showpair.o ../compile/lib_LINUX/tcl/clustalw1.1/trees.o ../compile/lib_LINUX/tcl/clustalw1.1/util.o -o ../compile/lib_LINUX/tcl/clustalw1.1/clustalw -lm
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/signalproc'
mkdir -p ../compile/lib_LINUX/tcl/signalproc1.1
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/kiss_fft.c -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/kiss_fft.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -D_LINUX -DFFTCMDSTCLDLL_EXPORTS -c src/tcl_fftcmds.c -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/tcl_fftcmds.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/sgsmooth.C -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/sgsmooth.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -D_LINUX -DSGSMOOTHTCLDLL_EXPORTS -c src/tcl_sgsmooth.c -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/tcl_sgsmooth.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/specden.c -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/specden.o
src/sgsmooth.C: In constructor 'float_mat::float_mat(size_t, size_t, double)':
src/sgsmooth.C:135:27: warning: format '%d' expects type 'int', but argument 3 has type 'size_t'
src/sgsmooth.C:135:27: warning: format '%d' expects type 'int', but argument 4 has type 'size_t'
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc -D_LINUX -DSPECDENTCLDLL_EXPORTS -c src/tcl_specden.c -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/tcl_specden.o
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clustalw'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/libbiokit'
mkdir -p ../compile/lib_LINUX/tcl/libbiokit1.1
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/Q.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/Q.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/alignedSequence.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/fftcmds.so ../compile/lib_LINUX/tcl/signalproc1.1/kiss_fft.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/fftcmds.so ../compile/lib_LINUX/tcl/signalproc1.1/kiss_fft.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/sgsmooth.so ../compile/lib_LINUX/tcl/signalproc1.1/sgsmooth.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed  ; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/sgsmooth.so ../compile/lib_LINUX/tcl/signalproc1.1/sgsmooth.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/lib64 -ltcl -ldl  -Wl,-O1 -Wl,--as-needed; \
	fi
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/alignedStructure.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/alphabet.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/alphabetBuilder.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/aminoAcidQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/specden.so ../compile/lib_LINUX/tcl/signalproc1.1/specden.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_specden.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed  ; \
	else x86_64-pc-linux-gnu-gcc -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/signalproc1.1/specden.so ../compile/lib_LINUX/tcl/signalproc1.1/specden.o ../compile/lib_LINUX/tcl/signalproc1.1/tcl_specden.o -L/usr/lib64 -ltcl -ldl  -Wl,-O1 -Wl,--as-needed; \
	fi
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/Atom.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/AtomList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/binaryQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/Contact.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/ContactList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/signalproc'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/solvate'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/solvate'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ssrestraints'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/ssrestraints'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/ContactTools.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/coordinate3D.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/stingtool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/stingtool'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/symmetrytool'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/symmetrytool'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/fastaReader.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/timeline'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/timeline'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/fastaWriter.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/topotools'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/topotools'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/trunctraj'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/trunctraj'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/utilities'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/utilities'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/PointerList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vdna'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vdna'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/PIDTools.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewchangerender'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewchangerender'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewmaster'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/viewmaster'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volmapgui'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volmapgui'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/qTools.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/Residue.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volutil'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/volutil'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/rnaQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmddebug'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmddebug'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdmovie'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdmovie'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/sequence.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdtkcon'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/vmdtkcon'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/zoomseq'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/zoomseq'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/sequenceAlignment.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/structureAlignment.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/blast'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/blast'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clustalw'
make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/clustalw'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/libbiokit'
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -I/usr/include -Isrc/libbiokit -c src/interface/tcl_libbiokit_wrap.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit_wrap.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/interface/tcl_libbiokit.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/sequenceQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/structureAlignment.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/ShortIntList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/structure.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structure.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/symbol.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/sequenceQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/symbolList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/ShortIntList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/typeConvert.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/symbolList.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/pdbReader.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/structureAlignmentReader.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/typeConvert.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o
if [ -n "" ]; \
	then  -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	else x86_64-pc-linux-gnu-g++ -shared -shared -Wl,-O1 -Wl,--as-needed -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_LINUX/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o -L/usr/lib64 -ltcl -ldl -Wl,-O1 -Wl,--as-needed; \
	fi
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/structureQR.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/libbiokit/rmsdTools.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/seqqr.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/seqqr.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/structqr.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/structqr.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/qPair.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/qPair.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/rmsd.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/rmsd.o
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc/libbiokit -c src/utils/percid.cpp -fPIC -o../compile/lib_LINUX/tcl/libbiokit1.1/percid.o
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/Q.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/q -lm
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/seqqr.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/seqqr -lm
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/structqr.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/structqr -lm
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/libbiokit'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseq'
make[2]: Nothing to be done for `dynlibs'.
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x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/qPair.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/qpair -lm
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseqdialog'
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make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/seqedit'
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make[2]: Nothing to be done for `dynlibs'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/stamp'
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/rmsd.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsd -lm
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/libbiokit1.1/percid.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabet.o ../compile/lib_LINUX/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_LINUX/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Atom.o ../compile/lib_LINUX/tcl/libbiokit1.1/AtomList.o ../compile/lib_LINUX/tcl/libbiokit1.1/binaryQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/Contact.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactList.o ../compile/lib_LINUX/tcl/libbiokit1.1/ContactTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_LINUX/tcl/libbiokit1.1/PointerList.o ../compile/lib_LINUX/tcl/libbiokit1.1/PIDTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/qTools.o ../compile/lib_LINUX/tcl/libbiokit1.1/Residue.o ../compile/lib_LINUX/tcl/libbiokit1.1/rnaQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequence.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_LINUX/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_LINUX/tcl/libbiokit1.1/structure.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbol.o ../compile/lib_LINUX/tcl/libbiokit1.1/symbolList.o ../compile/lib_LINUX/tcl/libbiokit1.1/typeConvert.o ../compile/lib_LINUX/tcl/libbiokit1.1/pdbReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_LINUX/tcl/libbiokit1.1/structureQR.o ../compile/lib_LINUX/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_LINUX/tcl/libbiokit1.1/percid -lm
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/libbiokit'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseq'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseq'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseqdialog'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/multiseqdialog'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/phylotree'
mkdir -p ../compile/lib_LINUX/tcl/phylotree1.2
x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/upgmaclu.c -fPIC -o../compile/lib_LINUX/tcl/phylotree1.2/upgmaclu.o
src/upgmaclu.c: In function 'int main(int, char**)':
src/upgmaclu.c:182:30: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/phylotree1.2/upgmaclu.o -o ../compile/lib_LINUX/tcl/phylotree1.2/upgmaclu -lm
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/phylotree'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psipred'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/psipred'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/seqdata'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/seqdata'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/seqedit'
make[2]: Nothing to be done for `bins'.
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/seqedit'
make[2]: Entering directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/stamp'
mkdir -p ../compile/lib_LINUX/tcl/stamp1.2
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/a3to1.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/a3to1.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/aliseq.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/aliseq.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/ccprobcalc.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/ccprobcalc.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/closefile.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/closefile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/count_domain.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/count_domain.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/display_align.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/display_align.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/dosort.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/dosort.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/get_clust.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/get_clust.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/getdomain.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/getdomain.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/getdsspsum.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/getdsspsum.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/getfile.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/getfile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/getks.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/getks.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/getsec.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/getsec.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/gjnoc.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/gjnoc.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/gjutil.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/gjutil.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/idist.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/idist.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/igetca.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/igetca.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/igetcadssp.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/igetcadssp.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/ltou.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/ltou.o
src/gjnoc.c: In function 'read_idents':
src/gjnoc.c:721:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
src/gjnoc.c: In function 'read_up_diag':
src/gjnoc.c:683:19: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
src/gjnoc.c: In function 'GJnoc':
src/gjnoc.c:273:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/makeafile.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/makeafile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/matfit.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/matfit.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/matinv.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/matinv.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/matmult.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/matmult.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/murzin_P.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/murzin_P.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/newoutput.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/newoutput.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/openfile.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/openfile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pairfit.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/pairfit.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pairpath.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/pairpath.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/pairwise.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/pairwise.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/printmat.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/printmat.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/printmat2.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/printmat2.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/probcalc.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/probcalc.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/probplot.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/probplot.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/qkfit.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/qkfit.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/readtree.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/readtree.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/reval.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/reval.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/revmatmult.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/revmatmult.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/rossmann.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/rossmann.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/roughfit.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/roughfit.o
src/readtree.c: In function 'readtree':
src/readtree.c:132:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
src/readtree.c:135:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
src/readtree.c:139:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
src/readtree.c:142:15: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/scan.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/scan.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/sec_content.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/sec_content.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/slow_scan.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/slow_scan.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/stamp.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/stamp.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/stampgetpars.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/stampgetpars.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/sw7ccs.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/sw7ccs.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/swstruc.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/swstruc.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/testfile.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/testfile.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/treefit.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/treefit.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/treepath.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/treepath.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/treewise.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/treewise.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/update.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/update.o
x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -Isrc -c src/utol.c -fPIC -o../compile/lib_LINUX/tcl/stamp1.2/utol.o
src/treewise.c: In function 'treewise':
src/treewise.c:112:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
x86_64-pc-linux-gnu-gcc -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer ../compile/lib_LINUX/tcl/stamp1.2/a3to1.o ../compile/lib_LINUX/tcl/stamp1.2/aliseq.o ../compile/lib_LINUX/tcl/stamp1.2/ccprobcalc.o ../compile/lib_LINUX/tcl/stamp1.2/closefile.o ../compile/lib_LINUX/tcl/stamp1.2/count_domain.o ../compile/lib_LINUX/tcl/stamp1.2/display_align.o ../compile/lib_LINUX/tcl/stamp1.2/dosort.o ../compile/lib_LINUX/tcl/stamp1.2/get_clust.o ../compile/lib_LINUX/tcl/stamp1.2/getdomain.o ../compile/lib_LINUX/tcl/stamp1.2/getdsspsum.o ../compile/lib_LINUX/tcl/stamp1.2/getfile.o ../compile/lib_LINUX/tcl/stamp1.2/getks.o ../compile/lib_LINUX/tcl/stamp1.2/getsec.o ../compile/lib_LINUX/tcl/stamp1.2/gjnoc.o ../compile/lib_LINUX/tcl/stamp1.2/gjutil.o ../compile/lib_LINUX/tcl/stamp1.2/idist.o ../compile/lib_LINUX/tcl/stamp1.2/igetca.o ../compile/lib_LINUX/tcl/stamp1.2/igetcadssp.o ../compile/lib_LINUX/tcl/stamp1.2/ltou.o ../compile/lib_LINUX/tcl/stamp1.2/makeafile.o ../compile/lib_LINUX/tcl/stamp1.2/matfit.o ../compile/lib_LINUX/tcl/stamp1.2/matinv.o ../compile/lib_LINUX/tcl/stamp1.2/matmult.o ../compile/lib_LINUX/tcl/stamp1.2/murzin_P.o ../compile/lib_LINUX/tcl/stamp1.2/newoutput.o ../compile/lib_LINUX/tcl/stamp1.2/openfile.o ../compile/lib_LINUX/tcl/stamp1.2/pairfit.o ../compile/lib_LINUX/tcl/stamp1.2/pairpath.o ../compile/lib_LINUX/tcl/stamp1.2/pairwise.o ../compile/lib_LINUX/tcl/stamp1.2/printmat.o ../compile/lib_LINUX/tcl/stamp1.2/printmat2.o ../compile/lib_LINUX/tcl/stamp1.2/probcalc.o ../compile/lib_LINUX/tcl/stamp1.2/probplot.o ../compile/lib_LINUX/tcl/stamp1.2/qkfit.o ../compile/lib_LINUX/tcl/stamp1.2/readtree.o ../compile/lib_LINUX/tcl/stamp1.2/reval.o ../compile/lib_LINUX/tcl/stamp1.2/revmatmult.o ../compile/lib_LINUX/tcl/stamp1.2/rossmann.o ../compile/lib_LINUX/tcl/stamp1.2/roughfit.o ../compile/lib_LINUX/tcl/stamp1.2/scan.o ../compile/lib_LINUX/tcl/stamp1.2/sec_content.o ../compile/lib_LINUX/tcl/stamp1.2/slow_scan.o ../compile/lib_LINUX/tcl/stamp1.2/stamp.o ../compile/lib_LINUX/tcl/stamp1.2/stampgetpars.o ../compile/lib_LINUX/tcl/stamp1.2/sw7ccs.o ../compile/lib_LINUX/tcl/stamp1.2/swstruc.o ../compile/lib_LINUX/tcl/stamp1.2/testfile.o ../compile/lib_LINUX/tcl/stamp1.2/treefit.o ../compile/lib_LINUX/tcl/stamp1.2/treepath.o ../compile/lib_LINUX/tcl/stamp1.2/treewise.o ../compile/lib_LINUX/tcl/stamp1.2/update.o ../compile/lib_LINUX/tcl/stamp1.2/utol.o -o ../compile/lib_LINUX/tcl/stamp1.2/stamp -lm
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/stamp'
make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins'
make -j4 
echo "Compiling " OpenGLDisplayDevice.C " --> " OpenGLDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OpenGLDisplayDevice.C -o ../LINUX/OpenGLDisplayDevice.o
echo "Compiling " OpenGLExtensions.C " --> " OpenGLExtensions.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OpenGLExtensions.C -o ../LINUX/OpenGLExtensions.o
Compiling  OpenGLDisplayDevice.C  -->  OpenGLDisplayDevice.o  ...
echo "Compiling " OpenGLRenderer.C " --> " OpenGLRenderer.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OpenGLRenderer.C -o ../LINUX/OpenGLRenderer.o
Compiling  OpenGLExtensions.C  -->  OpenGLExtensions.o  ...
Compiling  OpenGLRenderer.C  -->  OpenGLRenderer.o  ...
echo "Compiling " OpenGLShader.C " --> " OpenGLShader.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OpenGLShader.C -o ../LINUX/OpenGLShader.o
Compiling  OpenGLShader.C  -->  OpenGLShader.o  ...
echo "Compiling " OpenGLCache.C " --> " OpenGLCache.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OpenGLCache.C -o ../LINUX/OpenGLCache.o
echo "Compiling " IMDMgr.C " --> " IMDMgr.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c IMDMgr.C -o ../LINUX/IMDMgr.o
Compiling  OpenGLCache.C  -->  OpenGLCache.o  ...
Compiling  IMDMgr.C  -->  IMDMgr.o  ...
echo "Compiling " IMDSim.C " --> " IMDSim.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c IMDSim.C -o ../LINUX/IMDSim.o
Compiling  IMDSim.C  -->  IMDSim.o  ...
echo "Compiling " IMDSimThread.C " --> " IMDSimThread.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c IMDSimThread.C -o ../LINUX/IMDSimThread.o
Compiling  IMDSimThread.C  -->  IMDSimThread.o  ...
echo "Compiling " CmdIMD.C " --> " CmdIMD.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdIMD.C -o ../LINUX/CmdIMD.o
Compiling  CmdIMD.C  -->  CmdIMD.o  ...
echo "Compiling " imd.C " --> " imd.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c imd.C -o ../LINUX/imd.o
Compiling  imd.C  -->  imd.o  ...
echo "Compiling " PythonTextInterp.C " --> " PythonTextInterp.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PythonTextInterp.C -o ../LINUX/PythonTextInterp.o
echo "Compiling " VMDTkinterMenu.C " --> " VMDTkinterMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDTkinterMenu.C -o ../LINUX/VMDTkinterMenu.o
echo "Compiling " py_animate.C " --> " py_animate.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_animate.C -o ../LINUX/py_animate.o
Compiling  PythonTextInterp.C  -->  PythonTextInterp.o  ...
Compiling  VMDTkinterMenu.C  -->  VMDTkinterMenu.o  ...
Compiling  py_animate.C  -->  py_animate.o  ...
echo "Compiling " py_atomsel.C " --> " py_atomsel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_atomsel.C -o ../LINUX/py_atomsel.o
Compiling  py_atomsel.C  -->  py_atomsel.o  ...
echo "Compiling " py_atomselection.C " --> " py_atomselection.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_atomselection.C -o ../LINUX/py_atomselection.o
VMDTkinterMenu.C: In member function 'virtual void VMDTkinterMenu::move(int, int)':
VMDTkinterMenu.C:64:67: warning: deprecated conversion from string constant to 'char*'
VMDTkinterMenu.C:64:165: warning: deprecated conversion from string constant to 'char*'
VMDTkinterMenu.C:64:281: warning: deprecated conversion from string constant to 'char*'
VMDTkinterMenu.C:64:392: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " py_axes.C " --> " py_axes.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_axes.C -o ../LINUX/py_axes.o
Compiling  py_atomselection.C  -->  py_atomselection.o  ...
py_atomsel.C: In function 'PyObject* center(PyAtomSelObject*, PyObject*, PyObject*)':
py_atomsel.C:713:46: warning: deprecated conversion from string constant to 'char*'
py_atomsel.C: In function 'PyObject* sasa(PyAtomSelObject*, PyObject*, PyObject*)':
py_atomsel.C:938:3: warning: deprecated conversion from string constant to 'char*'
py_atomsel.C:938:3: warning: deprecated conversion from string constant to 'char*'
py_atomsel.C:938:3: warning: deprecated conversion from string constant to 'char*'
py_atomsel.C:938:3: warning: deprecated conversion from string constant to 'char*'
Compiling  py_axes.C  -->  py_axes.o  ...
echo "Compiling " py_color.C " --> " py_color.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_color.C -o ../LINUX/py_color.o
Compiling  py_color.C  -->  py_color.o  ...
echo "Compiling " py_commands.C " --> " py_commands.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_commands.C -o ../LINUX/py_commands.o
Compiling  py_commands.C  -->  py_commands.o  ...
echo "Compiling " py_display.C " --> " py_display.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_display.C -o ../LINUX/py_display.o
echo "Compiling " py_graphics.C " --> " py_graphics.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_graphics.C -o ../LINUX/py_graphics.o
echo "Compiling " py_imd.C " --> " py_imd.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_imd.C -o ../LINUX/py_imd.o
Compiling  py_graphics.C  -->  py_graphics.o  ...
Compiling  py_imd.C  -->  py_imd.o  ...
Compiling  py_display.C  -->  py_display.o  ...
echo "Compiling " py_label.C " --> " py_label.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_label.C -o ../LINUX/py_label.o
Compiling  py_label.C  -->  py_label.o  ...
echo "Compiling " py_material.C " --> " py_material.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_material.C -o ../LINUX/py_material.o
Compiling  py_material.C  -->  py_material.o  ...
echo "Compiling " py_menu.C " --> " py_menu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_menu.C -o ../LINUX/py_menu.o
Compiling  py_menu.C  -->  py_menu.o  ...
echo "Compiling " py_molecule.C " --> " py_molecule.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_molecule.C -o ../LINUX/py_molecule.o
Compiling  py_molecule.C  -->  py_molecule.o  ...
echo "Compiling " py_molrep.C " --> " py_molrep.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_molrep.C -o ../LINUX/py_molrep.o
echo "Compiling " py_mouse.C " --> " py_mouse.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_mouse.C -o ../LINUX/py_mouse.o
Compiling  py_molrep.C  -->  py_molrep.o  ...
Compiling  py_mouse.C  -->  py_mouse.o  ...
echo "Compiling " py_render.C " --> " py_render.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_render.C -o ../LINUX/py_render.o
Compiling  py_render.C  -->  py_render.o  ...
echo "Compiling " py_trans.C " --> " py_trans.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_trans.C -o ../LINUX/py_trans.o
Compiling  py_trans.C  -->  py_trans.o  ...
py_molecule.C: In function 'PyObject* get_visible(PyObject*, PyObject*, PyObject*)':
py_molecule.C:768:45: warning: deprecated conversion from string constant to 'char*'
py_molecule.C: In function 'PyObject* set_visible(PyObject*, PyObject*, PyObject*)':
py_molecule.C:784:54: warning: deprecated conversion from string constant to 'char*'
py_molecule.C:784:54: warning: deprecated conversion from string constant to 'char*'
py_molecule.C: In function 'PyObject* get_physical_time(PyObject*, PyObject*, PyObject*)':
py_molecule.C:802:54: warning: deprecated conversion from string constant to 'char*'
py_molecule.C:802:54: warning: deprecated conversion from string constant to 'char*'
py_molecule.C: In function 'PyObject* set_physical_time(PyObject*, PyObject*, PyObject*)':
py_molecule.C:814:63: warning: deprecated conversion from string constant to 'char*'
py_molecule.C:814:63: warning: deprecated conversion from string constant to 'char*'
py_molecule.C:814:63: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " py_vmd.C " --> " py_vmd.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_vmd.C -o ../LINUX/py_vmd.o
Compiling  py_vmd.C  -->  py_vmd.o  ...
echo "Compiling " py_numeric.C " --> " py_numeric.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c py_numeric.C -o ../LINUX/py_numeric.o
Compiling  py_numeric.C  -->  py_numeric.o  ...
echo "Compiling " Animation.C " --> " Animation.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Animation.C -o ../LINUX/Animation.o
echo "Compiling " ArtDisplayDevice.C " --> " ArtDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ArtDisplayDevice.C -o ../LINUX/ArtDisplayDevice.o
Compiling  Animation.C  -->  Animation.o  ...
Compiling  ArtDisplayDevice.C  -->  ArtDisplayDevice.o  ...
echo "Compiling " AtomColor.C " --> " AtomColor.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c AtomColor.C -o ../LINUX/AtomColor.o
echo "Compiling " AtomParser.C " --> " AtomParser.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c AtomParser.C -o ../LINUX/AtomParser.o
Compiling  AtomColor.C  -->  AtomColor.o  ...
Compiling  AtomParser.C  -->  AtomParser.o  ...
echo "Compiling " AtomLexer.C " --> " AtomLexer.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c AtomLexer.C -o ../LINUX/AtomLexer.o
Compiling  AtomLexer.C  -->  AtomLexer.o  ...
echo "Compiling " AtomRep.C " --> " AtomRep.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c AtomRep.C -o ../LINUX/AtomRep.o
Compiling  AtomRep.C  -->  AtomRep.o  ...
AtomLexer.l: In function 'int yylex()':
AtomLexer.l:243:42: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
echo "Compiling " AtomSel.C " --> " AtomSel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c AtomSel.C -o ../LINUX/AtomSel.o
echo "Compiling " Axes.C " --> " Axes.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Axes.C -o ../LINUX/Axes.o
Compiling  AtomSel.C  -->  AtomSel.o  ...
echo "Compiling " BaseMolecule.C " --> " BaseMolecule.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c BaseMolecule.C -o ../LINUX/BaseMolecule.o
Compiling  Axes.C  -->  Axes.o  ...
Compiling  BaseMolecule.C  -->  BaseMolecule.o  ...
echo "Compiling " Benchmark.C " --> " Benchmark.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Benchmark.C -o ../LINUX/Benchmark.o
Compiling  Benchmark.C  -->  Benchmark.o  ...
echo "Compiling " BondSearch.C " --> " BondSearch.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c BondSearch.C -o ../LINUX/BondSearch.o
Compiling  BondSearch.C  -->  BondSearch.o  ...
echo "Compiling " CmdAnimate.C " --> " CmdAnimate.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdAnimate.C -o ../LINUX/CmdAnimate.o
echo "Compiling " CmdColor.C " --> " CmdColor.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdColor.C -o ../LINUX/CmdColor.o
Compiling  CmdAnimate.C  -->  CmdAnimate.o  ...
echo "Compiling " CmdDisplay.C " --> " CmdDisplay.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdDisplay.C -o ../LINUX/CmdDisplay.o
Compiling  CmdColor.C  -->  CmdColor.o  ...
Compiling  CmdDisplay.C  -->  CmdDisplay.o  ...
echo "Compiling " CmdLabel.C " --> " CmdLabel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdLabel.C -o ../LINUX/CmdLabel.o
echo "Compiling " CmdMaterial.C " --> " CmdMaterial.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdMaterial.C -o ../LINUX/CmdMaterial.o
echo "Compiling " CmdMenu.C " --> " CmdMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdMenu.C -o ../LINUX/CmdMenu.o
Compiling  CmdLabel.C  -->  CmdLabel.o  ...
Compiling  CmdMaterial.C  -->  CmdMaterial.o  ...
Compiling  CmdMenu.C  -->  CmdMenu.o  ...
echo "Compiling " CmdMol.C " --> " CmdMol.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdMol.C -o ../LINUX/CmdMol.o
Compiling  CmdMol.C  -->  CmdMol.o  ...
echo "Compiling " CmdRender.C " --> " CmdRender.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdRender.C -o ../LINUX/CmdRender.o
echo "Compiling " CmdTrans.C " --> " CmdTrans.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CmdTrans.C -o ../LINUX/CmdTrans.o
Compiling  CmdRender.C  -->  CmdRender.o  ...
Compiling  CmdTrans.C  -->  CmdTrans.o  ...
echo "Compiling " CommandQueue.C " --> " CommandQueue.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CommandQueue.C -o ../LINUX/CommandQueue.o
Compiling  CommandQueue.C  -->  CommandQueue.o  ...
echo "Compiling " CoorPluginData.C " --> " CoorPluginData.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CoorPluginData.C -o ../LINUX/CoorPluginData.o
Compiling  CoorPluginData.C  -->  CoorPluginData.o  ...
echo "Compiling " CUDAAccel.C " --> " CUDAAccel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c CUDAAccel.C -o ../LINUX/CUDAAccel.o
echo "Compiling " DisplayDevice.C " --> " DisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DisplayDevice.C -o ../LINUX/DisplayDevice.o
Compiling  CUDAAccel.C  -->  CUDAAccel.o  ...
Compiling  DisplayDevice.C  -->  DisplayDevice.o  ...
echo "Compiling " Displayable.C " --> " Displayable.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Displayable.C -o ../LINUX/Displayable.o
echo "Compiling " DisplayRocker.C " --> " DisplayRocker.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DisplayRocker.C -o ../LINUX/DisplayRocker.o
Compiling  Displayable.C  -->  Displayable.o  ...
Compiling  DisplayRocker.C  -->  DisplayRocker.o  ...
echo "Compiling " DispCmds.C " --> " DispCmds.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DispCmds.C -o ../LINUX/DispCmds.o
Compiling  DispCmds.C  -->  DispCmds.o  ...
echo "Compiling " DrawMolecule.C " --> " DrawMolecule.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolecule.C -o ../LINUX/DrawMolecule.o
Compiling  DrawMolecule.C  -->  DrawMolecule.o  ...
echo "Compiling " DrawMolItem.C " --> " DrawMolItem.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItem.C -o ../LINUX/DrawMolItem.o
echo "Compiling " DrawMolItem2.C " --> " DrawMolItem2.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItem2.C -o ../LINUX/DrawMolItem2.o
Compiling  DrawMolItem.C  -->  DrawMolItem.o  ...
Compiling  DrawMolItem2.C  -->  DrawMolItem2.o  ...
echo "Compiling " DrawMolItemRibbons.C " --> " DrawMolItemRibbons.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemRibbons.C -o ../LINUX/DrawMolItemRibbons.o
Compiling  DrawMolItemRibbons.C  -->  DrawMolItemRibbons.o  ...
echo "Compiling " DrawMolItemMSMS.C " --> " DrawMolItemMSMS.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemMSMS.C -o ../LINUX/DrawMolItemMSMS.o
Compiling  DrawMolItemMSMS.C  -->  DrawMolItemMSMS.o  ...
echo "Compiling " DrawMolItemRings.C " --> " DrawMolItemRings.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemRings.C -o ../LINUX/DrawMolItemRings.o
Compiling  DrawMolItemRings.C  -->  DrawMolItemRings.o  ...
echo "Compiling " DrawMolItemOrbital.C " --> " DrawMolItemOrbital.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemOrbital.C -o ../LINUX/DrawMolItemOrbital.o
echo "Compiling " DrawMolItemSurface.C " --> " DrawMolItemSurface.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemSurface.C -o ../LINUX/DrawMolItemSurface.o
Compiling  DrawMolItemOrbital.C  -->  DrawMolItemOrbital.o  ...
Compiling  DrawMolItemSurface.C  -->  DrawMolItemSurface.o  ...
echo "Compiling " DrawMolItemVolume.C " --> " DrawMolItemVolume.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawMolItemVolume.C -o ../LINUX/DrawMolItemVolume.o
echo "Compiling " DrawForce.C " --> " DrawForce.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawForce.C -o ../LINUX/DrawForce.o
Compiling  DrawMolItemVolume.C  -->  DrawMolItemVolume.o  ...
echo "Compiling " DrawRingsUtils.C " --> " DrawRingsUtils.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DrawRingsUtils.C -o ../LINUX/DrawRingsUtils.o
Compiling  DrawForce.C  -->  DrawForce.o  ...
Compiling  DrawRingsUtils.C  -->  DrawRingsUtils.o  ...
echo "Compiling " FileRenderList.C " --> " FileRenderList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c FileRenderList.C -o ../LINUX/FileRenderList.o
Compiling  FileRenderList.C  -->  FileRenderList.o  ...
echo "Compiling " FileRenderer.C " --> " FileRenderer.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c FileRenderer.C -o ../LINUX/FileRenderer.o
echo "Compiling " FPS.C " --> " FPS.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c FPS.C -o ../LINUX/FPS.o
Compiling  FileRenderer.C  -->  FileRenderer.o  ...
Compiling  FPS.C  -->  FPS.o  ...
echo "Compiling " GelatoDisplayDevice.C " --> " GelatoDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GelatoDisplayDevice.C -o ../LINUX/GelatoDisplayDevice.o
Compiling  GelatoDisplayDevice.C  -->  GelatoDisplayDevice.o  ...
echo "Compiling " GeometryAngle.C " --> " GeometryAngle.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryAngle.C -o ../LINUX/GeometryAngle.o
Compiling  GeometryAngle.C  -->  GeometryAngle.o  ...
echo "Compiling " GeometryAtom.C " --> " GeometryAtom.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryAtom.C -o ../LINUX/GeometryAtom.o
Compiling  GeometryAtom.C  -->  GeometryAtom.o  ...
echo "Compiling " GeometryBond.C " --> " GeometryBond.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryBond.C -o ../LINUX/GeometryBond.o
Compiling  GeometryBond.C  -->  GeometryBond.o  ...
echo "Compiling " GeometryDihedral.C " --> " GeometryDihedral.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryDihedral.C -o ../LINUX/GeometryDihedral.o
Compiling  GeometryDihedral.C  -->  GeometryDihedral.o  ...
echo "Compiling " GeometryList.C " --> " GeometryList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryList.C -o ../LINUX/GeometryList.o
Compiling  GeometryList.C  -->  GeometryList.o  ...
echo "Compiling " GeometryMol.C " --> " GeometryMol.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryMol.C -o ../LINUX/GeometryMol.o
echo "Compiling " GeometrySpring.C " --> " GeometrySpring.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometrySpring.C -o ../LINUX/GeometrySpring.o
Compiling  GeometryMol.C  -->  GeometryMol.o  ...
echo "Compiling " Hershey.C " --> " Hershey.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Hershey.C -o ../LINUX/Hershey.o
Compiling  GeometrySpring.C  -->  GeometrySpring.o  ...
Compiling  Hershey.C  -->  Hershey.o  ...
echo "Compiling " Inform.C " --> " Inform.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Inform.C -o ../LINUX/Inform.o
Compiling  Inform.C  -->  Inform.o  ...
echo "Compiling " ImageIO.C " --> " ImageIO.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ImageIO.C -o ../LINUX/ImageIO.o
echo "Compiling " Isosurface.C " --> " Isosurface.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Isosurface.C -o ../LINUX/Isosurface.o
Compiling  ImageIO.C  -->  ImageIO.o  ...
echo "Compiling " JRegex.C " --> " JRegex.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c JRegex.C -o ../LINUX/JRegex.o
Compiling  Isosurface.C  -->  Isosurface.o  ...
Compiling  JRegex.C  -->  JRegex.o  ...
ImageIO.C: In function 'void vmd_writeppm(FILE*, unsigned char*, int, int)':
ImageIO.C:173:51: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C: In function 'void vmd_writebmp(FILE*, unsigned char*, int, int)':
ImageIO.C:152:42: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C: In function 'void vmd_writergb(FILE*, unsigned char*, int, int)':
ImageIO.C:80:32: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C:88:54: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C: In function 'void putshort(FILE*, short unsigned int)':
ImageIO.C:47:26: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C: In function 'void putint(FILE*, unsigned int)':
ImageIO.C:56:26: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
ImageIO.C: In function 'void putbyte(FILE*, unsigned char)':
ImageIO.C:40:26: warning: ignoring return value of 'size_t fwrite(const void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result
echo "Compiling " JString.C " --> " JString.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c JString.C -o ../LINUX/JString.o
echo "Compiling " macosxvmdstart.C " --> " macosxvmdstart.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c macosxvmdstart.C -o ../LINUX/macosxvmdstart.o
Compiling  macosxvmdstart.C  -->  macosxvmdstart.o  ...
Compiling  JString.C  -->  JString.o  ...
echo "Compiling " MaterialList.C " --> " MaterialList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MaterialList.C -o ../LINUX/MaterialList.o
Compiling  MaterialList.C  -->  MaterialList.o  ...
echo "Compiling " Matrix4.C " --> " Matrix4.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Matrix4.C -o ../LINUX/Matrix4.o
echo "Compiling " MayaDisplayDevice.C " --> " MayaDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MayaDisplayDevice.C -o ../LINUX/MayaDisplayDevice.o
Compiling  Matrix4.C  -->  Matrix4.o  ...
echo "Compiling " Measure.C " --> " Measure.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Measure.C -o ../LINUX/Measure.o
Compiling  MayaDisplayDevice.C  -->  MayaDisplayDevice.o  ...
Compiling  Measure.C  -->  Measure.o  ...
echo "Compiling " MeasureCluster.C " --> " MeasureCluster.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MeasureCluster.C -o ../LINUX/MeasureCluster.o
Compiling  MeasureCluster.C  -->  MeasureCluster.o  ...
echo "Compiling " MeasurePBC.C " --> " MeasurePBC.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MeasurePBC.C -o ../LINUX/MeasurePBC.o
Compiling  MeasurePBC.C  -->  MeasurePBC.o  ...
echo "Compiling " MeasureRDF.C " --> " MeasureRDF.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MeasureRDF.C -o ../LINUX/MeasureRDF.o
echo "Compiling " MeasureSurface.C " --> " MeasureSurface.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MeasureSurface.C -o ../LINUX/MeasureSurface.o
Compiling  MeasureRDF.C  -->  MeasureRDF.o  ...
echo "Compiling " MeasureSymmetry.C " --> " MeasureSymmetry.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MeasureSymmetry.C -o ../LINUX/MeasureSymmetry.o
Compiling  MeasureSurface.C  -->  MeasureSurface.o  ...
Compiling  MeasureSymmetry.C  -->  MeasureSymmetry.o  ...
echo "Compiling " Molecule.C " --> " Molecule.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Molecule.C -o ../LINUX/Molecule.o
Compiling  Molecule.C  -->  Molecule.o  ...
echo "Compiling " MoleculeList.C " --> " MoleculeList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MoleculeList.C -o ../LINUX/MoleculeList.o
Compiling  MoleculeList.C  -->  MoleculeList.o  ...
echo "Compiling " MoleculeGraphics.C " --> " MoleculeGraphics.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MoleculeGraphics.C -o ../LINUX/MoleculeGraphics.o
echo "Compiling " MolFilePlugin.C " --> " MolFilePlugin.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MolFilePlugin.C -o ../LINUX/MolFilePlugin.o
Compiling  MoleculeGraphics.C  -->  MoleculeGraphics.o  ...
Compiling  MolFilePlugin.C  -->  MolFilePlugin.o  ...
echo "Compiling " Mouse.C " --> " Mouse.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Mouse.C -o ../LINUX/Mouse.o
Compiling  Mouse.C  -->  Mouse.o  ...
echo "Compiling " MSMSInterface.C " --> " MSMSInterface.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MSMSInterface.C -o ../LINUX/MSMSInterface.o
Compiling  MSMSInterface.C  -->  MSMSInterface.o  ...
echo "Compiling " Orbital.C " --> " Orbital.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Orbital.C -o ../LINUX/Orbital.o
Compiling  Orbital.C  -->  Orbital.o  ...
echo "Compiling " OrbitalJIT.C " --> " OrbitalJIT.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c OrbitalJIT.C -o ../LINUX/OrbitalJIT.o
Compiling  OrbitalJIT.C  -->  OrbitalJIT.o  ...
echo "Compiling " PeriodicTable.C " --> " PeriodicTable.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PeriodicTable.C -o ../LINUX/PeriodicTable.o
Compiling  PeriodicTable.C  -->  PeriodicTable.o  ...
echo "Compiling " P_JoystickTool.C " --> " P_JoystickTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_JoystickTool.C -o ../LINUX/P_JoystickTool.o
echo "Compiling " P_TugTool.C " --> " P_TugTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_TugTool.C -o ../LINUX/P_TugTool.o
Compiling  P_JoystickTool.C  -->  P_JoystickTool.o  ...
echo "Compiling " P_GrabTool.C " --> " P_GrabTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_GrabTool.C -o ../LINUX/P_GrabTool.o
Compiling  P_TugTool.C  -->  P_TugTool.o  ...
echo "Compiling " P_PrintTool.C " --> " P_PrintTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_PrintTool.C -o ../LINUX/P_PrintTool.o
Compiling  P_GrabTool.C  -->  P_GrabTool.o  ...
Compiling  P_PrintTool.C  -->  P_PrintTool.o  ...
echo "Compiling " P_PinchTool.C " --> " P_PinchTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_PinchTool.C -o ../LINUX/P_PinchTool.o
Compiling  P_PinchTool.C  -->  P_PinchTool.o  ...
echo "Compiling " P_UIVR.C " --> " P_UIVR.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_UIVR.C -o ../LINUX/P_UIVR.o
Compiling  P_UIVR.C  -->  P_UIVR.o  ...
echo "Compiling " P_Buttons.C " --> " P_Buttons.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_Buttons.C -o ../LINUX/P_Buttons.o
echo "Compiling " P_Tracker.C " --> " P_Tracker.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_Tracker.C -o ../LINUX/P_Tracker.o
Compiling  P_Buttons.C  -->  P_Buttons.o  ...
Compiling  P_Tracker.C  -->  P_Tracker.o  ...
echo "Compiling " P_Tool.C " --> " P_Tool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_Tool.C -o ../LINUX/P_Tool.o
Compiling  P_Tool.C  -->  P_Tool.o  ...
echo "Compiling " P_CmdTool.C " --> " P_CmdTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_CmdTool.C -o ../LINUX/P_CmdTool.o
echo "Compiling " P_SensorConfig.C " --> " P_SensorConfig.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c P_SensorConfig.C -o ../LINUX/P_SensorConfig.o
echo "Compiling " ParseTree.C " --> " ParseTree.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ParseTree.C -o ../LINUX/ParseTree.o
Compiling  P_CmdTool.C  -->  P_CmdTool.o  ...
Compiling  P_SensorConfig.C  -->  P_SensorConfig.o  ...
Compiling  ParseTree.C  -->  ParseTree.o  ...
echo "Compiling " PhoneButtons.C " --> " PhoneButtons.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PhoneButtons.C -o ../LINUX/PhoneButtons.o
echo "Compiling " PhoneTracker.C " --> " PhoneTracker.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PhoneTracker.C -o ../LINUX/PhoneTracker.o
Compiling  PhoneButtons.C  -->  PhoneButtons.o  ...
Compiling  PhoneTracker.C  -->  PhoneTracker.o  ...
echo "Compiling " PickList.C " --> " PickList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickList.C -o ../LINUX/PickList.o
Compiling  PickList.C  -->  PickList.o  ...
echo "Compiling " PickModeAddBond.C " --> " PickModeAddBond.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeAddBond.C -o ../LINUX/PickModeAddBond.o
Compiling  PickModeAddBond.C  -->  PickModeAddBond.o  ...
echo "Compiling " PickModeCenter.C " --> " PickModeCenter.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeCenter.C -o ../LINUX/PickModeCenter.o
Compiling  PickModeCenter.C  -->  PickModeCenter.o  ...
echo "Compiling " PickModeForce.C " --> " PickModeForce.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeForce.C -o ../LINUX/PickModeForce.o
Compiling  PickModeForce.C  -->  PickModeForce.o  ...
echo "Compiling " PickModeList.C " --> " PickModeList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeList.C -o ../LINUX/PickModeList.o
echo "Compiling " PickModeMolLabel.C " --> " PickModeMolLabel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeMolLabel.C -o ../LINUX/PickModeMolLabel.o
echo "Compiling " PickModeMove.C " --> " PickModeMove.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeMove.C -o ../LINUX/PickModeMove.o
Compiling  PickModeList.C  -->  PickModeList.o  ...
Compiling  PickModeMolLabel.C  -->  PickModeMolLabel.o  ...
Compiling  PickModeMove.C  -->  PickModeMove.o  ...
echo "Compiling " PickModeUser.C " --> " PickModeUser.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PickModeUser.C -o ../LINUX/PickModeUser.o
echo "Compiling " PlainTextInterp.C " --> " PlainTextInterp.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PlainTextInterp.C -o ../LINUX/PlainTextInterp.o
Compiling  PickModeUser.C  -->  PickModeUser.o  ...
Compiling  PlainTextInterp.C  -->  PlainTextInterp.o  ...
echo "Compiling " PluginMgr.C " --> " PluginMgr.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PluginMgr.C -o ../LINUX/PluginMgr.o
Compiling  PluginMgr.C  -->  PluginMgr.o  ...
echo "Compiling " POV3DisplayDevice.C " --> " POV3DisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c POV3DisplayDevice.C -o ../LINUX/POV3DisplayDevice.o
echo "Compiling " PSDisplayDevice.C " --> " PSDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c PSDisplayDevice.C -o ../LINUX/PSDisplayDevice.o
Compiling  POV3DisplayDevice.C  -->  POV3DisplayDevice.o  ...
Compiling  PSDisplayDevice.C  -->  PSDisplayDevice.o  ...
echo "Compiling " QMData.C " --> " QMData.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c QMData.C -o ../LINUX/QMData.o
echo "Compiling " QMTimestep.C " --> " QMTimestep.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c QMTimestep.C -o ../LINUX/QMTimestep.o
Compiling  QMData.C  -->  QMData.o  ...
Compiling  QMTimestep.C  -->  QMTimestep.o  ...
echo "Compiling " RadianceDisplayDevice.C " --> " RadianceDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c RadianceDisplayDevice.C -o ../LINUX/RadianceDisplayDevice.o
Compiling  RadianceDisplayDevice.C  -->  RadianceDisplayDevice.o  ...
echo "Compiling " RayShadeDisplayDevice.C " --> " RayShadeDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c RayShadeDisplayDevice.C -o ../LINUX/RayShadeDisplayDevice.o
Compiling  RayShadeDisplayDevice.C  -->  RayShadeDisplayDevice.o  ...
echo "Compiling " R3dDisplayDevice.C " --> " R3dDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c R3dDisplayDevice.C -o ../LINUX/R3dDisplayDevice.o
echo "Compiling " RenderManDisplayDevice.C " --> " RenderManDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c RenderManDisplayDevice.C -o ../LINUX/RenderManDisplayDevice.o
Compiling  R3dDisplayDevice.C  -->  R3dDisplayDevice.o  ...
Compiling  RenderManDisplayDevice.C  -->  RenderManDisplayDevice.o  ...
echo "Compiling " Scene.C " --> " Scene.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Scene.C -o ../LINUX/Scene.o
Compiling  Scene.C  -->  Scene.o  ...
echo "Compiling " SnapshotDisplayDevice.C " --> " SnapshotDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SnapshotDisplayDevice.C -o ../LINUX/SnapshotDisplayDevice.o
Compiling  SnapshotDisplayDevice.C  -->  SnapshotDisplayDevice.o  ...
echo "Compiling " Spaceball.C " --> " Spaceball.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Spaceball.C -o ../LINUX/Spaceball.o
Compiling  Spaceball.C  -->  Spaceball.o  ...
echo "Compiling " SpaceballButtons.C " --> " SpaceballButtons.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SpaceballButtons.C -o ../LINUX/SpaceballButtons.o
Compiling  SpaceballButtons.C  -->  SpaceballButtons.o  ...
echo "Compiling " SpaceballTracker.C " --> " SpaceballTracker.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SpaceballTracker.C -o ../LINUX/SpaceballTracker.o
Compiling  SpaceballTracker.C  -->  SpaceballTracker.o  ...
echo "Compiling " SpatialSearch.C " --> " SpatialSearch.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SpatialSearch.C -o ../LINUX/SpatialSearch.o
echo "Compiling " SpringTool.C " --> " SpringTool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SpringTool.C -o ../LINUX/SpringTool.o
Compiling  SpatialSearch.C  -->  SpatialSearch.o  ...
echo "Compiling " Stage.C " --> " Stage.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Stage.C -o ../LINUX/Stage.o
Compiling  SpringTool.C  -->  SpringTool.o  ...
Compiling  Stage.C  -->  Stage.o  ...
echo "Compiling " STLDisplayDevice.C " --> " STLDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c STLDisplayDevice.C -o ../LINUX/STLDisplayDevice.o
Compiling  STLDisplayDevice.C  -->  STLDisplayDevice.o  ...
echo "Compiling " Stride.C " --> " Stride.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Stride.C -o ../LINUX/Stride.o
echo "Compiling " Surf.C " --> " Surf.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Surf.C -o ../LINUX/Surf.o
Compiling  Stride.C  -->  Stride.o  ...
Compiling  Surf.C  -->  Surf.o  ...
echo "Compiling " SymbolTable.C " --> " SymbolTable.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SymbolTable.C -o ../LINUX/SymbolTable.o
echo "Compiling " TachyonDisplayDevice.C " --> " TachyonDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TachyonDisplayDevice.C -o ../LINUX/TachyonDisplayDevice.o
Compiling  SymbolTable.C  -->  SymbolTable.o  ...
Compiling  TachyonDisplayDevice.C  -->  TachyonDisplayDevice.o  ...
echo "Compiling " Timestep.C " --> " Timestep.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Timestep.C -o ../LINUX/Timestep.o
echo "Compiling " UIObject.C " --> " UIObject.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c UIObject.C -o ../LINUX/UIObject.o
Compiling  Timestep.C  -->  Timestep.o  ...
Compiling  UIObject.C  -->  UIObject.o  ...
echo "Compiling " UIText.C " --> " UIText.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c UIText.C -o ../LINUX/UIText.o
Compiling  UIText.C  -->  UIText.o  ...
echo "Compiling " VMDApp.C " --> " VMDApp.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDApp.C -o ../LINUX/VMDApp.o
echo "Compiling " VMDCollab.C " --> " VMDCollab.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDCollab.C -o ../LINUX/VMDCollab.o
Compiling  VMDApp.C  -->  VMDApp.o  ...
Compiling  VMDCollab.C  -->  VMDCollab.o  ...
echo "Compiling " VMDDir.C " --> " VMDDir.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDDir.C -o ../LINUX/VMDDir.o
Compiling  VMDDir.C  -->  VMDDir.o  ...
echo "Compiling " VMDDisplayList.C " --> " VMDDisplayList.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDDisplayList.C -o ../LINUX/VMDDisplayList.o
echo "Compiling " VMDMenu.C " --> " VMDMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDMenu.C -o ../LINUX/VMDMenu.o
Compiling  VMDDisplayList.C  -->  VMDDisplayList.o  ...
echo "Compiling " VMDQuat.C " --> " VMDQuat.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDQuat.C -o ../LINUX/VMDQuat.o
Compiling  VMDMenu.C  -->  VMDMenu.o  ...
Compiling  VMDQuat.C  -->  VMDQuat.o  ...
echo "Compiling " VMDTitle.C " --> " VMDTitle.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDTitle.C -o ../LINUX/VMDTitle.o
Compiling  VMDTitle.C  -->  VMDTitle.o  ...
echo "Compiling " VMDThreads.C " --> " VMDThreads.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDThreads.C -o ../LINUX/VMDThreads.o
Compiling  VMDThreads.C  -->  VMDThreads.o  ...
echo "Compiling " VolCPotential.C " --> " VolCPotential.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VolCPotential.C -o ../LINUX/VolCPotential.o
Compiling  VolCPotential.C  -->  VolCPotential.o  ...
VMDApp.C: In member function 'int VMDApp::molecule_new(const char*, int)':
VMDApp.C:1338:49: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1343:45: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1348:49: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1363:70: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1363:70: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1363:70: warning: deprecated conversion from string constant to 'char*'
VMDApp.C:1363:70: warning: deprecated conversion from string constant to 'char*'
VMDApp.C: In member function 'char* VMDApp::vmd_choose_file(const char*, const char*, const char*, int)':
VMDApp.C:787:28: warning: ignoring return value of 'char* fgets(char*, int, FILE*)', declared with attribute warn_unused_result
echo "Compiling " VolMapCreate.C " --> " VolMapCreate.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VolMapCreate.C -o ../LINUX/VolMapCreate.o
Compiling  VolMapCreate.C  -->  VolMapCreate.o  ...
echo "Compiling " VolMapCreateILS.C " --> " VolMapCreateILS.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VolMapCreateILS.C -o ../LINUX/VolMapCreateILS.o
Compiling  VolMapCreateILS.C  -->  VolMapCreateILS.o  ...
echo "Compiling " VolumetricData.C " --> " VolumetricData.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VolumetricData.C -o ../LINUX/VolumetricData.o
Compiling  VolumetricData.C  -->  VolumetricData.o  ...
echo "Compiling " VolumeTexture.C " --> " VolumeTexture.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VolumeTexture.C -o ../LINUX/VolumeTexture.o
Compiling  VolumeTexture.C  -->  VolumeTexture.o  ...
echo "Compiling " VrmlDisplayDevice.C " --> " VrmlDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VrmlDisplayDevice.C -o ../LINUX/VrmlDisplayDevice.o
Compiling  VrmlDisplayDevice.C  -->  VrmlDisplayDevice.o  ...
echo "Compiling " Vrml2DisplayDevice.C " --> " Vrml2DisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c Vrml2DisplayDevice.C -o ../LINUX/Vrml2DisplayDevice.o
echo "Compiling " WavefrontDisplayDevice.C " --> " WavefrontDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c WavefrontDisplayDevice.C -o ../LINUX/WavefrontDisplayDevice.o
Compiling  Vrml2DisplayDevice.C  -->  Vrml2DisplayDevice.o  ...
Compiling  WavefrontDisplayDevice.C  -->  WavefrontDisplayDevice.o  ...
echo "Compiling " WKFThreads.C " --> " WKFThreads.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c WKFThreads.C -o ../LINUX/WKFThreads.o
Compiling  WKFThreads.C  -->  WKFThreads.o  ...
echo "Compiling " WKFUtils.C " --> " WKFUtils.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c WKFUtils.C -o ../LINUX/WKFUtils.o
echo "Compiling " utilities.C " --> " utilities.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c utilities.C -o ../LINUX/utilities.o
Compiling  WKFUtils.C  -->  WKFUtils.o  ...
echo "Compiling " vmd.C " --> " vmd.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c vmd.C -o ../LINUX/vmd.o
Compiling  utilities.C  -->  utilities.o  ...
Compiling  vmd.C  -->  vmd.o  ...
echo "Compiling " vmdmain.C " --> " vmdmain.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c vmdmain.C -o ../LINUX/vmdmain.o
echo "Compiling " X3DDisplayDevice.C " --> " X3DDisplayDevice.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c X3DDisplayDevice.C -o ../LINUX/X3DDisplayDevice.o
Compiling  vmdmain.C  -->  vmdmain.o  ...
echo "Compiling " ColorInfo.C " --> " ColorInfo.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ColorInfo.C -o ../LINUX/ColorInfo.o
Compiling  X3DDisplayDevice.C  -->  X3DDisplayDevice.o  ...
Compiling  ColorInfo.C  -->  ColorInfo.o  ...
echo "Compiling " TclCommands.C " --> " TclCommands.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclCommands.C -o ../LINUX/TclCommands.o
echo "Compiling " TclMeasure.C " --> " TclMeasure.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclMeasure.C -o ../LINUX/TclMeasure.o
Compiling  TclMeasure.C  -->  TclMeasure.o  ...
echo "Compiling " TclMolInfo.C " --> " TclMolInfo.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclMolInfo.C -o ../LINUX/TclMolInfo.o
Compiling  TclCommands.C  -->  TclCommands.o  ...
echo "Compiling " TclTextInterp.C " --> " TclTextInterp.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclTextInterp.C -o ../LINUX/TclTextInterp.o
Compiling  TclMolInfo.C  -->  TclMolInfo.o  ...
Compiling  TclTextInterp.C  -->  TclTextInterp.o  ...
echo "Compiling " TclVec.C " --> " TclVec.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclVec.C -o ../LINUX/TclVec.o
Compiling  TclVec.C  -->  TclVec.o  ...
echo "Compiling " TclGraphics.C " --> " TclGraphics.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclGraphics.C -o ../LINUX/TclGraphics.o
Compiling  TclGraphics.C  -->  TclGraphics.o  ...
echo "Compiling " TclVolMap.C " --> " TclVolMap.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c TclVolMap.C -o ../LINUX/TclVolMap.o
echo "Compiling " cmd_animate.C " --> " cmd_animate.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_animate.C -o ../LINUX/cmd_animate.o
Compiling  TclVolMap.C  -->  TclVolMap.o  ...
echo "Compiling " cmd_collab.C " --> " cmd_collab.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_collab.C -o ../LINUX/cmd_collab.o
Compiling  cmd_animate.C  -->  cmd_animate.o  ...
Compiling  cmd_collab.C  -->  cmd_collab.o  ...
echo "Compiling " cmd_color.C " --> " cmd_color.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_color.C -o ../LINUX/cmd_color.o
Compiling  cmd_color.C  -->  cmd_color.o  ...
echo "Compiling " cmd_display.C " --> " cmd_display.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_display.C -o ../LINUX/cmd_display.o
Compiling  cmd_display.C  -->  cmd_display.o  ...
cmd_collab.C: In function 'int text_cmd_collab(void*, Tcl_Interp*, int, const char**)':
cmd_collab.C:58:27: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_imd.C " --> " cmd_imd.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_imd.C -o ../LINUX/cmd_imd.o
Compiling  cmd_imd.C  -->  cmd_imd.o  ...
cmd_animate.C: In function 'int text_cmd_animate(void*, Tcl_Interp*, int, const char**)':
cmd_animate.C:320:123: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C: In function 'int cmd_rawtimestep(void*, Tcl_Interp*, int, Tcl_Obj* const*)':
cmd_animate.C:391:77: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C:397:88: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C:425:35: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C:432:31: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C:440:81: warning: deprecated conversion from string constant to 'char*'
cmd_animate.C:448:88: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_label.C " --> " cmd_label.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_label.C -o ../LINUX/cmd_label.o
Compiling  cmd_label.C  -->  cmd_label.o  ...
cmd_color.C: In function 'int text_cmd_color(void*, Tcl_Interp*, int, const char**)':
cmd_color.C:197:77: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_material.C " --> " cmd_material.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_material.C -o ../LINUX/cmd_material.o
Compiling  cmd_material.C  -->  cmd_material.o  ...
cmd_label.C: In function 'int text_cmd_label(void*, Tcl_Interp*, int, const char**)':
cmd_label.C:277:31: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:296:31: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:307:99: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:324:99: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:329:31: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:340:99: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:349:79: warning: deprecated conversion from string constant to 'char*'
cmd_label.C:354:41: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_menu.C " --> " cmd_menu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_menu.C -o ../LINUX/cmd_menu.o
Compiling  cmd_menu.C  -->  cmd_menu.o  ...
echo "Compiling " cmd_mol.C " --> " cmd_mol.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_mol.C -o ../LINUX/cmd_mol.o
Compiling  cmd_mol.C  -->  cmd_mol.o  ...
echo "Compiling " cmd_mouse.C " --> " cmd_mouse.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_mouse.C -o ../LINUX/cmd_mouse.o
echo "Compiling " cmd_parallel.C " --> " cmd_parallel.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_parallel.C -o ../LINUX/cmd_parallel.o
echo "Compiling " cmd_plugin.C " --> " cmd_plugin.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_plugin.C -o ../LINUX/cmd_plugin.o
Compiling  cmd_mouse.C  -->  cmd_mouse.o  ...
Compiling  cmd_parallel.C  -->  cmd_parallel.o  ...
Compiling  cmd_plugin.C  -->  cmd_plugin.o  ...
cmd_mol.C: In function 'int text_cmd_mol(void*, Tcl_Interp*, int, const char**)':
cmd_mol.C:1124:112: warning: deprecated conversion from string constant to 'char*'
cmd_mol.C:1150:120: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_render.C " --> " cmd_render.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_render.C -o ../LINUX/cmd_render.o
Compiling  cmd_render.C  -->  cmd_render.o  ...
echo "Compiling " cmd_spaceball.C " --> " cmd_spaceball.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_spaceball.C -o ../LINUX/cmd_spaceball.o
Compiling  cmd_spaceball.C  -->  cmd_spaceball.o  ...
echo "Compiling " cmd_tool.C " --> " cmd_tool.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_tool.C -o ../LINUX/cmd_tool.o
Compiling  cmd_tool.C  -->  cmd_tool.o  ...
echo "Compiling " cmd_trans.C " --> " cmd_trans.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_trans.C -o ../LINUX/cmd_trans.o
Compiling  cmd_trans.C  -->  cmd_trans.o  ...
echo "Compiling " cmd_user.C " --> " cmd_user.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_user.C -o ../LINUX/cmd_user.o
cmd_render.C: In function 'int text_cmd_tkrender(void*, Tcl_Interp*, int, const char**)':
cmd_render.C:199:68: warning: deprecated conversion from string constant to 'char*'
cmd_render.C:204:29: warning: deprecated conversion from string constant to 'char*'
cmd_render.C:221:29: warning: deprecated conversion from string constant to 'char*'
echo "Compiling " cmd_util.C " --> " cmd_util.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_util.C -o ../LINUX/cmd_util.o
Compiling  cmd_user.C  -->  cmd_user.o  ...
Compiling  cmd_util.C  -->  cmd_util.o  ...
echo "Compiling " cmd_vmdbench.C " --> " cmd_vmdbench.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c cmd_vmdbench.C -o ../LINUX/cmd_vmdbench.o
echo "Compiling " tcl_commands.C " --> " tcl_commands.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c tcl_commands.C -o ../LINUX/tcl_commands.o
Compiling  cmd_vmdbench.C  -->  cmd_vmdbench.o  ...
Compiling  tcl_commands.C  -->  tcl_commands.o  ...
echo "Compiling " VMDTkMenu.C " --> " VMDTkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDTkMenu.C -o ../LINUX/VMDTkMenu.o
echo "Compiling " ColorFltkMenu.C " --> " ColorFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ColorFltkMenu.C -o ../LINUX/ColorFltkMenu.o
Compiling  VMDTkMenu.C  -->  VMDTkMenu.o  ...
echo "Compiling " DisplayFltkMenu.C " --> " DisplayFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c DisplayFltkMenu.C -o ../LINUX/DisplayFltkMenu.o
Compiling  ColorFltkMenu.C  -->  ColorFltkMenu.o  ...
Compiling  DisplayFltkMenu.C  -->  DisplayFltkMenu.o  ...
echo "Compiling " FileChooserFltkMenu.C " --> " FileChooserFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c FileChooserFltkMenu.C -o ../LINUX/FileChooserFltkMenu.o
Compiling  FileChooserFltkMenu.C  -->  FileChooserFltkMenu.o  ...
echo "Compiling " GraphicsFltkMenu.C " --> " GraphicsFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GraphicsFltkMenu.C -o ../LINUX/GraphicsFltkMenu.o
Compiling  GraphicsFltkMenu.C  -->  GraphicsFltkMenu.o  ...
echo "Compiling " SelectionBuilder.C " --> " SelectionBuilder.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SelectionBuilder.C -o ../LINUX/SelectionBuilder.o
echo "Compiling " GeometryFltkMenu.C " --> " GeometryFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c GeometryFltkMenu.C -o ../LINUX/GeometryFltkMenu.o
Compiling  SelectionBuilder.C  -->  SelectionBuilder.o  ...
echo "Compiling " MaterialFltkMenu.C " --> " MaterialFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MaterialFltkMenu.C -o ../LINUX/MaterialFltkMenu.o
Compiling  GeometryFltkMenu.C  -->  GeometryFltkMenu.o  ...
Compiling  MaterialFltkMenu.C  -->  MaterialFltkMenu.o  ...
echo "Compiling " MolBrowser.C " --> " MolBrowser.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MolBrowser.C -o ../LINUX/MolBrowser.o
Compiling  MolBrowser.C  -->  MolBrowser.o  ...
echo "Compiling " RenderFltkMenu.C " --> " RenderFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c RenderFltkMenu.C -o ../LINUX/RenderFltkMenu.o
Compiling  RenderFltkMenu.C  -->  RenderFltkMenu.o  ...
echo "Compiling " SaveTrajectoryFltkMenu.C " --> " SaveTrajectoryFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c SaveTrajectoryFltkMenu.C -o ../LINUX/SaveTrajectoryFltkMenu.o
echo "Compiling " VMDFltkMenu.C " --> " VMDFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c VMDFltkMenu.C -o ../LINUX/VMDFltkMenu.o
Compiling  SaveTrajectoryFltkMenu.C  -->  SaveTrajectoryFltkMenu.o  ...
Compiling  VMDFltkMenu.C  -->  VMDFltkMenu.o  ...
echo "Compiling " MainFltkMenu.C " --> " MainFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c MainFltkMenu.C -o ../LINUX/MainFltkMenu.o
Compiling  MainFltkMenu.C  -->  MainFltkMenu.o  ...
echo "Compiling " ToolFltkMenu.C " --> " ToolFltkMenu.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c ToolFltkMenu.C -o ../LINUX/ToolFltkMenu.o
Compiling  ToolFltkMenu.C  -->  ToolFltkMenu.o  ...
echo "Compiling " frame_selector.C " --> " frame_selector.o " ..."; \
	x86_64-pc-linux-gnu-g++ -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c frame_selector.C -o ../LINUX/frame_selector.o
Compiling  frame_selector.C  -->  frame_selector.o  ...
echo "Compiling " hash.c " --> " hash.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c hash.c -o ../LINUX/hash.o
Compiling  hash.c  -->  hash.o  ...
echo "Compiling " inthash.c " --> " inthash.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c inthash.c -o ../LINUX/inthash.o
echo "Compiling " intstack.c " --> " intstack.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c intstack.c -o ../LINUX/intstack.o
Compiling  inthash.c  -->  inthash.o  ...
Compiling  intstack.c  -->  intstack.o  ...
echo "Compiling " msmpot.c " --> " msmpot.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c msmpot.c -o ../LINUX/msmpot.o
echo "Compiling " msmpot_compute.c " --> " msmpot_compute.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c msmpot_compute.c -o ../LINUX/msmpot_compute.o
Compiling  msmpot.c  -->  msmpot.o  ...
Compiling  msmpot_compute.c  -->  msmpot_compute.o  ...
echo "Compiling " msmpot_cubic.c " --> " msmpot_cubic.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c msmpot_cubic.c -o ../LINUX/msmpot_cubic.o
Compiling  msmpot_cubic.c  -->  msmpot_cubic.o  ...
echo "Compiling " msmpot_setup.c " --> " msmpot_setup.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c msmpot_setup.c -o ../LINUX/msmpot_setup.o
echo "Compiling " vmdsock.c " --> " vmdsock.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c vmdsock.c -o ../LINUX/vmdsock.o
Compiling  msmpot_setup.c  -->  msmpot_setup.o  ...
Compiling  vmdsock.c  -->  vmdsock.o  ...
echo "Compiling " vmddlopen.c " --> " vmddlopen.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c vmddlopen.c -o ../LINUX/vmddlopen.o
Compiling  vmddlopen.c  -->  vmddlopen.o  ...
echo "Compiling " pcre.c " --> " pcre.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c pcre.c -o ../LINUX/pcre.o
echo "Compiling " fitrms.c " --> " fitrms.o " ..."; \
	x86_64-pc-linux-gnu-gcc -march=nocona -O2 -pipe -fomit-frame-pointer -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -c fitrms.c -o ../LINUX/fitrms.o
Compiling  pcre.c  -->  pcre.o  ...
Compiling  fitrms.c  -->  fitrms.o  ...
echo "Compiling " msmpot_cuda.cu " --> " msmpot_cuda.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c msmpot_cuda.cu -o ../LINUX/msmpot_cuda.o
echo "Compiling " msmpot_cuda_latcut.cu " --> " msmpot_cuda_latcut.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c msmpot_cuda_latcut.cu -o ../LINUX/msmpot_cuda_latcut.o
Compiling  msmpot_cuda.cu  -->  msmpot_cuda.o  ...
Compiling  msmpot_cuda_latcut.cu  -->  msmpot_cuda_latcut.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
echo "Compiling " msmpot_cuda_shortrng.cu " --> " msmpot_cuda_shortrng.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c msmpot_cuda_shortrng.cu -o ../LINUX/msmpot_cuda_shortrng.o
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-8_msmpot_cuda.compute_20.cpp1.ii" "msmpot_cuda.cu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-8_msmpot_cuda_latcut.compute_20.cpp1.ii" "msmpot_cuda_latcut.cu" 
Compiling  msmpot_cuda_shortrng.cu  -->  msmpot_cuda_shortrng.o  ...
echo "Compiling " CUDABench.cu " --> " CUDABench.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDABench.cu -o ../LINUX/CUDABench.o
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
Compiling  CUDABench.cu  -->  CUDABench.o  ...
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-8_msmpot_cuda_shortrng.compute_20.cpp1.ii" "msmpot_cuda_shortrng.cu" 
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-8_CUDABench.compute_20.cpp1.ii" "CUDABench.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-8_msmpot_cuda_latcut.compute_20.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-8_CUDABench.compute_20.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-8_msmpot_cuda.compute_20.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-8_msmpot_cuda_shortrng.compute_20.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-9_msmpot_cuda.compute_20.cpp2.i" "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-9_msmpot_cuda_shortrng.compute_20.cpp2.i" "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-10_msmpot_cuda_shortrng.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-10_msmpot_cuda_shortrng.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-10_msmpot_cuda_shortrng.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-9_msmpot_cuda_shortrng.compute_20.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-10_msmpot_cuda.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-10_msmpot_cuda.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-10_msmpot_cuda.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-9_msmpot_cuda.compute_20.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-11_msmpot_cuda_shortrng.compute_20.cpp3.i" "/tmp/tmpxft_00005ca7_00000000-10_msmpot_cuda_shortrng.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-11_msmpot_cuda.compute_20.cpp3.i" "/tmp/tmpxft_00005c9f_00000000-10_msmpot_cuda.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-9_msmpot_cuda_latcut.compute_20.cpp2.i" "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-12_msmpot_cuda_shortrng.compute_10.cpp1.ii" "msmpot_cuda_shortrng.cu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-9_CUDABench.compute_20.cpp2.i" "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-12_msmpot_cuda.compute_10.cpp1.ii" "msmpot_cuda.cu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-10_msmpot_cuda_latcut.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-10_msmpot_cuda_latcut.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-10_msmpot_cuda_latcut.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-9_msmpot_cuda_latcut.compute_20.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-10_CUDABench.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-10_CUDABench.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-10_CUDABench.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-9_CUDABench.compute_20.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-11_CUDABench.compute_20.cpp3.i" "/tmp/tmpxft_00005cad_00000000-10_CUDABench.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-11_msmpot_cuda_latcut.compute_20.cpp3.i" "/tmp/tmpxft_00005ca1_00000000-10_msmpot_cuda_latcut.compute_20.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-12_msmpot_cuda_shortrng.compute_10.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-12_msmpot_cuda.compute_10.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-12_CUDABench.compute_10.cpp1.ii" "CUDABench.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-12_msmpot_cuda_latcut.compute_10.cpp1.ii" "msmpot_cuda_latcut.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-13_msmpot_cuda.compute_10.cpp2.i" "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-13_msmpot_cuda_shortrng.compute_10.cpp2.i" "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-12_CUDABench.compute_10.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-12_msmpot_cuda_latcut.compute_10.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-14_msmpot_cuda_shortrng.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-14_msmpot_cuda_shortrng.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-14_msmpot_cuda_shortrng.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-13_msmpot_cuda_shortrng.compute_10.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-14_msmpot_cuda.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-14_msmpot_cuda.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-14_msmpot_cuda.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-13_msmpot_cuda.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-15_msmpot_cuda.compute_10.cpp3.i" "/tmp/tmpxft_00005c9f_00000000-14_msmpot_cuda.compute_10.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-16_msmpot_cuda.compute_13.cpp1.ii" "msmpot_cuda.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-15_msmpot_cuda_shortrng.compute_10.cpp3.i" "/tmp/tmpxft_00005ca7_00000000-14_msmpot_cuda_shortrng.compute_10.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-16_msmpot_cuda_shortrng.compute_13.cpp1.ii" "msmpot_cuda_shortrng.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-16_msmpot_cuda.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-13_CUDABench.compute_10.cpp2.i" "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-16_msmpot_cuda_shortrng.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-13_msmpot_cuda_latcut.compute_10.cpp2.i" "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-14_CUDABench.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-14_CUDABench.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-14_CUDABench.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-13_CUDABench.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-15_CUDABench.compute_10.cpp3.i" "/tmp/tmpxft_00005cad_00000000-14_CUDABench.compute_10.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-14_msmpot_cuda_latcut.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-14_msmpot_cuda_latcut.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-14_msmpot_cuda_latcut.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-13_msmpot_cuda_latcut.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-16_CUDABench.compute_13.cpp1.ii" "CUDABench.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-15_msmpot_cuda_latcut.compute_10.cpp3.i" "/tmp/tmpxft_00005ca1_00000000-14_msmpot_cuda_latcut.compute_10.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-16_msmpot_cuda_latcut.compute_13.cpp1.ii" "msmpot_cuda_latcut.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-17_msmpot_cuda.compute_13.cpp2.i" "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-16_CUDABench.compute_13.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-18_msmpot_cuda.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-18_msmpot_cuda.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005c9f_00000000-18_msmpot_cuda.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "/tmp/tmpxft_00005c9f_00000000-17_msmpot_cuda.compute_13.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-17_msmpot_cuda_shortrng.compute_13.cpp2.i" "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-16_msmpot_cuda_latcut.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-19_msmpot_cuda.compute_13.cpp3.i" "/tmp/tmpxft_00005c9f_00000000-18_msmpot_cuda.compute_13.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-18_msmpot_cuda_shortrng.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-18_msmpot_cuda_shortrng.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca7_00000000-18_msmpot_cuda_shortrng.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "/tmp/tmpxft_00005ca7_00000000-17_msmpot_cuda_shortrng.compute_13.cpp2.i" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005c9f_00000000-11_msmpot_cuda.compute_20.cpp3.i" "/tmp/tmpxft_00005c9f_00000000-15_msmpot_cuda.compute_10.cpp3.i" "/tmp/tmpxft_00005c9f_00000000-19_msmpot_cuda.compute_13.cpp3.i" > "/tmp/tmpxft_00005c9f_00000000-20_msmpot_cuda.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-21_msmpot_cuda.cpp4.ii" "msmpot_cuda.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-19_msmpot_cuda_shortrng.compute_13.cpp3.i" "/tmp/tmpxft_00005ca7_00000000-18_msmpot_cuda_shortrng.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005ca7_00000000-11_msmpot_cuda_shortrng.compute_20.cpp3.i" "/tmp/tmpxft_00005ca7_00000000-15_msmpot_cuda_shortrng.compute_10.cpp3.i" "/tmp/tmpxft_00005ca7_00000000-19_msmpot_cuda_shortrng.compute_13.cpp3.i" > "/tmp/tmpxft_00005ca7_00000000-20_msmpot_cuda_shortrng.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-21_msmpot_cuda_shortrng.cpp4.ii" "msmpot_cuda_shortrng.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005c9f_00000000-21_msmpot_cuda.cpp4.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-17_CUDABench.compute_13.cpp2.i" "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-17_msmpot_cuda_latcut.compute_13.cpp2.i" "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-18_msmpot_cuda_latcut.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-18_msmpot_cuda_latcut.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ca1_00000000-18_msmpot_cuda_latcut.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "/tmp/tmpxft_00005ca1_00000000-17_msmpot_cuda_latcut.compute_13.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-18_CUDABench.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005cad_00000000-18_CUDABench.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005cad_00000000-18_CUDABench.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "/tmp/tmpxft_00005cad_00000000-17_CUDABench.compute_13.cpp2.i" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005ca7_00000000-21_msmpot_cuda_shortrng.cpp4.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-19_msmpot_cuda_latcut.compute_13.cpp3.i" "/tmp/tmpxft_00005ca1_00000000-18_msmpot_cuda_latcut.compute_13.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-19_CUDABench.compute_13.cpp3.i" "/tmp/tmpxft_00005cad_00000000-18_CUDABench.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005ca1_00000000-11_msmpot_cuda_latcut.compute_20.cpp3.i" "/tmp/tmpxft_00005ca1_00000000-15_msmpot_cuda_latcut.compute_10.cpp3.i" "/tmp/tmpxft_00005ca1_00000000-19_msmpot_cuda_latcut.compute_13.cpp3.i" > "/tmp/tmpxft_00005ca1_00000000-20_msmpot_cuda_latcut.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-21_msmpot_cuda_latcut.cpp4.ii" "msmpot_cuda_latcut.cu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005cad_00000000-11_CUDABench.compute_20.cpp3.i" "/tmp/tmpxft_00005cad_00000000-15_CUDABench.compute_10.cpp3.i" "/tmp/tmpxft_00005cad_00000000-19_CUDABench.compute_13.cpp3.i" > "/tmp/tmpxft_00005cad_00000000-20_CUDABench.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-21_CUDABench.cpp4.ii" "CUDABench.cu" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005c9f_00000000-22_msmpot_cuda.compute_20" "/tmp/tmpxft_00005c9f_00000000-11_msmpot_cuda.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005c9f_00000000-7_msmpot_cuda.compute_20.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005ca1_00000000-21_msmpot_cuda_latcut.cpp4.ii" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005cad_00000000-21_CUDABench.cpp4.ii" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005ca7_00000000-22_msmpot_cuda_shortrng.compute_20" "/tmp/tmpxft_00005ca7_00000000-11_msmpot_cuda_shortrng.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005ca7_00000000-7_msmpot_cuda_shortrng.compute_20.ptx"
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005ca1_00000000-22_msmpot_cuda_latcut.compute_20" "/tmp/tmpxft_00005ca1_00000000-11_msmpot_cuda_latcut.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005ca1_00000000-7_msmpot_cuda_latcut.compute_20.ptx"
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005c9f_00000000-7_msmpot_cuda.compute_20.ptx"  -o "/tmp/tmpxft_00005c9f_00000000-23_msmpot_cuda.compute_20.cubin" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005cad_00000000-22_CUDABench.compute_20" "/tmp/tmpxft_00005cad_00000000-11_CUDABench.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005cad_00000000-7_CUDABench.compute_20.ptx"
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_20'
ptxas info    : Used 2 registers, 32 bytes cmem[0]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-24_msmpot_cuda.cpp4.ii" "msmpot_cuda.cu" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005ca7_00000000-7_msmpot_cuda_shortrng.compute_20.ptx"  -o "/tmp/tmpxft_00005ca7_00000000-23_msmpot_cuda_shortrng.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z15cuda_shortrangePfifffffffffiP6float4iiiifffff' for 'sm_20'
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-4_msmpot_cuda.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005c9f_00000000-24_msmpot_cuda.cpp4.ii" 
ptxas info    : Used 33 registers, 156+0 bytes smem, 132 bytes cmem[0], 64000 bytes cmem[2], 4 bytes cmem[16]
ptxas info    : Compiling entry function '_Z27cuda_shortrange_nonperiodicPfiffffffP6float4iiiifffff' for 'sm_20'
ptxas info    : Used 30 registers, 156+0 bytes smem, 116 bytes cmem[0], 64000 bytes cmem[2]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-24_msmpot_cuda_shortrng.cpp4.ii" "msmpot_cuda_shortrng.cu" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005ca1_00000000-7_msmpot_cuda_latcut.compute_20.ptx"  -o "/tmp/tmpxft_00005ca1_00000000-23_msmpot_cuda_latcut.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z11cuda_latcutjiiiPfS_' for 'sm_20'
ptxas info    : Used 61 registers, 2048+0 bytes smem, 64 bytes cmem[0], 55856 bytes cmem[2]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-24_msmpot_cuda_latcut.cpp4.ii" "msmpot_cuda_latcut.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-4_msmpot_cuda_shortrng.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005ca7_00000000-24_msmpot_cuda_shortrng.cpp4.ii" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005c9f_00000000-25_msmpot_cuda.compute_10" "/tmp/tmpxft_00005c9f_00000000-15_msmpot_cuda.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005c9f_00000000-5_msmpot_cuda.compute_10.ptx"
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005cad_00000000-7_CUDABench.compute_20.ptx"  -o "/tmp/tmpxft_00005cad_00000000-23_CUDABench.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z10voidkernelv' for 'sm_20'
ptxas info    : Used 2 registers, 32 bytes cmem[0], 4 bytes cmem[16]
ptxas info    : Compiling entry function '_Z9nopkernelPf' for 'sm_20'
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-4_msmpot_cuda_latcut.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005ca1_00000000-24_msmpot_cuda_latcut.cpp4.ii" 
ptxas info    : Used 9 registers, 40 bytes cmem[0]
ptxas info    : Compiling entry function '_Z15gpuglobmemcpybwIfEvPT_PKS0_' for 'sm_20'
ptxas info    : Used 7 registers, 48 bytes cmem[0]
ptxas info    : Compiling entry function '_Z15gpuglobmemsetbwIfEvPT_S0_' for 'sm_20'
ptxas info    : Used 5 registers, 44 bytes cmem[0]
ptxas info    : Compiling entry function '_Z11madd_kernelPf' for 'sm_20'
ptxas info    : Used 19 registers, 40 bytes cmem[0]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-24_CUDABench.cpp4.ii" "CUDABench.cu" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ca7_00000000-25_msmpot_cuda_shortrng.compute_10" "/tmp/tmpxft_00005ca7_00000000-15_msmpot_cuda_shortrng.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005ca7_00000000-5_msmpot_cuda_shortrng.compute_10.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005cad_00000000-4_CUDABench.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005cad_00000000-24_CUDABench.cpp4.ii" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ca1_00000000-25_msmpot_cuda_latcut.compute_10" "/tmp/tmpxft_00005ca1_00000000-15_msmpot_cuda_latcut.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005ca1_00000000-5_msmpot_cuda_latcut.compute_10.ptx"
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005c9f_00000000-5_msmpot_cuda.compute_10.ptx"  -o "/tmp/tmpxft_00005c9f_00000000-26_msmpot_cuda.compute_10.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_10'
ptxas info    : Used 0 registers
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005c9f_00000000-27_msmpot_cuda.cpp4.ii" "msmpot_cuda.cu" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005cad_00000000-25_CUDABench.compute_10" "/tmp/tmpxft_00005cad_00000000-15_CUDABench.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005cad_00000000-5_CUDABench.compute_10.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005c9f_00000000-1_msmpot_cuda.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005c9f_00000000-27_msmpot_cuda.cpp4.ii" 
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005ca7_00000000-5_msmpot_cuda_shortrng.compute_10.ptx"  -o "/tmp/tmpxft_00005ca7_00000000-26_msmpot_cuda_shortrng.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z15cuda_shortrangePfifffffffffiP6float4iiiifffff' for 'sm_10'
ptxas info    : Used 36 registers, 252+16 bytes smem, 64000 bytes cmem[0], 36 bytes cmem[1]
ptxas info    : Compiling entry function '_Z27cuda_shortrange_nonperiodicPfiffffffP6float4iiiifffff' for 'sm_10'
ptxas info    : Used 32 registers, 236+16 bytes smem, 64000 bytes cmem[0], 24 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca7_00000000-27_msmpot_cuda_shortrng.cpp4.ii" "msmpot_cuda_shortrng.cu" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005c9f_00000000-28_msmpot_cuda.compute_13" "/tmp/tmpxft_00005c9f_00000000-19_msmpot_cuda.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005c9f_00000000-2_msmpot_cuda.compute_13.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca7_00000000-1_msmpot_cuda_shortrng.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005ca7_00000000-27_msmpot_cuda_shortrng.cpp4.ii" 
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005ca1_00000000-5_msmpot_cuda_latcut.compute_10.ptx"  -o "/tmp/tmpxft_00005ca1_00000000-26_msmpot_cuda_latcut.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z11cuda_latcutjiiiPfS_' for 'sm_10'
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005cad_00000000-5_CUDABench.compute_10.ptx"  -o "/tmp/tmpxft_00005cad_00000000-26_CUDABench.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z10voidkernelv' for 'sm_10'
ptxas info    : Used 0 registers
ptxas info    : Compiling entry function '_Z9nopkernelPf' for 'sm_10'
ptxas info    : Used 42 registers, 2080+16 bytes smem, 55856 bytes cmem[0], 4 bytes cmem[1]
ptxas info    : Used 6 registers, 8+16 bytes smem, 4 bytes cmem[1]
ptxas info    : Compiling entry function '_Z15gpuglobmemcpybwIfEvPT_PKS0_' for 'sm_10'
ptxas info    : Used 3 registers, 16+16 bytes smem
ptxas info    : Compiling entry function '_Z15gpuglobmemsetbwIfEvPT_S0_' for 'sm_10'
ptxas info    : Used 2 registers, 12+16 bytes smem
ptxas info    : Compiling entry function '_Z11madd_kernelPf' for 'sm_10'
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ca1_00000000-27_msmpot_cuda_latcut.cpp4.ii" "msmpot_cuda_latcut.cu" 
ptxas info    : Used 20 registers, 8+16 bytes smem, 4 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005cad_00000000-27_CUDABench.cpp4.ii" "CUDABench.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ca1_00000000-1_msmpot_cuda_latcut.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005ca1_00000000-27_msmpot_cuda_latcut.cpp4.ii" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ca7_00000000-28_msmpot_cuda_shortrng.compute_13" "/tmp/tmpxft_00005ca7_00000000-19_msmpot_cuda_shortrng.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005ca7_00000000-2_msmpot_cuda_shortrng.compute_13.ptx"
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005c9f_00000000-2_msmpot_cuda.compute_13.ptx"  -o "/tmp/tmpxft_00005c9f_00000000-29_msmpot_cuda.compute_13.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_13'
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005cad_00000000-1_CUDABench.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005cad_00000000-27_CUDABench.cpp4.ii" 
ptxas info    : Used 0 registers
#$ fatbin --key="bcbc178ec06d0fd9" --source-name="msmpot_cuda.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005c9f_00000000-3_msmpot_cuda.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005c9f_00000000-23_msmpot_cuda.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005c9f_00000000-26_msmpot_cuda.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005c9f_00000000-29_msmpot_cuda.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005c9f_00000000-30_msmpot_cuda.compute_20.ii" "/tmp/tmpxft_00005c9f_00000000-6_msmpot_cuda.compute_20.cudafe1.cpp" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/msmpot_cuda.o" "/tmp/tmpxft_00005c9f_00000000-30_msmpot_cuda.compute_20.ii" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ca1_00000000-28_msmpot_cuda_latcut.compute_13" "/tmp/tmpxft_00005ca1_00000000-19_msmpot_cuda_latcut.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005ca1_00000000-2_msmpot_cuda_latcut.compute_13.ptx"
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005cad_00000000-28_CUDABench.compute_13" "/tmp/tmpxft_00005cad_00000000-19_CUDABench.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005cad_00000000-2_CUDABench.compute_13.ptx"
echo "Compiling " CUDAClearDevice.cu " --> " CUDAClearDevice.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAClearDevice.cu -o ../LINUX/CUDAClearDevice.o
Compiling  CUDAClearDevice.cu  -->  CUDAClearDevice.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-8_CUDAClearDevice.compute_20.cpp1.ii" "CUDAClearDevice.cu" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005ca7_00000000-2_msmpot_cuda_shortrng.compute_13.ptx"  -o "/tmp/tmpxft_00005ca7_00000000-29_msmpot_cuda_shortrng.compute_13.cubin" 
ptxas info    : Compiling entry function '_Z15cuda_shortrangePfifffffffffiP6float4iiiifffff' for 'sm_13'
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-8_CUDAClearDevice.compute_20.cpp1.ii" 
ptxas info    : Used 36 registers, 252+16 bytes smem, 64000 bytes cmem[0], 36 bytes cmem[1]
ptxas info    : Compiling entry function '_Z27cuda_shortrange_nonperiodicPfiffffffP6float4iiiifffff' for 'sm_13'
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005ca1_00000000-2_msmpot_cuda_latcut.compute_13.ptx"  -o "/tmp/tmpxft_00005ca1_00000000-29_msmpot_cuda_latcut.compute_13.cubin" 
ptxas info    : Used 32 registers, 236+16 bytes smem, 64000 bytes cmem[0], 24 bytes cmem[1]
#$ fatbin --key="1907aad3531a5912" --source-name="msmpot_cuda_shortrng.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005ca7_00000000-3_msmpot_cuda_shortrng.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005ca7_00000000-23_msmpot_cuda_shortrng.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005ca7_00000000-26_msmpot_cuda_shortrng.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005ca7_00000000-29_msmpot_cuda_shortrng.compute_13.cubin" 
ptxas info    : Compiling entry function '_Z11cuda_latcutjiiiPfS_' for 'sm_13'
ptxas info    : Used 42 registers, 2080+16 bytes smem, 55856 bytes cmem[0], 4 bytes cmem[1]
#$ fatbin --key="c278e3c19141fec2" --source-name="msmpot_cuda_latcut.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005ca1_00000000-3_msmpot_cuda_latcut.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005ca1_00000000-23_msmpot_cuda_latcut.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005ca1_00000000-26_msmpot_cuda_latcut.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005ca1_00000000-29_msmpot_cuda_latcut.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca7_00000000-30_msmpot_cuda_shortrng.compute_20.ii" "/tmp/tmpxft_00005ca7_00000000-6_msmpot_cuda_shortrng.compute_20.cudafe1.cpp" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005cad_00000000-2_CUDABench.compute_13.ptx"  -o "/tmp/tmpxft_00005cad_00000000-29_CUDABench.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ca1_00000000-30_msmpot_cuda_latcut.compute_20.ii" "/tmp/tmpxft_00005ca1_00000000-6_msmpot_cuda_latcut.compute_20.cudafe1.cpp" 
ptxas info    : Compiling entry function '_Z10voidkernelv' for 'sm_13'
ptxas info    : Used 0 registers
ptxas info    : Compiling entry function '_Z9nopkernelPf' for 'sm_13'
ptxas info    : Used 6 registers, 8+16 bytes smem, 4 bytes cmem[1]
ptxas info    : Compiling entry function '_Z15gpuglobmemcpybwIfEvPT_PKS0_' for 'sm_13'
ptxas info    : Used 3 registers, 16+16 bytes smem
ptxas info    : Compiling entry function '_Z15gpuglobmemsetbwIfEvPT_S0_' for 'sm_13'
ptxas info    : Used 2 registers, 12+16 bytes smem
ptxas info    : Compiling entry function '_Z11madd_kernelPf' for 'sm_13'
ptxas info    : Used 19 registers, 8+16 bytes smem, 4 bytes cmem[1]
#$ fatbin --key="5e0d547c6a4fcee8" --source-name="CUDABench.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005cad_00000000-3_CUDABench.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005cad_00000000-23_CUDABench.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005cad_00000000-26_CUDABench.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005cad_00000000-29_CUDABench.compute_13.cubin" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/msmpot_cuda_shortrng.o" "/tmp/tmpxft_00005ca7_00000000-30_msmpot_cuda_shortrng.compute_20.ii" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005cad_00000000-30_CUDABench.compute_20.ii" "/tmp/tmpxft_00005cad_00000000-6_CUDABench.compute_20.cudafe1.cpp" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/msmpot_cuda_latcut.o" "/tmp/tmpxft_00005ca1_00000000-30_msmpot_cuda_latcut.compute_20.ii" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-9_CUDAClearDevice.compute_20.cpp2.i" "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.gpu" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDABench.o" "/tmp/tmpxft_00005cad_00000000-30_CUDABench.compute_20.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-10_CUDAClearDevice.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-10_CUDAClearDevice.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-10_CUDAClearDevice.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-9_CUDAClearDevice.compute_20.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-11_CUDAClearDevice.compute_20.cpp3.i" "/tmp/tmpxft_00005ddd_00000000-10_CUDAClearDevice.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-12_CUDAClearDevice.compute_10.cpp1.ii" "CUDAClearDevice.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-12_CUDAClearDevice.compute_10.cpp1.ii" 
echo "Compiling " CUDAMeasureRDF.cu " --> " CUDAMeasureRDF.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAMeasureRDF.cu -o ../LINUX/CUDAMeasureRDF.o
Compiling  CUDAMeasureRDF.cu  -->  CUDAMeasureRDF.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-8_CUDAMeasureRDF.compute_20.cpp1.ii" "CUDAMeasureRDF.cu" 
echo "Compiling " CUDAOrbital.cu " --> " CUDAOrbital.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAOrbital.cu -o ../LINUX/CUDAOrbital.o
Compiling  CUDAOrbital.cu  -->  CUDAOrbital.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-8_CUDAOrbital.compute_20.cpp1.ii" "CUDAOrbital.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-8_CUDAOrbital.compute_20.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-13_CUDAClearDevice.compute_10.cpp2.i" "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-8_CUDAMeasureRDF.compute_20.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-14_CUDAClearDevice.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-14_CUDAClearDevice.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-14_CUDAClearDevice.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-13_CUDAClearDevice.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-15_CUDAClearDevice.compute_10.cpp3.i" "/tmp/tmpxft_00005ddd_00000000-14_CUDAClearDevice.compute_10.cudafe2.gpu" 
echo "Compiling " CUDAUtil.cu " --> " CUDAUtil.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAUtil.cu -o ../LINUX/CUDAUtil.o
Compiling  CUDAUtil.cu  -->  CUDAUtil.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-16_CUDAClearDevice.compute_13.cpp1.ii" "CUDAClearDevice.cu" 
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-8_CUDAUtil.compute_20.cpp1.ii" "CUDAUtil.cu" 
CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-9_CUDAOrbital.compute_20.cpp2.i" "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-10_CUDAOrbital.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-10_CUDAOrbital.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-10_CUDAOrbital.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-9_CUDAOrbital.compute_20.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-11_CUDAOrbital.compute_20.cpp3.i" "/tmp/tmpxft_00005e2a_00000000-10_CUDAOrbital.compute_20.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-16_CUDAClearDevice.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-12_CUDAOrbital.compute_10.cpp1.ii" "CUDAOrbital.cu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-9_CUDAMeasureRDF.compute_20.cpp2.i" "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-8_CUDAUtil.compute_20.cpp1.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-10_CUDAMeasureRDF.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-10_CUDAMeasureRDF.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-10_CUDAMeasureRDF.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-9_CUDAMeasureRDF.compute_20.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-12_CUDAOrbital.compute_10.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-11_CUDAMeasureRDF.compute_20.cpp3.i" "/tmp/tmpxft_00005e25_00000000-10_CUDAMeasureRDF.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-17_CUDAClearDevice.compute_13.cpp2.i" "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-12_CUDAMeasureRDF.compute_10.cpp1.ii" "CUDAMeasureRDF.cu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-18_CUDAClearDevice.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-18_CUDAClearDevice.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005ddd_00000000-18_CUDAClearDevice.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "/tmp/tmpxft_00005ddd_00000000-17_CUDAClearDevice.compute_13.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-9_CUDAUtil.compute_20.cpp2.i" "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-19_CUDAClearDevice.compute_13.cpp3.i" "/tmp/tmpxft_00005ddd_00000000-18_CUDAClearDevice.compute_13.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-10_CUDAUtil.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-10_CUDAUtil.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-10_CUDAUtil.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-9_CUDAUtil.compute_20.cpp2.i" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005ddd_00000000-11_CUDAClearDevice.compute_20.cpp3.i" "/tmp/tmpxft_00005ddd_00000000-15_CUDAClearDevice.compute_10.cpp3.i" "/tmp/tmpxft_00005ddd_00000000-19_CUDAClearDevice.compute_13.cpp3.i" > "/tmp/tmpxft_00005ddd_00000000-20_CUDAClearDevice.hash"
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-12_CUDAMeasureRDF.compute_10.cpp1.ii" 
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-21_CUDAClearDevice.cpp4.ii" "CUDAClearDevice.cu" 
CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-11_CUDAUtil.compute_20.cpp3.i" "/tmp/tmpxft_00005e39_00000000-10_CUDAUtil.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-13_CUDAOrbital.compute_10.cpp2.i" "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-12_CUDAUtil.compute_10.cpp1.ii" "CUDAUtil.cu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-14_CUDAOrbital.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-14_CUDAOrbital.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-14_CUDAOrbital.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-13_CUDAOrbital.compute_10.cpp2.i" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005ddd_00000000-21_CUDAClearDevice.cpp4.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-15_CUDAOrbital.compute_10.cpp3.i" "/tmp/tmpxft_00005e2a_00000000-14_CUDAOrbital.compute_10.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-12_CUDAUtil.compute_10.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-16_CUDAOrbital.compute_13.cpp1.ii" "CUDAOrbital.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-13_CUDAMeasureRDF.compute_10.cpp2.i" "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-14_CUDAMeasureRDF.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-14_CUDAMeasureRDF.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-14_CUDAMeasureRDF.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-13_CUDAMeasureRDF.compute_10.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-16_CUDAOrbital.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-15_CUDAMeasureRDF.compute_10.cpp3.i" "/tmp/tmpxft_00005e25_00000000-14_CUDAMeasureRDF.compute_10.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-16_CUDAMeasureRDF.compute_13.cpp1.ii" "CUDAMeasureRDF.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-13_CUDAUtil.compute_10.cpp2.i" "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.gpu" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005ddd_00000000-22_CUDAClearDevice.compute_20" "/tmp/tmpxft_00005ddd_00000000-11_CUDAClearDevice.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005ddd_00000000-7_CUDAClearDevice.compute_20.ptx"
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-14_CUDAUtil.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-14_CUDAUtil.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-14_CUDAUtil.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-13_CUDAUtil.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-15_CUDAUtil.compute_10.cpp3.i" "/tmp/tmpxft_00005e39_00000000-14_CUDAUtil.compute_10.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-16_CUDAMeasureRDF.compute_13.cpp1.ii" 
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-16_CUDAUtil.compute_13.cpp1.ii" "CUDAUtil.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-17_CUDAOrbital.compute_13.cpp2.i" "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-18_CUDAOrbital.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-18_CUDAOrbital.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e2a_00000000-18_CUDAOrbital.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "/tmp/tmpxft_00005e2a_00000000-17_CUDAOrbital.compute_13.cpp2.i" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-16_CUDAUtil.compute_13.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-19_CUDAOrbital.compute_13.cpp3.i" "/tmp/tmpxft_00005e2a_00000000-18_CUDAOrbital.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005e2a_00000000-11_CUDAOrbital.compute_20.cpp3.i" "/tmp/tmpxft_00005e2a_00000000-15_CUDAOrbital.compute_10.cpp3.i" "/tmp/tmpxft_00005e2a_00000000-19_CUDAOrbital.compute_13.cpp3.i" > "/tmp/tmpxft_00005e2a_00000000-20_CUDAOrbital.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-21_CUDAOrbital.cpp4.ii" "CUDAOrbital.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-17_CUDAMeasureRDF.compute_13.cpp2.i" "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.gpu" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005ddd_00000000-7_CUDAClearDevice.compute_20.ptx"  -o "/tmp/tmpxft_00005ddd_00000000-23_CUDAClearDevice.compute_20.cubin" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005e2a_00000000-21_CUDAOrbital.cpp4.ii" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_20'
ptxas info    : Used 2 registers, 32 bytes cmem[0], 65536 bytes cmem[2]
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-18_CUDAMeasureRDF.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e25_00000000-18_CUDAMeasureRDF.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e25_00000000-18_CUDAMeasureRDF.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "/tmp/tmpxft_00005e25_00000000-17_CUDAMeasureRDF.compute_13.cpp2.i" 
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-24_CUDAClearDevice.cpp4.ii" "CUDAClearDevice.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-17_CUDAUtil.compute_13.cpp2.i" "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-19_CUDAMeasureRDF.compute_13.cpp3.i" "/tmp/tmpxft_00005e25_00000000-18_CUDAMeasureRDF.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005e25_00000000-11_CUDAMeasureRDF.compute_20.cpp3.i" "/tmp/tmpxft_00005e25_00000000-15_CUDAMeasureRDF.compute_10.cpp3.i" "/tmp/tmpxft_00005e25_00000000-19_CUDAMeasureRDF.compute_13.cpp3.i" > "/tmp/tmpxft_00005e25_00000000-20_CUDAMeasureRDF.hash"
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-18_CUDAUtil.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005e39_00000000-18_CUDAUtil.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005e39_00000000-18_CUDAUtil.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "/tmp/tmpxft_00005e39_00000000-17_CUDAUtil.compute_13.cpp2.i" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-4_CUDAClearDevice.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005ddd_00000000-24_CUDAClearDevice.cpp4.ii" 
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-21_CUDAMeasureRDF.cpp4.ii" "CUDAMeasureRDF.cu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-19_CUDAUtil.compute_13.cpp3.i" "/tmp/tmpxft_00005e39_00000000-18_CUDAUtil.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005e39_00000000-11_CUDAUtil.compute_20.cpp3.i" "/tmp/tmpxft_00005e39_00000000-15_CUDAUtil.compute_10.cpp3.i" "/tmp/tmpxft_00005e39_00000000-19_CUDAUtil.compute_13.cpp3.i" > "/tmp/tmpxft_00005e39_00000000-20_CUDAUtil.hash"
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-21_CUDAUtil.cpp4.ii" "CUDAUtil.cu" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005e2a_00000000-22_CUDAOrbital.compute_20" "/tmp/tmpxft_00005e2a_00000000-11_CUDAOrbital.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005e2a_00000000-7_CUDAOrbital.compute_20.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005e25_00000000-21_CUDAMeasureRDF.cpp4.ii" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005e39_00000000-21_CUDAUtil.cpp4.ii" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ddd_00000000-25_CUDAClearDevice.compute_10" "/tmp/tmpxft_00005ddd_00000000-15_CUDAClearDevice.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005ddd_00000000-5_CUDAClearDevice.compute_10.ptx"
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005e25_00000000-22_CUDAMeasureRDF.compute_20" "/tmp/tmpxft_00005e25_00000000-11_CUDAMeasureRDF.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005e25_00000000-7_CUDAMeasureRDF.compute_20.ptx"
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005e39_00000000-22_CUDAUtil.compute_20" "/tmp/tmpxft_00005e39_00000000-11_CUDAUtil.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005e39_00000000-7_CUDAUtil.compute_20.ptx"
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005e2a_00000000-7_CUDAOrbital.compute_20.ptx"  -o "/tmp/tmpxft_00005e2a_00000000-23_CUDAOrbital.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z22cuorbitalcachedglobmemiPKfS0_PK7flint_tPKiffffiPf' for 'sm_20'
ptxas info    : Used 30 registers, 104 bytes cmem[0], 62464 bytes cmem[2], 28 bytes cmem[16]
ptxas info    : Compiling entry function '_Z20cuorbitaltiledsharediPKfS0_PK7flint_tPKiffffiPf' for 'sm_20'
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005ddd_00000000-5_CUDAClearDevice.compute_10.ptx"  -o "/tmp/tmpxft_00005ddd_00000000-26_CUDAClearDevice.compute_10.cubin" 
ptxas info    : Used 31 registers, 2080+0 bytes smem, 104 bytes cmem[0], 62464 bytes cmem[2], 24 bytes cmem[16]
ptxas info    : Compiling entry function '_Z17cuorbitalconstmemiffffiPf' for 'sm_20'
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_10'
ptxas info    : Used 0 registers, 65536 bytes cmem[0]
ptxas info    : Used 30 registers, 64 bytes cmem[0], 62464 bytes cmem[2], 32 bytes cmem[16]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-24_CUDAOrbital.cpp4.ii" "CUDAOrbital.cu" 
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005ddd_00000000-27_CUDAClearDevice.cpp4.ii" "CUDAClearDevice.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-4_CUDAOrbital.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005e2a_00000000-24_CUDAOrbital.cpp4.ii" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005e39_00000000-7_CUDAUtil.compute_20.ptx"  -o "/tmp/tmpxft_00005e39_00000000-23_CUDAUtil.compute_20.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_20'
ptxas info    : Used 2 registers, 32 bytes cmem[0]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-24_CUDAUtil.cpp4.ii" "CUDAUtil.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005ddd_00000000-1_CUDAClearDevice.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005ddd_00000000-27_CUDAClearDevice.cpp4.ii" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005e25_00000000-7_CUDAMeasureRDF.compute_20.ptx"  -o "/tmp/tmpxft_00005e25_00000000-23_CUDAMeasureRDF.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z19calculate_histogramPfPji' for 'sm_20'
ptxas info    : Used 16 registers, 512+0 bytes smem, 52 bytes cmem[0], 65280 bytes cmem[2], 4 bytes cmem[16]
ptxas info    : Compiling entry function '_Z13calculate_rdfiPfii6float3Pjiff' for 'sm_20'
ptxas info    : Used 46 registers, 4480+0 bytes smem, 92 bytes cmem[0], 65280 bytes cmem[2], 8 bytes cmem[16]
ptxas info    : Compiling entry function '_Z11phantom_xyzPfiiff' for 'sm_20'
ptxas info    : Used 12 registers, 384+0 bytes smem, 56 bytes cmem[0], 65280 bytes cmem[2]
ptxas info    : Compiling entry function '_Z11reimage_xyzPfii6float3f' for 'sm_20'
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e39_00000000-4_CUDAUtil.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005e39_00000000-24_CUDAUtil.cpp4.ii" 
ptxas info    : Used 16 registers, 384+0 bytes smem, 64 bytes cmem[0], 65280 bytes cmem[2]
ptxas info    : Compiling entry function '_Z11init_hist_fPf' for 'sm_20'
ptxas info    : Used 4 registers, 40 bytes cmem[0], 65280 bytes cmem[2]
ptxas info    : Compiling entry function '_Z9init_histPji' for 'sm_20'
ptxas info    : Used 11 registers, 44 bytes cmem[0], 65280 bytes cmem[2]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-24_CUDAMeasureRDF.cpp4.ii" "CUDAMeasureRDF.cu" 
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e2a_00000000-25_CUDAOrbital.compute_10" "/tmp/tmpxft_00005e2a_00000000-15_CUDAOrbital.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005e2a_00000000-5_CUDAOrbital.compute_10.ptx"
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005ddd_00000000-28_CUDAClearDevice.compute_13" "/tmp/tmpxft_00005ddd_00000000-19_CUDAClearDevice.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005ddd_00000000-2_CUDAClearDevice.compute_13.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e25_00000000-4_CUDAMeasureRDF.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005e25_00000000-24_CUDAMeasureRDF.cpp4.ii" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e39_00000000-25_CUDAUtil.compute_10" "/tmp/tmpxft_00005e39_00000000-15_CUDAUtil.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005e39_00000000-5_CUDAUtil.compute_10.ptx"
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e25_00000000-25_CUDAMeasureRDF.compute_10" "/tmp/tmpxft_00005e25_00000000-15_CUDAMeasureRDF.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005e25_00000000-5_CUDAMeasureRDF.compute_10.ptx"
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005e2a_00000000-5_CUDAOrbital.compute_10.ptx"  -o "/tmp/tmpxft_00005e2a_00000000-26_CUDAOrbital.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z22cuorbitalcachedglobmemiPKfS0_PK7flint_tPKiffffiPf' for 'sm_10'
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005ddd_00000000-2_CUDAClearDevice.compute_13.ptx"  -o "/tmp/tmpxft_00005ddd_00000000-29_CUDAClearDevice.compute_13.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_13'
ptxas info    : Used 0 registers, 65536 bytes cmem[0]
#$ fatbin --key="8ac80c6a70b4b00c" --source-name="CUDAClearDevice.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005ddd_00000000-3_CUDAClearDevice.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005ddd_00000000-23_CUDAClearDevice.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005ddd_00000000-26_CUDAClearDevice.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005ddd_00000000-29_CUDAClearDevice.compute_13.cubin" 
ptxas info    : Used 24 registers, 72+16 bytes smem, 62464 bytes cmem[0], 28 bytes cmem[1]
ptxas info    : Compiling entry function '_Z20cuorbitaltiledsharediPKfS0_PK7flint_tPKiffffiPf' for 'sm_10'
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005ddd_00000000-30_CUDAClearDevice.compute_20.ii" "/tmp/tmpxft_00005ddd_00000000-6_CUDAClearDevice.compute_20.cudafe1.cpp" 
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005e39_00000000-5_CUDAUtil.compute_10.ptx"  -o "/tmp/tmpxft_00005e39_00000000-26_CUDAUtil.compute_10.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_10'
ptxas info    : Used 0 registers
ptxas info    : Used 28 registers, 2148+16 bytes smem, 62464 bytes cmem[0], 36 bytes cmem[1]
ptxas info    : Compiling entry function '_Z17cuorbitalconstmemiffffiPf' for 'sm_10'
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e39_00000000-27_CUDAUtil.cpp4.ii" "CUDAUtil.cu" 
ptxas info    : Used 21 registers, 32+16 bytes smem, 62464 bytes cmem[0], 28 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e2a_00000000-27_CUDAOrbital.cpp4.ii" "CUDAOrbital.cu" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAClearDevice.o" "/tmp/tmpxft_00005ddd_00000000-30_CUDAClearDevice.compute_20.ii" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e39_00000000-1_CUDAUtil.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005e39_00000000-27_CUDAUtil.cpp4.ii" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e2a_00000000-1_CUDAOrbital.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005e2a_00000000-27_CUDAOrbital.cpp4.ii" 
CUDAClearDevice.cu: In function 'void* vmd_cuda_devpool_clear_device_mem(void*)':
CUDAClearDevice.cu:93:83: warning: format '%d' expects type 'int', but argument 6 has type 'size_t'
CUDAClearDevice.cu:98:105: warning: format '%d' expects type 'int', but argument 6 has type 'size_t'
CUDAClearDevice.cu:119:81: warning: format '%d' expects type 'int', but argument 3 has type 'size_t'
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e39_00000000-28_CUDAUtil.compute_13" "/tmp/tmpxft_00005e39_00000000-19_CUDAUtil.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005e39_00000000-2_CUDAUtil.compute_13.ptx"
echo "Compiling " CUDAVolCPotential.cu " --> " CUDAVolCPotential.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAVolCPotential.cu -o ../LINUX/CUDAVolCPotential.o
Compiling  CUDAVolCPotential.cu  -->  CUDAVolCPotential.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005e25_00000000-5_CUDAMeasureRDF.compute_10.ptx"  -o "/tmp/tmpxft_00005e25_00000000-26_CUDAMeasureRDF.compute_10.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-8_CUDAVolCPotential.compute_20.cpp1.ii" "CUDAVolCPotential.cu" 
CUDAOrbital.cu(674): warning: variable "h_orbitalgrid_zerocopy" was declared but never referenced

ptxas info    : Compiling entry function '_Z19calculate_histogramPfPji' for 'sm_10'
CUDAOrbital.cu(510): warning: function "cuorbitalcachedglobmem" was declared but never referenced

ptxas info    : Used 9 registers, 532+16 bytes smem, 65280 bytes cmem[0], 12 bytes cmem[1]
ptxas info    : Compiling entry function '_Z13calculate_rdfiPfii6float3Pjiff' for 'sm_10'
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e2a_00000000-28_CUDAOrbital.compute_13" "/tmp/tmpxft_00005e2a_00000000-19_CUDAOrbital.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005e2a_00000000-2_CUDAOrbital.compute_13.ptx"
ptxas info    : Used 16 registers, 4540+16 bytes smem, 65280 bytes cmem[0], 28 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11phantom_xyzPfiiff' for 'sm_10'
ptxas info    : Used 10 registers, 408+16 bytes smem, 65280 bytes cmem[0], 20 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11reimage_xyzPfii6float3f' for 'sm_10'
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-8_CUDAVolCPotential.compute_20.cpp1.ii" 
ptxas info    : Used 15 registers, 416+16 bytes smem, 65280 bytes cmem[0], 32 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11init_hist_fPf' for 'sm_10'
ptxas info    : Used 2 registers, 8+16 bytes smem, 65280 bytes cmem[0]
ptxas info    : Compiling entry function '_Z9init_histPji' for 'sm_10'
ptxas info    : Used 8 registers, 12+16 bytes smem, 65280 bytes cmem[0], 12 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005e25_00000000-27_CUDAMeasureRDF.cpp4.ii" "CUDAMeasureRDF.cu" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005e39_00000000-2_CUDAUtil.compute_13.ptx"  -o "/tmp/tmpxft_00005e39_00000000-29_CUDAUtil.compute_13.cubin" 
ptxas info    : Compiling entry function '__cuda_dummy_entry__' for 'sm_13'
ptxas info    : Used 0 registers
#$ fatbin --key="263e5319ffa244af" --source-name="CUDAUtil.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005e39_00000000-3_CUDAUtil.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005e39_00000000-23_CUDAUtil.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005e39_00000000-26_CUDAUtil.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005e39_00000000-29_CUDAUtil.compute_13.cubin" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005e25_00000000-1_CUDAMeasureRDF.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005e25_00000000-27_CUDAMeasureRDF.cpp4.ii" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-9_CUDAVolCPotential.compute_20.cpp2.i" "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.gpu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e39_00000000-30_CUDAUtil.compute_20.ii" "/tmp/tmpxft_00005e39_00000000-6_CUDAUtil.compute_20.cudafe1.cpp" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-10_CUDAVolCPotential.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-10_CUDAVolCPotential.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-10_CUDAVolCPotential.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-9_CUDAVolCPotential.compute_20.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-11_CUDAVolCPotential.compute_20.cpp3.i" "/tmp/tmpxft_00005f44_00000000-10_CUDAVolCPotential.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-12_CUDAVolCPotential.compute_10.cpp1.ii" "CUDAVolCPotential.cu" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAUtil.o" "/tmp/tmpxft_00005e39_00000000-30_CUDAUtil.compute_20.ii" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005e2a_00000000-2_CUDAOrbital.compute_13.ptx"  -o "/tmp/tmpxft_00005e2a_00000000-29_CUDAOrbital.compute_13.cubin" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-12_CUDAVolCPotential.compute_10.cpp1.ii" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005e25_00000000-28_CUDAMeasureRDF.compute_13" "/tmp/tmpxft_00005e25_00000000-19_CUDAMeasureRDF.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005e25_00000000-2_CUDAMeasureRDF.compute_13.ptx"
ptxas info    : Compiling entry function '_Z22cuorbitalcachedglobmemiPKfS0_PK7flint_tPKiffffiPf' for 'sm_13'
ptxas info    : Used 24 registers, 72+16 bytes smem, 62464 bytes cmem[0], 36 bytes cmem[1]
ptxas info    : Compiling entry function '_Z20cuorbitaltiledsharediPKfS0_PK7flint_tPKiffffiPf' for 'sm_13'
ptxas info    : Used 28 registers, 2148+16 bytes smem, 62464 bytes cmem[0], 48 bytes cmem[1]
ptxas info    : Compiling entry function '_Z17cuorbitalconstmemiffffiPf' for 'sm_13'
ptxas info    : Used 21 registers, 32+16 bytes smem, 62464 bytes cmem[0], 36 bytes cmem[1]
#$ fatbin --key="56c3b8a586e37fe6" --source-name="CUDAOrbital.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005e2a_00000000-3_CUDAOrbital.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005e2a_00000000-23_CUDAOrbital.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005e2a_00000000-26_CUDAOrbital.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005e2a_00000000-29_CUDAOrbital.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e2a_00000000-30_CUDAOrbital.compute_20.ii" "/tmp/tmpxft_00005e2a_00000000-6_CUDAOrbital.compute_20.cudafe1.cpp" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAOrbital.o" "/tmp/tmpxft_00005e2a_00000000-30_CUDAOrbital.compute_20.ii" 
echo "Compiling " CUDAVolMapCreateILS.cu " --> " CUDAVolMapCreateILS.o " ..."; \
	/opt/cuda/bin/nvcc --ptxas-options=-v -gencode arch=compute_10,code=sm_10 -gencode arch=compute_13,code=sm_13 -gencode arch=compute_20,code=sm_20 --ftz=true  -O3 -v  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I. -c CUDAVolMapCreateILS.cu -o ../LINUX/CUDAVolMapCreateILS.o
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-13_CUDAVolCPotential.compute_10.cpp2.i" "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.gpu" 
Compiling  CUDAVolMapCreateILS.cu  -->  CUDAVolMapCreateILS.o  ...
#$ _SPACE_= 
#$ _CUDART_=cudart
#$ _HERE_=/opt/cuda/bin
#$ _THERE_=/opt/cuda/bin
#$ _TARGET_SIZE_=64
#$ TOP=/opt/cuda/bin/..
#$ LD_LIBRARY_PATH=/opt/cuda/bin/../lib:/opt/cuda/bin/../extools/lib:
#$ PATH=/opt/cuda/bin/../open64/bin:/opt/cuda/bin:/usr/lib/ccache/bin:/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.2:/opt/intel/Compiler/11.1/072/bin/intel64:/usr/lib64/subversion/bin:/opt/cuda/bin
#$ INCLUDES="-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"  
#$ LIBRARIES=  "-L/opt/cuda/bin/../lib64" -lcudart
#$ CUDAFE_FLAGS=
#$ OPENCC_FLAGS=
#$ PTXAS_FLAGS=
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-8_CUDAVolMapCreateILS.compute_20.cpp1.ii" "CUDAVolMapCreateILS.cu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-14_CUDAVolCPotential.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-14_CUDAVolCPotential.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-14_CUDAVolCPotential.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-13_CUDAVolCPotential.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-15_CUDAVolCPotential.compute_10.cpp3.i" "/tmp/tmpxft_00005f44_00000000-14_CUDAVolCPotential.compute_10.cudafe2.gpu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-8_CUDAVolMapCreateILS.compute_20.cpp1.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-16_CUDAVolCPotential.compute_13.cpp1.ii" "CUDAVolCPotential.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-16_CUDAVolCPotential.compute_13.cpp1.ii" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005e25_00000000-2_CUDAMeasureRDF.compute_13.ptx"  -o "/tmp/tmpxft_00005e25_00000000-29_CUDAMeasureRDF.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-9_CUDAVolMapCreateILS.compute_20.cpp2.i" "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.gpu" 
ptxas info    : Compiling entry function '_Z19calculate_histogramPfPji' for 'sm_13'
ptxas info    : Used 9 registers, 532+16 bytes smem, 65280 bytes cmem[0], 12 bytes cmem[1]
ptxas info    : Compiling entry function '_Z13calculate_rdfiPfii6float3Pjiff' for 'sm_13'
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-10_CUDAVolMapCreateILS.compute_20.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-10_CUDAVolMapCreateILS.compute_20.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-10_CUDAVolMapCreateILS.compute_20.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-9_CUDAVolMapCreateILS.compute_20.cpp2.i" 
ptxas info    : Used 22 registers, 4540+16 bytes smem, 65280 bytes cmem[0], 16 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11phantom_xyzPfiiff' for 'sm_13'
ptxas info    : Used 10 registers, 408+16 bytes smem, 65280 bytes cmem[0], 20 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11reimage_xyzPfii6float3f' for 'sm_13'
ptxas info    : Used 16 registers, 416+16 bytes smem, 65280 bytes cmem[0], 32 bytes cmem[1]
ptxas info    : Compiling entry function '_Z11init_hist_fPf' for 'sm_13'
ptxas info    : Used 2 registers, 8+16 bytes smem, 65280 bytes cmem[0]
ptxas info    : Compiling entry function '_Z9init_histPji' for 'sm_13'
ptxas info    : Used 8 registers, 12+16 bytes smem, 65280 bytes cmem[0], 12 bytes cmem[1]
#$ fatbin --key="2c309af8bf21b294" --source-name="CUDAMeasureRDF.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005e25_00000000-3_CUDAMeasureRDF.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005e25_00000000-23_CUDAMeasureRDF.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005e25_00000000-26_CUDAMeasureRDF.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005e25_00000000-29_CUDAMeasureRDF.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-11_CUDAVolMapCreateILS.compute_20.cpp3.i" "/tmp/tmpxft_00005f92_00000000-10_CUDAVolMapCreateILS.compute_20.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c++ -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-12_CUDAVolMapCreateILS.compute_10.cpp1.ii" "CUDAVolMapCreateILS.cu" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005e25_00000000-30_CUDAMeasureRDF.compute_20.ii" "/tmp/tmpxft_00005e25_00000000-6_CUDAMeasureRDF.compute_20.cudafe1.cpp" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-12_CUDAVolMapCreateILS.compute_10.cpp1.ii" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAMeasureRDF.o" "/tmp/tmpxft_00005e25_00000000-30_CUDAMeasureRDF.compute_20.ii" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-17_CUDAVolCPotential.compute_13.cpp2.i" "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-18_CUDAVolCPotential.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f44_00000000-18_CUDAVolCPotential.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f44_00000000-18_CUDAVolCPotential.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "/tmp/tmpxft_00005f44_00000000-17_CUDAVolCPotential.compute_13.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-19_CUDAVolCPotential.compute_13.cpp3.i" "/tmp/tmpxft_00005f44_00000000-18_CUDAVolCPotential.compute_13.cudafe2.gpu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005f44_00000000-11_CUDAVolCPotential.compute_20.cpp3.i" "/tmp/tmpxft_00005f44_00000000-15_CUDAVolCPotential.compute_10.cpp3.i" "/tmp/tmpxft_00005f44_00000000-19_CUDAVolCPotential.compute_13.cpp3.i" > "/tmp/tmpxft_00005f44_00000000-20_CUDAVolCPotential.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-21_CUDAVolCPotential.cpp4.ii" "CUDAVolCPotential.cu" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-13_CUDAVolMapCreateILS.compute_10.cpp2.i" "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.gpu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005f44_00000000-21_CUDAVolCPotential.cpp4.ii" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-14_CUDAVolMapCreateILS.compute_10.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-14_CUDAVolMapCreateILS.compute_10.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-14_CUDAVolMapCreateILS.compute_10.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-13_CUDAVolMapCreateILS.compute_10.cpp2.i" 
#$ gcc -D__CUDA_ARCH__=100 -E -x c -DCUDA_NO_SM_13_DOUBLE_INTRINSICS  -DCUDA_FLOAT_MATH_FUNCTIONS -DCUDA_NO_SM_11_ATOMIC_INTRINSICS -DCUDA_NO_SM_12_ATOMIC_INTRINSICS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-15_CUDAVolMapCreateILS.compute_10.cpp3.i" "/tmp/tmpxft_00005f92_00000000-14_CUDAVolMapCreateILS.compute_10.cudafe2.gpu" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c++  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-16_CUDAVolMapCreateILS.compute_13.cpp1.ii" "CUDAVolMapCreateILS.cu" 
#$ cudafe --m64 --gnu_version=40502 -tused --no_remove_unneeded_entities  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-16_CUDAVolMapCreateILS.compute_13.cpp1.ii" 
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005f44_00000000-22_CUDAVolCPotential.compute_20" "/tmp/tmpxft_00005f44_00000000-11_CUDAVolCPotential.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005f44_00000000-7_CUDAVolCPotential.compute_20.ptx"
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-17_CUDAVolMapCreateILS.compute_13.cpp2.i" "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.gpu" 
#$ cudafe --m64 --gnu_version=40502 --c  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-18_CUDAVolMapCreateILS.compute_13.cudafe2.c" --stub_file_name "/tmp/tmpxft_00005f92_00000000-18_CUDAVolMapCreateILS.compute_13.cudafe2.stub.c" --gen_device_file_name "/tmp/tmpxft_00005f92_00000000-18_CUDAVolMapCreateILS.compute_13.cudafe2.gpu" --include_file_name "/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "/tmp/tmpxft_00005f92_00000000-17_CUDAVolMapCreateILS.compute_13.cpp2.i" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005f44_00000000-7_CUDAVolCPotential.compute_20.ptx"  -o "/tmp/tmpxft_00005f44_00000000-23_CUDAVolCPotential.compute_20.cubin" 
#$ gcc -D__CUDA_ARCH__=130 -E -x c  -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDABE__  -O3 -D__CUDA_FTZ -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-19_CUDAVolMapCreateILS.compute_13.cpp3.i" "/tmp/tmpxft_00005f92_00000000-18_CUDAVolMapCreateILS.compute_13.cudafe2.gpu" 
ptxas info    : Compiling entry function '_Z7cenergyifPf' for 'sm_20'
ptxas info    : Used 23 registers, 48 bytes cmem[0], 64000 bytes cmem[2]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-24_CUDAVolCPotential.cpp4.ii" "CUDAVolCPotential.cu" 
#$ filehash -s "-v  " "/tmp/tmpxft_00005f92_00000000-11_CUDAVolMapCreateILS.compute_20.cpp3.i" "/tmp/tmpxft_00005f92_00000000-15_CUDAVolMapCreateILS.compute_10.cpp3.i" "/tmp/tmpxft_00005f92_00000000-19_CUDAVolMapCreateILS.compute_13.cpp3.i" > "/tmp/tmpxft_00005f92_00000000-20_CUDAVolMapCreateILS.hash"
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-21_CUDAVolMapCreateILS.cpp4.ii" "CUDAVolMapCreateILS.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f44_00000000-4_CUDAVolCPotential.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005f44_00000000-24_CUDAVolCPotential.cpp4.ii" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.stub.c" "/tmp/tmpxft_00005f92_00000000-21_CUDAVolMapCreateILS.cpp4.ii" 
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005f44_00000000-25_CUDAVolCPotential.compute_10" "/tmp/tmpxft_00005f44_00000000-15_CUDAVolCPotential.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005f44_00000000-5_CUDAVolCPotential.compute_10.ptx"
#$ nvopencc  -TARG:compute_20 -m64 -CG:ftz=1 -CG:prec_div=1 -CG:prec_sqrt=1  "/tmp/tmpxft_00005f92_00000000-22_CUDAVolMapCreateILS.compute_20" "/tmp/tmpxft_00005f92_00000000-11_CUDAVolMapCreateILS.compute_20.cpp3.i"  -o "/tmp/tmpxft_00005f92_00000000-7_CUDAVolMapCreateILS.compute_20.ptx"
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005f44_00000000-5_CUDAVolCPotential.compute_10.ptx"  -o "/tmp/tmpxft_00005f44_00000000-26_CUDAVolCPotential.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z7cenergyifPf' for 'sm_10'
ptxas info    : Used 18 registers, 16+16 bytes smem, 64000 bytes cmem[0], 4 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f44_00000000-27_CUDAVolCPotential.cpp4.ii" "CUDAVolCPotential.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f44_00000000-1_CUDAVolCPotential.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005f44_00000000-27_CUDAVolCPotential.cpp4.ii" 
#$ ptxas  -arch=sm_20 -m64 -v  "/tmp/tmpxft_00005f92_00000000-7_CUDAVolMapCreateILS.compute_20.ptx"  -o "/tmp/tmpxft_00005f92_00000000-23_CUDAVolMapCreateILS.compute_20.cubin" 
ptxas info    : Compiling entry function '_Z24cuda_occupancy_multiatomPfPKiPK7flint_tiiii' for 'sm_20'
ptxas info    : Used 58 registers, 2144+0 bytes smem, 72 bytes cmem[0], 64448 bytes cmem[2], 12 bytes cmem[16]
ptxas info    : Compiling entry function '_Z23cuda_occupancy_monoatomPfPKiPK7flint_tiiii' for 'sm_20'
ptxas info    : Used 47 registers, 128+0 bytes smem, 72 bytes cmem[0], 64448 bytes cmem[2], 8 bytes cmem[16]
ptxas info    : Compiling entry function '_Z27cuda_find_energy_exclusionsPiPK7flint_tiiii' for 'sm_20'
ptxas info    : Used 48 registers, 128+0 bytes smem, 64 bytes cmem[0], 64448 bytes cmem[2]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-24_CUDAVolMapCreateILS.cpp4.ii" "CUDAVolMapCreateILS.cu" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005f44_00000000-28_CUDAVolCPotential.compute_13" "/tmp/tmpxft_00005f44_00000000-19_CUDAVolCPotential.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005f44_00000000-2_CUDAVolCPotential.compute_13.ptx"
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f92_00000000-4_CUDAVolMapCreateILS.compute_10.cudafe1.stub.c" "/tmp/tmpxft_00005f92_00000000-24_CUDAVolMapCreateILS.cpp4.ii" 
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005f44_00000000-2_CUDAVolCPotential.compute_13.ptx"  -o "/tmp/tmpxft_00005f44_00000000-29_CUDAVolCPotential.compute_13.cubin" 
ptxas info    : Compiling entry function '_Z7cenergyifPf' for 'sm_13'
#$ nvopencc  -TARG:compute_10 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005f92_00000000-25_CUDAVolMapCreateILS.compute_10" "/tmp/tmpxft_00005f92_00000000-15_CUDAVolMapCreateILS.compute_10.cpp3.i"  -o "/tmp/tmpxft_00005f92_00000000-5_CUDAVolMapCreateILS.compute_10.ptx"
ptxas info    : Used 18 registers, 16+16 bytes smem, 64000 bytes cmem[0], 4 bytes cmem[1]
#$ fatbin --key="eab4f22341862e86" --source-name="CUDAVolCPotential.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005f44_00000000-3_CUDAVolCPotential.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005f44_00000000-23_CUDAVolCPotential.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005f44_00000000-26_CUDAVolCPotential.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005f44_00000000-29_CUDAVolCPotential.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f44_00000000-30_CUDAVolCPotential.compute_20.ii" "/tmp/tmpxft_00005f44_00000000-6_CUDAVolCPotential.compute_20.cudafe1.cpp" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAVolCPotential.o" "/tmp/tmpxft_00005f44_00000000-30_CUDAVolCPotential.compute_20.ii" 
CUDAVolCPotential.cu: In function 'int vmd_cuda_vol_cpotential(long int, float*, float*, long int, long int, long int, float)':
CUDAVolCPotential.cu:244:145: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
CUDAVolCPotential.cu:244:145: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
CUDAVolCPotential.cu:244:145: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
#$ ptxas  -arch=sm_10 -m64 -v  "/tmp/tmpxft_00005f92_00000000-5_CUDAVolMapCreateILS.compute_10.ptx"  -o "/tmp/tmpxft_00005f92_00000000-26_CUDAVolMapCreateILS.compute_10.cubin" 
ptxas info    : Compiling entry function '_Z24cuda_occupancy_multiatomPfPKiPK7flint_tiiii' for 'sm_10'
ptxas info    : Used 27 registers, 2184+16 bytes smem, 64448 bytes cmem[0], 76 bytes cmem[1]
ptxas info    : Compiling entry function '_Z23cuda_occupancy_monoatomPfPKiPK7flint_tiiii' for 'sm_10'
ptxas info    : Used 20 registers, 168+16 bytes smem, 64448 bytes cmem[0], 40 bytes cmem[1]
ptxas info    : Compiling entry function '_Z27cuda_find_energy_exclusionsPiPK7flint_tiiii' for 'sm_10'
ptxas info    : Used 22 registers, 160+16 bytes smem, 64448 bytes cmem[0], 20 bytes cmem[1]
#$ gcc -E -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -D__CUDACC__ -C  -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -D"ARCH_LINUX" -D"VMDOPENGL" -D"VMDCUDA" -D"MSMPOT_CUDA" -D"VMDIMD" -D"VMDXINERAMA" -D"VMDXINPUT" -D"VMDPYTHON" -D"VMDTHREADS" -D"WKFTHREADS" -D"USEPOSIXTHREADS" -D"_REENTRANT" -D"VMDNUMPY" -D"VMDWITHCARBS" -D"VMDPOLYHEDRA" -D"VMDSURF" -D"VMDMSMS" -D"VMDPBCSMOOTH" -D"VMDTCL" -D"VMDTK" -D"VMDGUI" -D"VMDFLTK" -include "cuda_runtime.h" -m64 -o "/tmp/tmpxft_00005f92_00000000-27_CUDAVolMapCreateILS.cpp4.ii" "CUDAVolMapCreateILS.cu" 
#$ cudafe++ --m64 --gnu_version=40502 --parse_templates  --gen_c_file_name "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.cpp" --stub_file_name "/tmp/tmpxft_00005f92_00000000-1_CUDAVolMapCreateILS.compute_13.cudafe1.stub.c" "/tmp/tmpxft_00005f92_00000000-27_CUDAVolMapCreateILS.cpp4.ii" 
#$ nvopencc  -TARG:compute_13 -m64 -CG:ftz=1 -CG:prec_div=0 -CG:prec_sqrt=0  "/tmp/tmpxft_00005f92_00000000-28_CUDAVolMapCreateILS.compute_13" "/tmp/tmpxft_00005f92_00000000-19_CUDAVolMapCreateILS.compute_13.cpp3.i"  -o "/tmp/tmpxft_00005f92_00000000-2_CUDAVolMapCreateILS.compute_13.ptx"
#$ ptxas  -arch=sm_13 -m64 -v  "/tmp/tmpxft_00005f92_00000000-2_CUDAVolMapCreateILS.compute_13.ptx"  -o "/tmp/tmpxft_00005f92_00000000-29_CUDAVolMapCreateILS.compute_13.cubin" 
ptxas info    : Compiling entry function '_Z24cuda_occupancy_multiatomPfPKiPK7flint_tiiii' for 'sm_13'
ptxas info    : Used 27 registers, 2184+16 bytes smem, 64448 bytes cmem[0], 76 bytes cmem[1]
ptxas info    : Compiling entry function '_Z23cuda_occupancy_monoatomPfPKiPK7flint_tiiii' for 'sm_13'
ptxas info    : Used 20 registers, 168+16 bytes smem, 64448 bytes cmem[0], 40 bytes cmem[1]
ptxas info    : Compiling entry function '_Z27cuda_find_energy_exclusionsPiPK7flint_tiiii' for 'sm_13'
ptxas info    : Used 22 registers, 160+16 bytes smem, 64448 bytes cmem[0], 20 bytes cmem[1]
#$ fatbin --key="6a2b173d9323cab4" --source-name="CUDAVolMapCreateILS.cu" --usage-mode="-v  " --embedded-fatbin="/tmp/tmpxft_00005f92_00000000-3_CUDAVolMapCreateILS.fatbin.c" "--image=profile=sm_20@compute_20,file=/tmp/tmpxft_00005f92_00000000-23_CUDAVolMapCreateILS.compute_20.cubin" "--image=profile=sm_10@compute_10,file=/tmp/tmpxft_00005f92_00000000-26_CUDAVolMapCreateILS.compute_10.cubin" "--image=profile=sm_13@compute_13,file=/tmp/tmpxft_00005f92_00000000-29_CUDAVolMapCreateILS.compute_13.cubin" 
#$ gcc -D__CUDA_ARCH__=200 -E -x c++ -DCUDA_DOUBLE_MATH_FUNCTIONS  "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I.  -O3 -D__CUDA_FTZ -D__CUDA_PREC_DIV -D__CUDA_PREC_SQRT -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -m64 -o "/tmp/tmpxft_00005f92_00000000-30_CUDAVolMapCreateILS.compute_20.ii" "/tmp/tmpxft_00005f92_00000000-6_CUDAVolMapCreateILS.compute_20.cudafe1.cpp" 
#$ gcc -c -x c++ "-I/opt/cuda/bin/../include" "-I/opt/cuda/bin/../include/cudart"   -I. -O3 -I"/usr/include/GL" -I"/usr/include/python2.6" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"/usr/lib64/python2.6/site-packages/numpy/core/include" -I"../lib/tcl/include" -I"../lib/tk/include" -I"/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include" -I"/usr/include" -I"/usr/include/fltk-1" -I"." -fpreprocessed -m64 -o "../LINUX/CUDAVolMapCreateILS.o" "/tmp/tmpxft_00005f92_00000000-30_CUDAVolMapCreateILS.compute_20.ii" 
CUDAVolMapCreateILS.cu: In function 'void* cuda_occupancy_thread(void*)':
CUDAVolMapCreateILS.cu:1193:103: warning: format '%d' expects type 'int', but argument 2 has type 'long int'
CUDAVolMapCreateILS.cu:1193:103: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
echo "Linking " vmd_LINUX "..."; \
	cd ../LINUX ; \
	if [ ! -r ./foobar ]; then \
	  ln -s ../src/foobar ./foobar ; \
	fi; \
	x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -march=nocona -O2 -pipe -fomit-frame-pointer  -DARCH_LINUX -DVMDOPENGL -DVMDCUDA -DMSMPOT_CUDA -DVMDIMD -DVMDXINERAMA -DVMDXINPUT -DVMDPYTHON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDNUMPY -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK   -DVMDGUI -DVMDFLTK  -I/usr/include/GL     -I/usr/include/python2.6 -I/usr/lib64/python2.6/site-packages/numpy/core/include -I/usr/lib64/python2.6/site-packages/numpy/core/include   -I../lib/tcl/include -I../lib/tk/include -I/var/tmp/portage/sci-chemistry/vmd-1.9/work/plugins/include -I/usr/include -I/usr/include/fltk-1 -I.  -I../src -o vmd_LINUX OpenGLDisplayDevice.o OpenGLExtensions.o OpenGLRenderer.o OpenGLShader.o OpenGLCache.o IMDMgr.o IMDSim.o IMDSimThread.o CmdIMD.o imd.o PythonTextInterp.o VMDTkinterMenu.o py_animate.o py_atomsel.o py_atomselection.o py_axes.o py_color.o py_commands.o py_display.o py_graphics.o py_imd.o py_label.o py_material.o py_menu.o py_molecule.o py_molrep.o py_mouse.o py_render.o py_trans.o py_vmd.o py_numeric.o Animation.o ArtDisplayDevice.o AtomColor.o AtomParser.o AtomLexer.o AtomRep.o AtomSel.o Axes.o BaseMolecule.o Benchmark.o BondSearch.o CmdAnimate.o CmdColor.o CmdDisplay.o CmdLabel.o CmdMaterial.o CmdMenu.o CmdMol.o CmdRender.o CmdTrans.o CommandQueue.o CoorPluginData.o CUDAAccel.o DisplayDevice.o Displayable.o DisplayRocker.o DispCmds.o DrawMolecule.o DrawMolItem.o DrawMolItem2.o DrawMolItemRibbons.o DrawMolItemMSMS.o DrawMolItemRings.o DrawMolItemOrbital.o DrawMolItemSurface.o DrawMolItemVolume.o DrawForce.o DrawRingsUtils.o FileRenderList.o FileRenderer.o FPS.o GelatoDisplayDevice.o GeometryAngle.o GeometryAtom.o GeometryBond.o GeometryDihedral.o GeometryList.o GeometryMol.o GeometrySpring.o Hershey.o Inform.o ImageIO.o Isosurface.o JRegex.o JString.o macosxvmdstart.o MaterialList.o Matrix4.o MayaDisplayDevice.o Measure.o MeasureCluster.o MeasurePBC.o MeasureRDF.o MeasureSurface.o MeasureSymmetry.o Molecule.o MoleculeList.o MoleculeGraphics.o MolFilePlugin.o Mouse.o MSMSInterface.o Orbital.o OrbitalJIT.o PeriodicTable.o P_JoystickTool.o P_TugTool.o P_GrabTool.o P_PrintTool.o P_PinchTool.o P_UIVR.o P_Buttons.o P_Tracker.o P_Tool.o P_CmdTool.o P_SensorConfig.o ParseTree.o PhoneButtons.o PhoneTracker.o PickList.o PickModeAddBond.o PickModeCenter.o PickModeForce.o PickModeList.o PickModeMolLabel.o PickModeMove.o PickModeUser.o PlainTextInterp.o PluginMgr.o POV3DisplayDevice.o PSDisplayDevice.o QMData.o QMTimestep.o RadianceDisplayDevice.o RayShadeDisplayDevice.o R3dDisplayDevice.o RenderManDisplayDevice.o Scene.o SnapshotDisplayDevice.o Spaceball.o SpaceballButtons.o SpaceballTracker.o SpatialSearch.o SpringTool.o Stage.o STLDisplayDevice.o Stride.o Surf.o SymbolTable.o TachyonDisplayDevice.o Timestep.o UIObject.o UIText.o VMDApp.o VMDCollab.o VMDDir.o VMDDisplayList.o VMDMenu.o VMDQuat.o VMDTitle.o VMDThreads.o VolCPotential.o VolMapCreate.o VolMapCreateILS.o VolumetricData.o VolumeTexture.o VrmlDisplayDevice.o Vrml2DisplayDevice.o WavefrontDisplayDevice.o WKFThreads.o WKFUtils.o utilities.o vmd.o vmdmain.o X3DDisplayDevice.o ColorInfo.o TclCommands.o TclMeasure.o TclMolInfo.o TclTextInterp.o TclVec.o TclGraphics.o TclVolMap.o cmd_animate.o cmd_collab.o cmd_color.o cmd_display.o cmd_imd.o cmd_label.o cmd_material.o cmd_menu.o cmd_mol.o cmd_mouse.o cmd_parallel.o cmd_plugin.o cmd_render.o cmd_spaceball.o cmd_tool.o cmd_trans.o cmd_user.o cmd_util.o cmd_vmdbench.o tcl_commands.o VMDTkMenu.o ColorFltkMenu.o DisplayFltkMenu.o FileChooserFltkMenu.o GraphicsFltkMenu.o SelectionBuilder.o GeometryFltkMenu.o MaterialFltkMenu.o MolBrowser.o RenderFltkMenu.o SaveTrajectoryFltkMenu.o VMDFltkMenu.o MainFltkMenu.o ToolFltkMenu.o frame_selector.o hash.o inthash.o intstack.o msmpot.o msmpot_compute.o msmpot_cubic.o msmpot_setup.o vmdsock.o vmddlopen.o pcre.o fitrms.o msmpot_cuda.o msmpot_cuda_latcut.o msmpot_cuda_shortrng.o CUDABench.o CUDAClearDevice.o CUDAMeasureRDF.o CUDAOrbital.o CUDAUtil.o CUDAVolCPotential.o CUDAVolMapCreateILS.o -L/usr/lib64 -L/opt/cuda/lib64    -L/usr/lib64/python2.6   -L../lib/tcl/lib_LINUX -L../lib/tk/lib_LINUX  -L/usr/lib64 -L/usr/lib64/fltk-1 -Wl,-rpath,/usr/lib64/fltk-1  -lGL -lGLU -Wl,-rpath -Wl,$ORIGIN/ -lcudart  -lXinerama -lXi -lpython2.6 -lpthread -lpthread  -ltk -lX11 -ltcl  -lnetcdf -lfltk -lX11 -lXft -lm -ldl -lutil   -Xlinker -export-dynamic ; 
Linking  vmd_LINUX ...
Stride.o: In function `ss_from_stride(DrawMolecule*)':
Stride.C:(.text+0x3f): warning: the use of `tempnam' is dangerous, better use `mkstemp'
echo No resource compiler required on this platform.
No resource compiler required on this platform.
>>> Source compiled.