sci-chemistry:prekin-6.51.081122-r1:20200129-200231.log

sci-chemistry:prekin-6.51.081122-r1:20200129-200231.log (text/plain), 12.74 KB, created by Toralf Förster on 2020-01-29 20:37:04 UTC

 * Package:    sci-chemistry/prekin-6.51.081122-r1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking prekin.6.51.081122.src.tgz to /var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work/prekin.6.51.081122 ...
 * Applying 6.51.081122-Makefile.patch ...
 [ ok ]
 * Applying 6.51.081122-overflow.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work/prekin.6.51.081122 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work/prekin.6.51.081122 ...
make -j1 nogui 
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINANGL.o PKINANGL.c
PKINANGL.c:1443:1: warning: return type defaults to ‘int’ [-Wimplicit-int]
 1443 | constructcircle(float Cxyz[SEGMENTS][3], float Axyz[3], float Bxyz[3], float radius)
      | ^~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINCRTL.o PKINCRTL.c
PKINCRTL.c: In function ‘flowControl’:
PKINCRTL.c:59:20: warning: implicit declaration of function ‘TickCount’ [-Wimplicit-function-declaration]
   59 | OldTickCounts[0] = TickCount();
      |                    ^~~~~~~~~
PKINCRTL.c:1277:11: warning: implicit declaration of function ‘getkeydownstate’ [-Wimplicit-function-declaration]
 1277 |       if( getkeydownstate() ) /*PKMCMAIN.C PKPCMAIN.C*/
      |           ^~~~~~~~~~~~~~~
PKINCRTL.c:1697:8: warning: implicit declaration of function ‘AdjustMenus’ [-Wimplicit-function-declaration]
 1697 |        AdjustMenus();          /*____MENU.c*/
      |        ^~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINCSBS.o PKINCSBS.c
PKINCSBS.c: In function ‘pperptobase’:
PKINCSBS.c:2808:49: warning: format not a string literal and no format arguments [-Wformat-security]
 2808 |             sprintf(colr,colorscale[Ncolorscale].color); /*high value default*/
      |                          ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
PKINCSBS.c:2813:45: warning: format not a string literal and no format arguments [-Wformat-security]
 2813 |                   sprintf(colr,colorscale[j].color);
      |                                ~~~~~~~~~~~~~^~~~~~
PKINCSBS.c: In function ‘Bcoloredoutput’:
PKINCSBS.c:3196:45: warning: format not a string literal and no format arguments [-Wformat-security]
 3196 |        sprintf(color,colorscale[Ncolorscale].color); /*high value default*/
      |                      ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
PKINCSBS.c:3201:44: warning: format not a string literal and no format arguments [-Wformat-security]
 3201 |              sprintf(color,colorscale[ncol].color);
      |                            ~~~~~~~~~~~~~~~~^~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINCSUB.o PKINCSUB.c
PKINCSUB.c: In function ‘storecyssg’:
PKINCSUB.c:2727:28: warning: format ‘%d’ expects argument of type ‘int’, but argument 8 has type ‘char *’ [-Wformat=]
 2727 |           sprintf(alertstr,"No room in cys sg array for:"
      |                            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
......
 2730 |                  ,sub[natom],rins[natom],x[natom],y[natom],z[natom]);
      |                              ~~~~~~~~~~~
      |                                  |
      |                                  char *
PKINCSUB.c:2728:46: note: format string is defined here
 2728 |                         CRLF"%s|%s|%s|%s|%s|%d|%f %f %f"
      |                                             ~^
      |                                              |
      |                                              int
      |                                             %s
PKINCSUB.c: In function ‘evalatomrecord’:
PKINCSUB.c:2018:38: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations]
 2018 |      for(j=0; j<  3; j++){subnext[j] = sub[n][j];} /*2char 070926*/
      |                           ~~~~~~~~~~~^~~~~~~~~~~
PKINCSUB.c:2018:6: note: within this loop
 2018 |      for(j=0; j<  3; j++){subnext[j] = sub[n][j];} /*2char 070926*/
      |      ^~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINCOUT.o PKINCOUT.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINMENU.o PKINMENU.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINROTL.o PKINROTL.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINDLOG.o PKINDLOG.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINFILE.o PKINFILE.c
PKINFILE.c: In function ‘prepareinputfile’:
PKINFILE.c:131:71: warning: format ‘%s’ expects a matching ‘char *’ argument [-Wformat=]
  131 |              sprintf(alertstr,"Prekin has failed to open input file: %s\n");
      |                                                                      ~^
      |                                                                       |
      |                                                                       char *
PKINFILE.c: In function ‘selectfiles’:
PKINFILE.c:190:16: warning: implicit declaration of function ‘AdjustMenus’ [-Wimplicit-function-declaration]
  190 |    if(!Lquiet) AdjustMenus();  /*PKMCMENU.C*/
      |                ^~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINHBND.o PKINHBND.c
PKINHBND.c: In function ‘connecthbonds’:
PKINHBND.c:220:38: warning: implicit declaration of function ‘getmactextselect’ [-Wimplicit-function-declaration]
  220 |       if(icountrewinds == 1 && IMAC) getmactextselect();
      |                                      ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINHY36.o PKINHY36.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKININPT.o PKININPT.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKININIT.o PKININIT.c
PKININIT.c: In function ‘getversion’:
PKININIT.c:305:50: warning: format ‘%s’ expects a matching ‘char *’ argument [-Wformat=]
  305 |       sprintf(version,"version %.2f,%s dated: %s%s"
      |                                                 ~^
      |                                                  |
      |                                                  char *
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINRIBB.o PKINRIBB.c
PKINRIBB.c: In function ‘constructsectionribbons’:
PKINRIBB.c:2979:53: warning: format not a string literal and no format arguments [-Wformat-security]
 2979 |                sprintf(color,colorscale[Ncolorscale].color);
      |                              ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~
PKINRIBB.c: In function ‘buildsectionguides’:
PKINRIBB.c:1239:60: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations]
 1239 |               nm1resptr->rinsrib[j] = theribresptr->rinsrib[j];
      |                                       ~~~~~~~~~~~~~~~~~~~~~^~~
PKINRIBB.c:1236:12: note: within this loop
 1236 |            for(j=0;j<3;j++) /*2char + endstr  070926*/
      |            ^~~
PKINRIBB.c:1270:57: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations]
 1270 |               nm2resptr->rinsrib[j] = nm1resptr->rinsrib[j];
      |                                       ~~~~~~~~~~~~~~~~~~^~~
PKINRIBB.c:1267:12: note: within this loop
 1267 |            for(j=0;j<3;j++) /*2char + endstr  070926*/
      |            ^~~
PKINRIBB.c:1301:57: warning: iteration 2 invokes undefined behavior [-Waggressive-loop-optimizations]
 1301 |               nm3resptr->rinsrib[j] = nm1resptr->rinsrib[j];
      |                                       ~~~~~~~~~~~~~~~~~~^~~
PKINRIBB.c:1298:12: note: within this loop
 1298 |            for(j=0;j<3;j++) /*2char + endstr  070926*/
      |            ^~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINRNGE.o PKINRNGE.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINRSUB.o PKINRSUB.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINSCRT.o PKINSCRT.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINSPOS.o PKINSPOS.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PKINUTIL.o PKINUTIL.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMFILE.o PUXMFILE.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMMAIN.o PUXMMAIN.c
PUXMMAIN.c:11:1: warning: return type defaults to ‘int’ [-Wimplicit-int]
   11 | main(int argc, char** argv)
      | ^~~~
PUXMMAIN.c: In function ‘main’:
PUXMMAIN.c:19:3: warning: implicit declaration of function ‘mainsetup’ [-Wimplicit-function-declaration]
   19 |   mainsetup(&argc, argv); /*____INIT.c*/
      |   ^~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMINIT.o PUXMINIT.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMDLOG.o PUXMDLOG.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMMENU.o PUXMMENU.c
PUXMMENU.c: In function ‘launchcurrentkinemage’:
PUXMMENU.c:96:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result]
   96 |     system(word);
      |     ^~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMOUTP.o PUXMOUTP.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMTEXT.o PUXMTEXT.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include   -c -o PUXMLNX.o PUXMLNX.c
x86_64-pc-linux-gnu-gcc -o prekin -O2 -pipe -march=native -fno-common -I/usr/X11R6/include   -D NOGUI -I/usr/X11R6/include -Wl,-O1 -Wl,--as-needed PKINANGL.o PKINCRTL.o PKINCSBS.o PKINCSUB.o PKINCOUT.o PKINMENU.o PKINROTL.o PKINDLOG.o PKINFILE.o PKINHBND.o PKINHY36.o PKININPT.o PKININIT.o PKINRIBB.o PKINRNGE.o PKINRSUB.o PKINSCRT.o PKINSPOS.o PKINUTIL.o PUXMFILE.o PUXMMAIN.o PUXMINIT.o PUXMDLOG.o PUXMMENU.o PUXMOUTP.o PUXMTEXT.o PUXMLNX.o -L/usr/X11R6/lib -L/usr/lib64 -L/usr/X11R6/lib -lXmu -lXt -lSM -lICE -lXext -lX11 -ldl -lm -pthread 
/usr/lib/gcc/x86_64-pc-linux-gnu/9.2.0/../../../../x86_64-pc-linux-gnu/bin/ld: PUXMMAIN.o:(.bss+0x2789c): multiple definition of `Lribbonnew'; PKINRIBB.o:(.bss+0x38): first defined here
collect2: error: ld returned 1 exit status
make: *** [Makefile:35: nogui] Error 1
 * ERROR: sci-chemistry/prekin-6.51.081122-r1::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/prekin-6.51.081122-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/prekin-6.51.081122-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:prekin-6.51.081122-r1:20200129-200231.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work/prekin.6.51.081122'
 * S: '/var/tmp/portage/sci-chemistry/prekin-6.51.081122-r1/work/prekin.6.51.081122'