sci-biology:stride-20011129-r1:20221002-134208.log

sci-biology:stride-20011129-r1:20221002-134208.log (text/plain), 6.27 KB, created by Toralf Förster on 2022-10-02 14:47:13 UTC

 * Package:    sci-biology/stride-20011129-r1:0
 * 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 stride-20011129.tar.gz to /var/tmp/portage/sci-biology/stride-20011129-r1/work
>>> Unpacking stride-20060723-update.patch.bz2 to /var/tmp/portage/sci-biology/stride-20011129-r1/work
>>> Source unpacked in /var/tmp/portage/sci-biology/stride-20011129-r1/work
>>> Preparing source in /var/tmp/portage/sci-biology/stride-20011129-r1/work ...
 * Applying stride-20060723-update.patch ...
 [ ok ]
 * Applying stride-20011129-fix-buildsystem.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/stride-20011129-r1/work ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/stride-20011129-r1/work ...
make -j4 
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o stride.o stride.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o splitstr.o splitstr.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o rdpdb.o rdpdb.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o initchn.o initchn.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o geometry.o geometry.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o thr2one.o thr2one.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o one2thr.o one2thr.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o filename.o filename.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o tolostr.o tolostr.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o strutil.o strutil.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o place_h.o place_h.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o hbenergy.o hbenergy.c
place_h.c:19:2: warning: ignoring return value of function declared with pure
      attribute [-Wunused-value]
        strcmp(r->AtomType[H],"H");
        ^~~~~~ ~~~~~~~~~~~~~~~~~~
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o memory.o memory.c
1 warning generated.
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o helix.o helix.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o sheet.o sheet.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o rdmap.o rdmap.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o phipsi.o phipsi.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o command.o command.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o molscr.o molscr.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o die.o die.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o hydrbond.o hydrbond.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o mergepat.o mergepat.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o fillasn.o fillasn.c
hydrbond.c:345:16: warning: passing arguments to a function without a prototype
      is deprecated in all versions of C and is not supported in C2x
      [-Wdeprecated-non-prototype]
          HBOND_Energy(Acc[ac]->Chain->Rsd[Acc[ac]->AA2_Res]->Coord[Acc[...
                      ^
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o escape.o escape.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o p_jrnl.o p_jrnl.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o p_rem.o p_rem.c
1 warning generated.
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o p_atom.o p_atom.c
clang -pipe -march=native -fno-diagnostics-color -O2 -Werror=implicit-function-declaration -Werror=implicit-int   -c -o p_helix.o p_helix.c
p_atom.c:12:12: error: type specifier missing, defaults to 'int'; ISO C99 and
      later do not support implicit int [-Werror,-Wimplicit-int]
  register i;
  ~~~~~~~~ ^
  int
1 error generated.
make: *** [<builtin>: p_atom.o] Error 1
make: *** Waiting for unfinished jobs....
 * ERROR: sci-biology/stride-20011129-r1::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/stride-20011129-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/stride-20011129-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-biology:stride-20011129-r1:20221002-134208.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/stride-20011129-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/stride-20011129-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/stride-20011129-r1/work'
 * S: '/var/tmp/portage/sci-biology/stride-20011129-r1/work'