sci-chemistry:mm-align-20120321:20200515-032442.log

sci-chemistry:mm-align-20120321:20200515-032442.log (text/plain), 19.03 KB, created by Toralf Förster on 2020-05-15 07:31:03 UTC

 * Package:    sci-chemistry/mm-align-20120321
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox
 * Using following Fortran compiler:
 *   F77: x86_64-pc-linux-gnu-gfortran
 *   FC:  x86_64-pc-linux-gnu-gfortran
>>> Unpacking source...
>>> Unpacking MM-align-20120321.tar.xz to /var/tmp/portage/sci-chemistry/mm-align-20120321/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/mm-align-20120321/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/mm-align-20120321/work ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/mm-align-20120321/work ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build"
cmake -C /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/gentoo_toolchain.cmake  /var/tmp/portage/sci-chemistry/mm-align-20120321/work
loading initial cache file /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/gentoo_common_config.cmake
-- The Fortran compiler identification is GNU 10.1.0
-- Check for working Fortran compiler: /usr/bin/x86_64-pc-linux-gnu-gfortran
-- Check for working Fortran compiler: /usr/bin/x86_64-pc-linux-gnu-gfortran - works
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Checking whether /usr/bin/x86_64-pc-linux-gnu-gfortran supports Fortran 90
-- Checking whether /usr/bin/x86_64-pc-linux-gnu-gfortran supports Fortran 90 - yes
-- <<< Gentoo configuration >>>
Build type      Gentoo
Install path    /usr
Compiler flags:
C               
C++             
Linker flags:
Executable      -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0
Module          -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0
Shared          -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0

-- Configuring done
-- Generating done
-- Build files have been written to: /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/mm-align-20120321/work ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build"
make -j1 VERBOSE=1 
/usr/bin/cmake -S/var/tmp/portage/sci-chemistry/mm-align-20120321/work -B/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build --check-build-system CMakeFiles/Makefile.cmake 0
/usr/bin/cmake -E cmake_progress_start /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/progress.marks
make  -f CMakeFiles/Makefile2 all
make[1]: Entering directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
make  -f CMakeFiles/MMalign.dir/build.make CMakeFiles/MMalign.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
cd /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/mm-align-20120321/work /var/tmp/portage/sci-chemistry/mm-align-20120321/work /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build /var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/MMalign.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/MMalign.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/MMalign.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build/CMakeFiles/MMalign.dir/depend.internal".
Scanning dependencies of target MMalign
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
make  -f CMakeFiles/MMalign.dir/build.make CMakeFiles/MMalign.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
[ 50%] Building Fortran object CMakeFiles/MMalign.dir/MM-align.f.o
/usr/bin/x86_64-pc-linux-gnu-gfortran   -O2 -pipe -march=native -O2 -pipe -march=native   -o CMakeFiles/MMalign.dir/MM-align.f.o -c /var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4327:72:

 4327 |       do 1 j = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 1 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4332:72:

 4332 |     1 r(i,j) = zero
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 1 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4342:72:

 4342 |       do 2 i = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 2 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4344:72:

 4344 |     2 yc(i) = yc(i) + (w(m) * y(i,m))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 2 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4350:72:

 4350 |     3 yc(i) = yc(i) / wc
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 3 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4353:72:

 4353 |       do 4 i = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 4 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4358:72:

 4358 |       do 4 j = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 4 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4361:72:

 4361 |     4 r(i,j) = r(i,j) + (d * (x(j,m) - xc(j)))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 4 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4372:72:

 4372 |       do 5 i = 1, j
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 5 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4378:72:

 4378 |      &)
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 5 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4386:72:

 4386 |     6 e(i) = spur
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 6 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4409:72:

 4409 |       if (mode) 10, 50, 10
      |                                                                        1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4412:72:

 4412 |     8 if (mode) 30, 50, 30
      |                                                                        1
Warning: Fortran 2018 deleted feature: Arithmetic IF statement at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4434:72:

 4434 |    14 d = d + (ss(k) * ss(k))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 14 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4436:72:

 4436 |       do 15 i = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 15 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4437:72:

 4437 |    15 a(i,l) = a(i,l) * d
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 15 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4447:72:

 4447 |    17 p = p + (a(i,m1) ** 2)
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 17 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4451:72:

 4451 |    18 a(i,m1) = a(i,m1) * p
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 18 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4478:72:

 4478 |    31 d = d + (b(i,l) ** 2)
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 31 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4480:72:

 4480 |       do 32 i = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 32 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4481:72:

 4481 |    32 b(i,l) = b(i,l) * d
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 32 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4486:72:

 4486 |    33 p = p + (b(i,2) ** 2)
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 33 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4490:72:

 4490 |    34 b(i,2) = b(i,2) * p
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 34 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4509:72:

 4509 |       do 39 j = 1, 3
      |                                                                        1
Warning: Fortran 2018 deleted feature: Shared DO termination label 39 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4513:72:

 4513 |      &))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 39 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4518:72:

 4518 |      & * xc(3))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 41 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4521:72:

 4521 |    51 e(i) = dsqrt(e(i))
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 51 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4551:72:

 4551 |     1 a(i)=i
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 1 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4595:72:

 4595 |     1 a(i)=i
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 1 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4619:72:

 4619 |    30 if(a(j).gt.ia) d=d+1
      |                                                                        1
Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 30 at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4130:16:

 4129 |       do i=0,inseq
      |                                                                        2
 4130 |          inter1(i)=0
      |                1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4133:16:

 4132 |       do j=0,inseq
      |                                                                        2
 4133 |          inter2(j)=0
      |                1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4246:16:

 4245 |       do i=0,ilen_first1
      |                                                                        2
 4246 |          inter3(i)=0
      |                1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:4249:16:

 4248 |       do j=0,ilen_first2
      |                                                                        2
 4249 |          inter4(j)=0
      |                1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:3947:28:

 3946 |       do jj=ismall,0,-1
      |                                                                        2
 3947 |          ibegin2=id(icombo2,jj)
      |                            1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:3948:28:

 3946 |       do jj=ismall,0,-1
      |                                                                        2
 3947 |          ibegin2=id(icombo2,jj)
 3948 |          ibegin1=ia(icombo1,jj)
      |                            1
Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:619:19:

  619 |       do icombo2=1,fnpm
      |                   1
Warning: Deleted feature: End expression in DO loop at (1) must be integer
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:1148:5:

 1148 |  7776       continue
      |     1
......
 1202 |         if(iflag3.eq.1.and.iflag1.eq.1.and.itill1.lt.mf1(i)-1) goto 7776
      |                                                                        2
Warning: Legacy Extension: Label at (1) is not in the same block as the GOTO statement at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:1176:5:

 1176 |  7778       continue
      |     1
......
 1203 |         if(iflag4.eq.1.and.iflag2.eq.1.and.itill2.lt.mf2(i)-1) goto 7778
      |                                                                        2
Warning: Legacy Extension: Label at (1) is not in the same block as the GOTO statement at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:1308:5:

 1308 |  6667    continue
      |     1
......
 1367 |       if(iflag5.eq.1.and.itill1.lt.nseq1-1.and.iflag1.eq.1)goto 6667
      |                                                                        2
Warning: Legacy Extension: Label at (1) is not in the same block as the GOTO statement at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:1339:5:

 1339 |  6665    continue
      |     1
......
 1368 |       if(iflag6.eq.1.and.itill2.lt.nseq2-1.and.iflag2.eq.1)goto 6665
      |                                                                        2
Warning: Legacy Extension: Label at (1) is not in the same block as the GOTO statement at (2)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:227:72:

  227 |          call interface(pdb1,pdb2,int_cut)
      |                                                                        1
Error: More actual than formal arguments in procedure call at (1)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:492:72:

  492 |  18   call nexper(ismall,a,mtc,even)
      |                                                                        1
Error: Type mismatch in argument ‘even’ at (1); passed REAL(4) to LOGICAL(4)
/var/tmp/portage/sci-chemistry/mm-align-20120321/work/MM-align.f:518:72:

  518 |  17   call nexper(ibig,a,mtc,even)
      |                                                                        1
Error: Type mismatch in argument ‘even’ at (1); passed REAL(4) to LOGICAL(4)
make[2]: *** [CMakeFiles/MMalign.dir/build.make:83: CMakeFiles/MMalign.dir/MM-align.f.o] Error 1
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
make[1]: *** [CMakeFiles/Makefile2:96: CMakeFiles/MMalign.dir/all] Error 2
make[1]: Leaving directory '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
make: *** [Makefile:150: all] Error 2
 * ERROR: sci-chemistry/mm-align-20120321::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/mm-align-20120321::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/mm-align-20120321::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:mm-align-20120321:20200515-032442.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/mm-align-20120321/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/mm-align-20120321/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/mm-align-20120321/work/mm-align-20120321_build'
 * S: '/var/tmp/portage/sci-chemistry/mm-align-20120321/work'