Hi Matthias,

it's me again!
What tool are you trying to install?

My -perhaps- unhelpful suggestion is to not install anything that starts with
package_* (also called tool shed packages), those should be exclusively installed when you absolutely need
to install an old tool that can only function with packages.
We've switched to conda nowadays, which is much easier to install and to maintain.
In fact the IUC has ported all their latest tools to conda, and similarly most devteam
tools that are still in active use have also been ported to use Conda dependencies.

If you look at this document https://galaxyproject.org/admin/tools/add-tool-from-toolshed-tutorial/,
there is a part where you confirm dependencies. If you click on show detail, and you unselect
When available, install Tool Shed managed tool dependencies?
Galaxy will not try to install these old packages. There are some tools which come both with
old toolshed dependencies and that have Conda available. You may be lucky and find that
the tool you are trying to install has Conda dependencies available.
There is a lot more background on the Toolshed and Conda in this document here:
https://docs.galaxyproject.org/en/master/admin/conda_faq.html

Best,
Marius

On 18 April 2017 at 19:03, Matthias Bernt <m.bernt@ufz.de> wrote:
Dear list,

again me :( stumbling from problem to problem ...

I got compilation errors when installing

package_atlas_3_10 Revision: 98c017ec230d

I tried with gcc 4x and 6x without success. Do I need the intel C compiler for this tool?

If I got earlier posts (http://dev.list.galaxyproject.org/atlas-3-10-IUC-error-tt4668236.html) correct a precompiled version should be used anyway?

I'm running galaxy on CentOS 6.8 (64bit) (running in a VirtualBox).

Best,
Matthias


Here is the output (which I guess is verbose output from configure):


/tmp/cctyMGAH.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
probe_OS.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
probe_asm.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
system(make IRun_GAS_x8632 args="-v 2" MYFLAGS="-DATL_OS_Linux" 2> /dev/null | fgrep SUCCESS)

ierr=256 in command='make IRun_GAS_x8632 args="-v 2" MYFLAGS="-DATL_OS_Linux" 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======
system(make IRun_GAS_x8664 args="-v 2" MYFLAGS="-DATL_OS_Linux" 2> /dev/null | fgrep SUCCESS)
probe_vec.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'

ierr=256 in command='make IRun_VSX MYFLAGS='-DATL_OS_Linux -DATL_GAS_x8664' 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======

ierr=256 in command='make IRun_AltiVec MYFLAGS='-DATL_OS_Linux -DATL_GAS_x8664' 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======

ierr=256 in command='make IRun_AVXFMA4 MYFLAGS='-DATL_OS_Linux -DATL_GAS_x8664' 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======

ierr=256 in command='make IRun_3DNow MYFLAGS='-DATL_OS_Linux -DATL_GAS_x8664' 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======

ierr=256 in command='make IRun_NEON MYFLAGS='-DATL_OS_Linux -DATL_GAS_x8664' 2> /dev/null | fgrep SUCCESS'!

OUTPUT:
=======
probe_arch.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
/tmp/cc8hbxc1.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
ERROR: enum fam=3, chip=2, model=79, mach=0
make[3]: *** [atlas_run] Error 44
make[2]: *** [IRunArchInfo_x86] Error 2
/tmp/ccafA8Bi.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
ERROR: enum fam=3, chip=2, model=79, mach=0
make[3]: *** [atlas_run] Error 44
make[2]: *** [IRunArchInfo_x86] Error 2
ERROR: enum fam=3, chip=2, model=79, mach=0
make[3]: *** [atlas_run] Error 44
make[2]: *** [IRunArchInfo_x86] Error 2
cmnd='make IRun_comp args="-v 2 -o atlconf.txt -O 1 -A 39 -Si nof77 0 -V 488  -Fa ic '-fPIC' -Fa sm '-fPIC' -Fa dm '-fPIC' -Fa sk '-fPIC' -Fa dk '-fPIC' -Fa xc '-fPIC' -Fa gc '-fPIC' -Fa if '-fPIC' -b 64"'
/tmp/cc8W8Itx.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'
probe_comp.o: In function `ATL_tmpnam':
/gpfs1/data/galaxy_server/galaxy-dev/database/tmp/tmp-toolshed-mtdAAKCLe/ATLAS/build/..//CONFIG/include/atlas_sys.h:224: warning: the use of `tmpnam' is dangerous, better use `mkstemp'

ierr=256 in command='find /gpfs1/data/galaxy_server/galaxy-dev/.venv/bin /usr/local/gcc/6.2.0-1/bin /global/apps/bioinf/galaxy/bin/Python-2.7.13/bin /usr/local/sqlite/3.15.1-1/bin /global/apps/bioinf/galaxy/bin/postgresql-9.6.2/bin /usr/local/git/2.10.1-1/bin /usr/local/pcre/8.38-1/bin /usr/local/ncurses/5.9-1/bin /usr/local/bzip2/1.0.6-3/bin /usr/local/expat/2.1.1-1/bin /usr/local/curl/7.41.0-1/bin /usr/local/openssl/1.0.2-1/usr/bin /usr/local/uge/8.4.4-1/bin/lx-amd64 /usr/local/bin /bin /usr/bin /usr/local/sbin /usr/sbin /sbin /home/songalax/bin -maxdepth 1 -name '*gcc*' -exec ./xisgcc '{}' \;'!

OUTPUT:
=======
cmnd=make IRunCComp CC='/usr/local/gcc/6.2.0-1/bin/gcc' CCFLAGS='-O'  | fgrep SUCCESS
   /usr/local/gcc/6.2.0-1/bin/gcc -O : SUCCESS!
cmnd=make IRunCComp CC='/usr/bin/gcc' CCFLAGS='-O'  | fgrep SUCCESS
   /usr/bin/gcc -O : SUCCESS!
sh: -c: line 0: unexpected EOF while looking for matching ``'
sh: -c: line 1: syntax error: unexpected end of file

ierr=256 in command='find $HOME/local -name '*gcc*' -exec ./xisgcc '{}' \;'!

OUTPUT:
=======
cmnd=make IRunCComp CC='/usr/bin/gcc' CCFLAGS='-O'  | fgrep SUCCESS
   /usr/bin/gcc -O : SUCCESS!
sh: -c: line 0: unexpected EOF while looking for matching ``'
sh: -c: line 1: syntax error: unexpected end of file

ierr=256 in command='find /usr/local /bin /sbin /usr/bin /usr/sbin /opt/bin /opt/sbin -name '*gcc*' -exec ./xisgcc '{}' \;'!

OUTPUT:
=======
cmnd=make IRunCComp CC='/usr/bin/gcc' CCFLAGS='-O'  | fgrep SUCCESS
   /usr/bin/gcc -O : SUCCESS!
sh: -c: line 0: unexpected EOF while looking for matching ``'
sh: -c: line 1: syntax error: unexpected end of file
sh: -c: line 0: unexpected EOF while looking for matching ``'
sh: -c: line 1: syntax error: unexpected end of file

Compiler nodes: Fresh Read
  0. priority=0, comps,OS,arch[0]=(128,1,1), comp='f77'
     '-O'
  1. priority=4, comps,OS,arch[0]=(128,1,1), comp='g77'
     '-O'
  2. priority=5, comps,OS,arch[0]=(128,1,1), comp='gfortran'
     '-O'
  3. priority=5, comps,OS,arch[0]=(127,1,1), comp='gcc'
     '-O -fomit-frame-pointer'
  4. priority=1000, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-mcpu=cortex-a8 -mfpu=vfpv3 -mfloat-abi=softfp -O'
  5. priority=1000, comps,OS,arch[0]=(20,1,0), comp='gcc'
     '-O1 -mcpu=cortex-a8 -mtune=cortex-a8 -mfpu=vfpv3 -mfloat-abi=softfp -fno-schedule-insns2'
  6. priority=1000, comps,OS,arch[0]=(75,1,0), comp='gcc'
     '-O1 -mcpu=cortex-a8 -mtune=cortex-a8 -mfpu=vfpv3 -mfloat-abi=softfp -fno-expensive-optimizations'
  7. priority=1000, comps,OS,arch[0]=(32,1,0), comp='gcc'
     '-mcpu=cortex-a8 -O1 -mfpu=vfpv3 -mfloat-abi=softfp '
  8. priority=0, comps,OS,arch[0]=(63,768,1075838976), comp='icl'
     '-QxN -O3 -Qprec -fp:extended -fp:except -nologo -Oy'
  9. priority=0, comps,OS,arch[0]=(128,768,1), comp='ifort'
     '-O2 -fltconsistency -nologo'
 10. priority=0, comps,OS,arch[0]=(63,768,1), comp='cl'
     '-Oy -Ox -arch:SSE2 -nologo'
 11. priority=4, comps,OS,arch[0]=(63,768,1048576), comp='cl'
     '-Oy -Ox -arch:SSE -nologo'
 12. priority=4, comps,OS,arch[0]=(63,768,983040), comp='cl'
     '-Oy -Ox'
 13. priority=500, comps,OS,arch[0]=(127,1,3584), comp='gcc'
     '-O3 -funroll-loops'
 14. priority=500, comps,OS,arch[0]=(128,1,3584), comp='gfortran'
     '-O3 -funroll-loops'
 15. priority=600, comps,OS,arch[0]=(128,1,2048), comp='gfortran'
     '-march=z9-109 -O3 -funroll-loops'
 16. priority=600, comps,OS,arch[0]=(127,1,2048), comp='gcc'
     '-march=z9-109 -O3 -funroll-loops'
 17. priority=800, comps,OS,arch[0]=(128,1,2048), comp='gfortran'
     '-march=z10 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 18. priority=800, comps,OS,arch[0]=(127,1,2048), comp='gcc'
     '-march=z10 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 19. priority=1000, comps,OS,arch[0]=(127,1,2048), comp='gcc'
     '-march=z196 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 20. priority=1000, comps,OS,arch[0]=(128,1,2048), comp='gfortran'
     '-march=z196 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 21. priority=600, comps,OS,arch[0]=(127,1,1024), comp='gcc'
     '-march=z9-109 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 22. priority=600, comps,OS,arch[0]=(128,1,1024), comp='gfortran'
     '-march=z9-109 -O3 -funroll-loops'
 23. priority=1000, comps,OS,arch[0]=(127,1,1024), comp='gcc'
     '-march=z10 -O3 -funroll-loops -fno-prefetch-loop-arrays'
 24. priority=1000, comps,OS,arch[0]=(127,1,512), comp='gcc'
     '-march=z9-109 -O3 -funroll-loops'
 25. priority=1010, comps,OS,arch[0]=(128,1,4), comp='xlf'
     '-qtune=pwr4 -qarch=pwr4 -O3 -qmaxmem=-1 -qfloat=hsflt'
 26. priority=1010, comps,OS,arch[0]=(127,1,4), comp='gcc'
     '-mcpu=power4 -mtune=power4 -O3 -fno-schedule-insns -fno-rerun-loop-opt'
 27. priority=1010, comps,OS,arch[0]=(128,1,8), comp='xlf'
     '-qtune=pwr5 -qarch=pwr5 -O3 -qmaxmem=-1 -qfloat=hsflt'
 28. priority=1010, comps,OS,arch[0]=(128,1,128), comp='xlf'
     '-qtune=pwr7 -qarch=pwr7 -O3 -qmaxmem=-1 -qfloat=hsflt'
 29. priority=1010, comps,OS,arch[0]=(128,1,8), comp='gfortran'
     '-mcpu=power5 -mtune=power5 -O3 -fno-schedule-insns -fno-rerun-loop-opt'
 30. priority=1010, comps,OS,arch[0]=(128,1,64), comp='gfortran'
     '-mcpu=power6 -mtune=power6 -maltivec -O3 -fno-schedule-insns -fschedule-insns2 -minsert-sched-nops=2'
 31. priority=1010, comps,OS,arch[0]=(127,1,8), comp='gcc'
     '-mcpu=power5 -mtune=power5 -O3 -fno-schedule-insns -fno-rerun-loop-opt'
 32. priority=1010, comps,OS,arch[0]=(127,1,64), comp='gcc'
     '-mcpu=power6 -mtune=power6 -maltivec -O3 -fno-schedule-insns -fschedule-insns2 -minsert-sched-nops=2'
 33. priority=1010, comps,OS,arch[0]=(128,1,128), comp='gfortran'
     '-O2 -mvsx -mcpu=power7 -mtune=power7 -m64 -mvrsave -funroll-all-loops'
 34. priority=1010, comps,OS,arch[0]=(127,1,128), comp='gcc'
     '-O2 -mvsx -mcpu=power7 -mtune=power7 -m64 -mvrsave -funroll-all-loops'
 35. priority=1000, comps,OS,arch[0]=(8,1,32), comp='gcc'
     '-mpowerpc64 -maltivec -mabi=altivec -mcpu=970 -mtune=970 -O2 -mvrsave'
 36. priority=1000, comps,OS,arch[0]=(117,1,32), comp='gcc'
     '-mpowerpc64 -maltivec -mabi=altivec -mcpu=970 -mtune=970 -O2'
 37. priority=1000, comps,OS,arch[0]=(2,1,32), comp='gcc'
     '-Os -mpowerpc64 -maltivec -mabi=altivec -mcpu=970 -mtune=970 -mvrsave -fno-schedule-insns2 -fno-schedule-insns'
 38. priority=1000, comps,OS,arch[0]=(121,1,16), comp='gcc'
     '-O3 -maltivec -mabi=altivec -mcpu=7400 -mtune=7400 -fno-schedule-insns -fschedule-insns2'
 39. priority=1000, comps,OS,arch[0]=(2,1,16), comp='gcc'
     '-Os -maltivec -mabi=altivec -mcpu=7400 -mtune=7400'
 40. priority=1000, comps,OS,arch[0]=(4,1,16), comp='gcc'
     '-Os -maltivec -mabi=altivec -mcpu=7400 -mtune=7400'
 41. priority=1, comps,OS,arch[0]=(33,1,0), comp='pathcc'
     '-march=auto -O2 -OPT:Olimit=15000 -LNO:blocking=OFF'
 42. priority=1, comps,OS,arch[0]=(6,1,0), comp='pathcc'
     '-O3 -OPT:Olimit=15000 -LNO:blocking=OFF -LOPT:alias=typed -march=auto -LNO:opt=0 -LNO:full_unroll_outer=OFF -LNO:fusion=0 -LNO:prefetch=2'
 43. priority=1, comps,OS,arch[0]=(24,1,0), comp='pathcc'
     '-O3 -OPT:Olimit=15000 -LNO:blocking=OFF -LOPT:alias=typed -march=auto'
 44. priority=1000, comps,OS,arch[0]=(128,1,0), comp='pathf95'
     '-march=auto -O2'
 45. priority=500, comps,OS,arch[0]=(127,1,0), comp='gcc'
     '-O2 -mips64 -march=5kf -mtune=5kf -fno-schedule-insns -fschedule-insns2 -fno-peephole -fno-peephole2'
 46. priority=1000, comps,OS,arch[0]=(128,32,0), comp='f77'
     '-O2'
 47. priority=1000, comps,OS,arch[0]=(97,32,0), comp='cc'
     '-O2 -OPT:Olimit=15000 -LNO:blocking=OFF'
 48. priority=1000, comps,OS,arch[0]=(30,32,0), comp='cc'
     '-O3 -OPT:Olimit=15000 -LNO:blocking=OFF -LOPT:alias=typed'
 49. priority=1010, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-fomit-frame-pointer -O2 -fno-tree-loop-optimize'
 50. priority=1000, comps,OS,arch[0]=(30,1,0), comp='gcc'
     '-fomit-frame-pointer -O2'
 51. priority=1010, comps,OS,arch[0]=(30,1,0), comp='gcc'
     '-fomit-frame-pointer -O2 -fno-tree-loop-optimize'
 52. priority=10, comps,OS,arch[0]=(128,1,0), comp='g77'
     '-O -mcpu=ultrasparc3 -mtune=ultrasparc3'
 53. priority=100, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-O -mcpu=ultrasparc3 -mtune=ultrasparc3'
 54. priority=1000, comps,OS,arch[0]=(128,1,0), comp='f77'
     '-dalign -native -xO5'
 55. priority=1000, comps,OS,arch[0]=(96,1,0), comp='gcc'
     '-mcpu=ultrasparc3 -mtune=ultrasparc3 -O'
 56. priority=1000, comps,OS,arch[0]=(29,1,0), comp='gcc'
     '-O3 -mcpu=ultrasparc3 -mtune=ultrasparc3 -fno-schedule-insns2 -fschedule-insns'
 57. priority=1000, comps,OS,arch[0]=(2,1,0), comp='gcc'
     '-O1 -mcpu=ultrasparc3 -mtune=ultrasparc3 -fschedule-insns -fmodulo-sched'
 58. priority=1000, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-mcpu=niagara2 -mtune=niagara2 -Os'
 59. priority=1000, comps,OS,arch[0]=(127,1,0), comp='gcc'
     '-mcpu=niagara2 -mtune=niagara2 -Os'
 60. priority=1000, comps,OS,arch[0]=(95,1,0), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -mfma4 -O2 -fno-tree-loop-optimize'
 61. priority=1000, comps,OS,arch[0]=(95,1,0), comp='gcc'
     '-Os -fomit-frame-pointer'
 62. priority=1005, comps,OS,arch[0]=(95,896,0), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 63. priority=1000, comps,OS,arch[0]=(95,1,0), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 64. priority=1000, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 65. priority=1000, comps,OS,arch[0]=(95,1,12582912), comp='gcc'
     '-fomit-frame-pointer -O3 -mfpmath=387'
 66. priority=1005, comps,OS,arch[0]=(31,896,12582912), comp='gcc-4'
     '-fomit-frame-pointer -O3 -mfpmath=387'
 67. priority=1000, comps,OS,arch[0]=(95,1,-1071906816), comp='gcc'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 68. priority=1005, comps,OS,arch[0]=(31,896,1835008), comp='gcc-4'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 69. priority=1000, comps,OS,arch[0]=(128,1,1835008), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 70. priority=1000, comps,OS,arch[0]=(95,1,0), comp='gcc'
     '-fomit-frame-pointer -mfpmath=387 -O2'
 71. priority=1005, comps,OS,arch[0]=(31,896,0), comp='gcc-4'
     '-fomit-frame-pointer -mfpmath=387 -O2'
 72. priority=1000, comps,OS,arch[0]=(128,1,0), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=387 -O2'
 73. priority=1000, comps,OS,arch[0]=(25,1,-1073741824), comp='gcc-4'
     '-O2 -fomit-frame-pointer -mfpmath=sse'
 74. priority=1005, comps,OS,arch[0]=(6,896,-1073741824), comp='gcc-4'
     '-O2 -fomit-frame-pointer -mfpmath=sse -fno-schedule-insns -fno-optimize-register-move'
 75. priority=1000, comps,OS,arch[0]=(6,1,-1073741824), comp='gcc'
     '-O2 -fomit-frame-pointer -mfpmath=sse -fno-schedule-insns -fno-optimize-register-move'
 76. priority=1000, comps,OS,arch[0]=(25,1,-2147483648), comp='gcc'
     '-O2 -fomit-frame-pointer -mfpmath=sse'
 77. priority=1000, comps,OS,arch[0]=(128,1,-1073741824), comp='gfortran'
     '-O2 -fomit-frame-pointer -mfpmath=sse'
 78. priority=1000, comps,OS,arch[0]=(128,1,32768), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 79. priority=1000, comps,OS,arch[0]=(95,1,32768), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 80. priority=1000, comps,OS,arch[0]=(128,1,16384), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 81. priority=1000, comps,OS,arch[0]=(95,1,16384), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 82. priority=1000, comps,OS,arch[0]=(128,1,8192), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 83. priority=1000, comps,OS,arch[0]=(10,1,8192), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 84. priority=1000, comps,OS,arch[0]=(85,1,8192), comp='gcc'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 85. priority=1000, comps,OS,arch[0]=(128,1,12288), comp='gfortran'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 86. priority=1000, comps,OS,arch[0]=(95,1,4096), comp='gcc'
     '-fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4'
 87. priority=1000, comps,OS,arch[0]=(65,1,536870912), comp='gcc'
     '-O'
 88. priority=1000, comps,OS,arch[0]=(30,1,536870912), comp='gcc'
     '-O3 -fno-schedule-insns2 -funroll-all-loops -fno-tree-ch'
 89. priority=1000, comps,OS,arch[0]=(95,1,33554432), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 90. priority=1005, comps,OS,arch[0]=(31,896,33554432), comp='gcc-4'
     '-fomit-frame-pointer -mfpmath=sse -O2'
 91. priority=1000, comps,OS,arch[0]=(95,1,67108864), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2 -fno-schedule-insns2'
 92. priority=1005, comps,OS,arch[0]=(95,896,67108864), comp='gcc-4'
     '-fomit-frame-pointer -mfpmath=sse -O2 -fno-schedule-insns2'
 93. priority=50, comps,OS,arch[0]=(57,1,134217728), comp='clang'
     '-fomit-frame-pointer -mavx -O2 -m64 -Wno-parentheses'
 94. priority=1000, comps,OS,arch[0]=(127,1,134217728), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2 -fno-schedule-insns2'
 95. priority=1005, comps,OS,arch[0]=(31,896,134217728), comp='gcc-4'
     '-fomit-frame-pointer -mfpmath=sse -O2 -fno-schedule-insns2'
 96. priority=1000, comps,OS,arch[0]=(127,1,268435456), comp='gcc'
     '-fomit-frame-pointer -mfpmath=sse -O2'


Compiler nodes: Targeted
  0. priority=0, comps,OS,arch[0]=(128,1,1), comp='f77'
     '-O'
  1. priority=4, comps,OS,arch[0]=(128,1,1), comp='g77'
     '-O'
  2. priority=5, comps,OS,arch[0]=(128,1,1), comp='gfortran'
     '-O'
  3. priority=5, comps,OS,arch[0]=(127,1,1), comp='gcc'
     '-O -fomit-frame-pointer'


Compiler nodes: Sorted
  0. priority=0, comps,OS,arch[0]=(128,1,1), comp='f77'
     '-O'
  1. priority=4, comps,OS,arch[0]=(128,1,1), comp='g77'
     '-O'
  2. priority=5, comps,OS,arch[0]=(127,1,1), comp='gcc'
     '-O -fomit-frame-pointer'
  3. priority=5, comps,OS,arch[0]=(128,1,1), comp='gfortran'
     '-O'

cc1: error: unrecognized command line option "-mavx2"
make[2]: *** [IRunCComp] Error 1

ierr=256 in command='make IRunCComp CC='/usr/bin/gcc' CCFLAGS='-O -fomit-frame-pointer -mavx2 -mfma -fPIC -m64'  | fgrep SUCCESS'!

OUTPUT:
=======
cmnd=make IRunCComp CC='/usr/bin/gcc' CCFLAGS='-O -fomit-frame-pointer -mavx2 -mfma -fPIC -m64'  | fgrep SUCCESS
   /usr/bin/gcc -O -fomit-frame-pointer -mavx2 -mfma -fPIC -m64 : FAILURE!


Unable to find usable compiler for ICC; abortingMake sure compilers are in your path, and specify good compilers to configure
(see INSTALL.txt or 'configure --help' for details)make[1]: *** [atlas_run] Error 1
make: *** [IRun_comp] Error 2
ERROR 512 IN SYSCMND: 'make IRun_comp args="-v 2 -o atlconf.txt -O 1 -A 39 -Si nof77 0 -V 488  -Fa ic '-fPIC' -Fa sm '-fPIC' -Fa dm '-fPIC' -Fa sk '-fPIC' -Fa dk '-fPIC' -Fa xc '-fPIC' -Fa gc '-fPIC' -Fa if '-fPIC' -b 64"'
Make.top:1: Make.inc: No such file or directory
Make.top:329: warning: overriding commands for target `/AtlasTest'
Make.top:80: warning: ignoring old commands for target `/AtlasTest'
make[1]: *** No rule to make target `Make.inc'.  Stop.
make: *** [startup] Error 2
mv: cannot stat `lib/Makefile': No such file or directory
../configure: line 450: lib/Makefile: No such file or directory
../configure: line 451: lib/Makefile: No such file or directory
../configure: line 452: lib/Makefile: No such file or directory
../configure: line 453: lib/Makefile: No such file or directory
../configure: line 509: lib/Makefile: No such file or directory
Make.top:1: Make.inc: No such file or directory
Make.top:329: warning: overriding commands for target `/AtlasTest'
Make.top:80: warning: ignoring old commands for target `/AtlasTest'
make[1]: *** No rule to make target `Make.inc'.  Stop.
make: *** [build] Error 2
--

-------------------------------------------
Matthias Bernt
Bioinformatics Service
Molekulare Systembiologie (MOLSYB)
Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
Helmholtz Centre for Environmental Research GmbH - UFZ
Permoserstraße 15, 04318 Leipzig, Germany
Phone +49 341 235 482296,
m.bernt@ufz.de, www.ufz.de

Sitz der Gesellschaft/Registered Office: Leipzig
Registergericht/Registration Office: Amtsgericht Leipzig
Handelsregister Nr./Trade Register Nr.: B 4703
Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board: MinDirig Wilfried Kraus
Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
Prof. Dr. Dr. h.c. Georg Teutsch
Administrative Geschäftsführerin/ Administrative Managing Director:
Prof. Dr. Heike Graßmann
-------------------------------------------


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