[galaxy-dev] atlas version 3.10.2 installation error

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(a)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 -------------------------------------------