Hi,
I have EasyBuild 3.0.1.
I cannot build: eb --module-syntax=Tcl --modules-tool=EnvironmentModulesC
Tk-8.6.3-foss-2015a-no-X11.eb --parallel=1 —debug
I added --parallel=1 after error: cmd " make -j 12 " exited, but I don't see
this as issue. The same error was under ver.2.9.0.
Could check a part of the log and help me debug installation, please?
Thank you,
Robert
== 2016-12-12 14:59:19,689 run.py:477 DEBUG Using default regular expression:
(?<![(,-]|\w)(?:error|segmentation fault|failed)(?![(,-]|\.?\w)
== 2016-12-12 14:59:19,691 easyblock.py:2259 DEBUG Not skipping build step
(skippable: True, skip: None, skipsteps: [], module_only: False, force: False
== 2016-12-12 14:59:19,692 build_log.py:216 INFO building...
== 2016-12-12 14:59:19,692 easyblock.py:2267 INFO Starting build step
== 2016-12-12 14:59:19,693 templates.py:151 DEBUG config:
<easybuild.framework.easyconfig.easyconfig.EasyConfig object at 0x102ca10>
== 2016-12-12 14:59:19,693 templates.py:175 DEBUG version found in easyconfig
is 8.6.3
== 2016-12-12 14:59:19,694 templates.py:219 DEBUG name: github_account, config:
None
== 2016-12-12 14:59:19,694 templates.py:219 DEBUG name: name, config: Tk
== 2016-12-12 14:59:19,694 templates.py:219 DEBUG name: version, config: 8.6.3
== 2016-12-12 14:59:19,694 templates.py:219 DEBUG name: versionsuffix, config:
-no-X11
== 2016-12-12 14:59:19,695 templates.py:219 DEBUG name: versionprefix, config:
== 2016-12-12 14:59:19,695 templates.py:151 DEBUG config:
<easybuild.framework.easyconfig.easyconfig.EasyConfig object at 0x102ca10>
== 2016-12-12 14:59:19,695 templates.py:175 DEBUG version found in easyconfig
is 8.6.3
== 2016-12-12 14:59:19,696 templates.py:219 DEBUG name: github_account, config:
None
== 2016-12-12 14:59:19,696 templates.py:219 DEBUG name: name, config: Tk
== 2016-12-12 14:59:19,696 templates.py:219 DEBUG name: version, config: 8.6.3
== 2016-12-12 14:59:19,697 templates.py:219 DEBUG name: versionsuffix, config:
-no-X11
== 2016-12-12 14:59:19,697 templates.py:219 DEBUG name: versionprefix, config:
== 2016-12-12 14:59:19,697 easyblock.py:2270 INFO Running method build_step
part of step build
== 2016-12-12 14:59:19,698 run.py:137 DEBUG run_cmd: running cmd make -j 1
(in /sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix)
== 2016-12-12 14:59:19,758 run.py:433 DEBUG cmd " make -j 1 " exited with
exitcode 2 and output:
gcc -c -O2 -I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sysapps/cluster/software/FFTW/3.3.4-gompi-2015a/include
-I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include
-I/sysapps/cluster/software/zlib/1.2.8-foss-2015a/include -Wall -fPIC
-DBUILD_tk
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../unix
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../bitmaps
-I/sysapps/cluster/build/Tcl/8.6.3/foss-2015a/tcl8.6.3/generic
-I/sysapps/cluster/build/Tcl/8.6.3/foss-2015a/tcl8.6.3/unix
-DPACKAGE_NAME=\"tk\" -DPACKAGE_TARNAME=\"tk\" -DPACKAGE_VERSION=\"8.6\"
-DPACKAGE_STRING=\"tk\ 8.6\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1
-DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1
-DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1
-DHAVE_UNISTD_H=1 -DHAVE_LIMITS_H=1 -DUSE_THREAD_ALLOC=1 -D_REENTRANT=1
-D_THREAD_SAFE=1 -DHAVE_PTHREAD_ATTR_SETSTACKSIZE=1 -DHAVE_PTHREAD_ATFORK=1
-DTCL_THREADS=1 -DMODULE_SCOPE=extern\
__attribute__\(\(__visibility__\(\"hidden\"\)\)\) -DHAVE_HIDDEN=1
-DHAVE_CAST_TO_UNION=1 -DTCL_SHLIB_EXT=\".so\" -DNDEBUG=1 -DTCL_CFG_OPTIMIZED=1
-D_LARGEFILE64_SOURCE=1 -DTCL_WIDE_INT_IS_LONG=1 -DHAVE_SYS_TIME_H=1
-DTIME_WITH_SYS_TIME=1 -DHAVE_INTPTR_T=1 -DHAVE_UINTPTR_T=1 -DHAVE_PW_GECOS=1
-DXKEYCODETOKEYSYM_IS_DEPRECATED=1 -DTCL_NO_DEPRECATED -DUSE_TCL_STUBS
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkStubLib.c
In file included from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkPort.h:21:0,
from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkInt.h:19,
from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkStubLib.c:14:
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tk.h:96:25:
fatal error: X11/Xlib.h: No such file or directory
# include <X11/Xlib.h>
^
compilation terminated.
make: *** [tkStubLib.o] Error 1
== 2016-12-12 14:59:19,862 build_log.py:147 ERROR EasyBuild crashed with an
error (at ?:124 in __init__): cmd " make -j 1 " exited with exitcode 2 and
output:
gcc -c -O2 -I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sysapps/cluster/software/FFTW/3.3.4-gompi-2015a/include
-I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include
-I/sysapps/cluster/software/zlib/1.2.8-foss-2015a/include -Wall -fPIC
-DBUILD_tk
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../unix
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic
-I/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../bitmaps
-I/sysapps/cluster/build/Tcl/8.6.3/foss-2015a/tcl8.6.3/generic
-I/sysapps/cluster/build/Tcl/8.6.3/foss-2015a/tcl8.6.3/unix
-DPACKAGE_NAME=\"tk\" -DPACKAGE_TARNAME=\"tk\" -DPACKAGE_VERSION=\"8.6\"
-DPACKAGE_STRING=\"tk\ 8.6\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1
-DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1
-DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1
-DHAVE_UNISTD_H=1 -DHAVE_LIMITS_H=1 -DUSE_THREAD_ALLOC=1 -D_REENTRANT=1
-D_THREAD_SAFE=1 -DHAVE_PTHREAD_ATTR_SETSTACKSIZE=1 -DHAVE_PTHREAD_ATFORK=1
-DTCL_THREADS=1 -DMODULE_SCOPE=extern\
__attribute__\(\(__visibility__\(\"hidden\"\)\)\) -DHAVE_HIDDEN=1
-DHAVE_CAST_TO_UNION=1 -DTCL_SHLIB_EXT=\".so\" -DNDEBUG=1 -DTCL_CFG_OPTIMIZED=1
-D_LARGEFILE64_SOURCE=1 -DTCL_WIDE_INT_IS_LONG=1 -DHAVE_SYS_TIME_H=1
-DTIME_WITH_SYS_TIME=1 -DHAVE_INTPTR_T=1 -DHAVE_UINTPTR_T=1 -DHAVE_PW_GECOS=1
-DXKEYCODETOKEYSYM_IS_DEPRECATED=1 -DTCL_NO_DEPRECATED -DUSE_TCL_STUBS
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkStubLib.c
In file included from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkPort.h:21:0,
from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkInt.h:19,
from
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tkStubLib.c:14:
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11/tk8.6.3/unix/../generic/tk.h:96:25:
fatal error: X11/Xlib.h: No such file or directory
# include <X11/Xlib.h>
^
compilation terminated.
make: *** [tkStubLib.o] Error 1
(at easybuild/tools/run.py:438 in parse_cmd_output)
== 2016-12-12 14:59:19,862 easyblock.py:2499 WARNING build failed (first 300
chars): cmd " make -j 1 " exited with exitcode 2 and output:
gcc -c -O2 -I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sy
== 2016-12-12 14:59:19,863 easyblock.py:276 INFO Closing log for application
name Tk version 8.6.3
== 2016-12-12 14:59:19,863 easyblock.py:276 INFO Closing log for application
name Tk version 8.6.3
== 2016-12-12 14:59:19,863 build_log.py:216 INFO FAILED: Installation ended
unsuccessfully (build directory:
/sysapps/cluster/build/Tk/8.6.3/foss-2015a-no-X11): build failed (first 300
chars): cmd " make -j 1 " exited with exitcode 2 and output:
gcc -c -O2 -I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sy
== 2016-12-12 14:59:19,865 build_log.py:216 INFO Results of the build can be
found in the log file(s)
/tmp/eb-l85SaG/easybuild-Tk-8.6.3-20161212.145913.JTpuB.log
== 2016-12-12 14:59:19,866 build_log.py:147 ERROR EasyBuild crashed with an
error (at ?:124 in __init__): build failed (first 300 chars): cmd " make -j 1 "
exited with exitcode 2 and output:
gcc -c -O2 -I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sy (at easybuild/main.py:118 in build_and_install_software)
== 2016-12-12 14:59:19,867 filetools.py:995 DEBUG Not creating existing path
/tmp/eb-l85SaG
== 2016-12-12 14:59:19,868 build_log.py:147 ERROR EasyBuild crashed with an
error (at ?:124 in __init__): Build of
/sysapps/cluster/software/EasyBuild/3.0.1/lib/python2.7/site-packages/easybuild_easyconfigs-3.0.1-py2.7.egg/easybuild/easyconfigs/t/Tk/Tk-8.6.3-foss-2015a-no-X11.eb
failed (err: 'build failed (first 300 chars): cmd " make -j 1 " exited with
exitcode 2 and output:\ngcc -c -O2
-I/sysapps/cluster/software/Tcl/8.6.3-foss-2015a/include -pipe
-I/sysapps/cluster/software/OpenBLAS/0.2.13-GCC-4.9.2-LAPACK-3.5.0/include
-I/sysapps/cluster/software/ScaLAPACK/2.0.2-gompi-2015a-OpenBLAS-0.2.13-LAPACK-3.5.0/include
-I/sy') (at easybuild/main.py:150 in build_and_install_software)
--
Robert Klima, Contractor
Sr. HPC Engineer - Linux and High Performance Computing Team
National Institute of Allergy and Infectious Diseases
SRA International Inc., A CSRA Company
office 240 669 5514 mobile 202 657 7154
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Room 6A61B, MSC 9816
Bethesda, MD 20892-9816
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