Hi Alan,
$ eb --dry-run gompi-2018b.eb
== temporary log file in case of crash /scratch/eb-qUHeQG/easybuild-8PK2Hu.log
Dry run: printing build status of easyconfigs and dependencies
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/m/M4/M4-1.4.18.eb
(module: M4/1.4.18)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/z/zlib/zlib-1.2.11.eb
(module: zlib/1.2.11)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/h/help2man/help2man-1.47.4.eb
(module: help2man/1.47.4)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/m/M4/M4-1.4.17.eb
(module: M4/1.4.17)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/b/Bison/Bison-3.0.4.eb
(module: Bison/3.0.4)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/f/flex/flex-2.6.4.eb
(module: flex/2.6.4)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/b/binutils/binutils-2.30.eb
(module: binutils/2.30)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/g/GCCcore/GCCcore-7.3.0.eb
(module: GCCcore/7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/z/zlib/zlib-1.2.11-GCCcore-7.3.0.eb
(module: zlib/1.2.11-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/h/help2man/help2man-1.47.4-GCCcore-7.3.0.eb
(module: help2man/1.47.4-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/m/M4/M4-1.4.18-GCCcore-7.3.0.eb
(module: M4/1.4.18-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/b/Bison/Bison-3.0.4-GCCcore-7.3.0.eb
(module: Bison/3.0.4-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/b/Bison/Bison-3.0.5-GCCcore-7.3.0.eb
(module: Bison/3.0.5-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/f/flex/flex-2.6.4-GCCcore-7.3.0.eb
(module: flex/2.6.4-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/b/binutils/binutils-2.30-GCCcore-7.3.0.eb
(module: binutils/2.30-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/a/Autoconf/Autoconf-2.69-GCCcore-7.3.0.eb
(module: Autoconf/2.69-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/g/GCC/GCC-7.3.0-2.30.eb
(module: GCC/7.3.0-2.30)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/a/Automake/Automake-1.16.1-GCCcore-7.3.0.eb
(module: Automake/1.16.1-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/l/libtool/libtool-2.4.6-GCCcore-7.3.0.eb
(module: libtool/2.4.6-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/n/ncurses/ncurses-6.0.eb
(module: ncurses/6.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/a/Autotools/Autotools-20180311-GCCcore-7.3.0.eb
(module: Autotools/20180311-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/x/xorg-macros/xorg-macros-1.19.2-GCCcore-7.3.0.eb
(module: xorg-macros/1.19.2-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/g/gettext/gettext-0.19.8.1.eb
(module: gettext/0.19.8.1)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/n/numactl/numactl-2.0.11-GCCcore-7.3.0.eb
(module: numactl/2.0.11-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/l/libpciaccess/libpciaccess-0.14-GCCcore-7.3.0.eb
(module: libpciaccess/0.14-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/x/XZ/XZ-5.2.4-GCCcore-7.3.0.eb
(module: XZ/5.2.4-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/l/libxml2/libxml2-2.9.8-GCCcore-7.3.0.eb
(module: libxml2/2.9.8-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/h/hwloc/hwloc-1.11.10-GCCcore-7.3.0.eb
(module: hwloc/1.11.10-GCCcore-7.3.0)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/o/OpenMPI/OpenMPI-3.1.1-GCC-7.3.0-2.30.eb
(module: OpenMPI/3.1.1-GCC-7.3.0-2.30)
* [x]
/sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/g/gompi/gompi-2018b.eb
(module: gompi/2018b)
== Temporary log file(s) /scratch/eb-qUHeQG/easybuild-8PK2Hu.log* have been
removed.
== Temporary directory /scratch/eb-qUHeQG has been removed.
When I look for that eb file in our tree I get multiple sizes, which puzzles me
but I see some seem to be text-substituted versions.
$ find . -name gompi-2018b.eb -ls
9246547087760406794 4 -rw-rw-r-- 1 iusan sw 470 Mar 28 2019
./software/EasyBuild/3.8.1/lib/python2.7/site-packages/easybuild_framework-3.8.1-py2.7.egg/test/framework/easyconfigs/test_ecs/g/gompi/gompi-2018b.eb
9246547087757627753 4 -rw-rw-r-- 1 iusan sw 448 Mar 28 2019
./software/EasyBuild/3.8.1/lib/python2.7/site-packages/easybuild_easyconfigs-3.8.1-py2.7.egg/easybuild/easyconfigs/g/gompi/gompi-2018b.eb
9246547087721524313 4 -rw-r--r-- 1 iusan sw 386 Sep 20 15:22
./software/EasyBuild/4.0.1/lib/python2.7/site-packages/test/framework/easyconfigs/test_ecs/g/gompi/gompi-2018b.eb
9246547087736405835 4 -rw-r--r-- 1 iusan sw 435 Sep 20 16:17
./software/EasyBuild/4.0.1/easybuild/easyconfigs/g/gompi/gompi-2018b.eb
9246547087747523760 4 -rw-rw-r-- 1 douglas sw 406 Oct 21 12:14
./software/gompi/2018b/easybuild/reprod/gompi-2018b.eb
9246547087747523765 4 -rw-rw-r-- 1 douglas sw 435 Sep 20 16:17
./software/gompi/2018b/easybuild/gompi-2018b.eb
9246547087769446482 4 -rw-rw-r-- 1 douglas sw 2520 Oct 21 12:14
./ebfiles_repo/gompi/gompi-2018b.eb
$ diff ./software/EasyBuild/4.0.1/easybuild/easyconfigs/g/gompi/gompi-2018b.eb
./software/gompi/2018b/easybuild/reprod/gompi-2018b.eb
1c1
< easyblock = "Toolchain"
---
> easyblock = 'Toolchain'
10,12c10
< toolchain = SYSTEM
<
< local_gccver = '7.3.0-2.30'
---
> toolchain = {'name': 'system', 'version': 'system'}
16,17c14,15
< ('GCC', local_gccver), # includes both GCC and binutils
< ('OpenMPI', '3.1.1', '', ('GCC', local_gccver)),
---
> ('GCC', '7.3.0-2.30'),
> ('OpenMPI', '3.1.1', '', ('GCC', '7.3.0-2.30')),
18a17
>
-Douglas
PS: Thanks Åke we're getting there :-)
--
Douglas G. Scofield
Evolutionary Biology Centre, Uppsala University
[email protected]<mailto:[email protected]>
[email protected]
On 23 Oct 2019, at 10:51, Alan O'Cais
<[email protected]<mailto:[email protected]>> wrote:
Hi,
Did you by any chance modify the definition of gompi/2018b toolchain (i.e.,
create a modified version the gompi-2018b.eb file)? What does the output of
```
eb --dry-run gompi-2018b.eb
```
look like?
Alan
On Wed, 23 Oct 2019 at 10:38,
<[email protected]<mailto:[email protected]>> wrote:
Hi, new to EasyBuild as is our center (UPPMAX at Uppsala University). We
install a lot of bioinformatics software so are looking forward to
contributing easyconfigs as we learn EasyBuild.
We're trying to install the foss-2018b toolchain but it keeps failing
attempting to install FFTW-3.3.8-gompi-2018b with what seems to be a
straightforward config mismatch, but with our *very* limited experience we
can't see anything obvious. It doesn't install with EasyBuild 3.8.1 either,
but FFTW-3.3.8-foss-2019a installs cleanly.
$ eb --module-depends-on --robot --module-syntax=Tcl foss-2018b.eb
== temporary log file in case of crash /scratch/eb-dFaRLw/easybuild-eFncBe.log
== resolving dependencies ...
== processing EasyBuild easyconfig /sw/EasyBuild/software/EasyBuild/4.0.1/
easybuild/easyconfigs/f/FFTW/FFTW-3.3.8-gompi-2018b.eb
== building and installing FFTW/3.3.8-gompi-2018b...
== fetching files...
== creating build dir, resetting environment...
== starting iteration #0 ...
== unpacking...
== patching...
== preparing...
== FAILED: Installation ended unsuccessfully (build directory: /sw/EasyBuild/
build/FFTW/3.3.8/gompi-2018b): build failed (first 300 chars): List of
toolchain dependency modules and toolchain definition do not match (found []
vs expected set(['GCC', 'OpenMPI'])) (took 17 sec)
== Results of the build can be found in the log file(s) /scratch/eb-dFaRLw/
easybuild-FFTW-3.3.8-20191023.101730.GDYpv.log
ERROR: Build of /sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/easyconfigs/
f/FFTW/FFTW-3.3.8-gompi-2018b.eb failed (err: "build failed (first 300 chars):
List of toolchain dependency modules and toolchain definition do not match
(found [] vs expected set(['GCC', 'OpenMPI']))")
$ eb --show-config
#
# Current EasyBuild configuration
# (C: command line argument, D: default value, E: environment variable, F:
configuration file)
#
buildpath (E) = /sw/EasyBuild/build
containerpath (E) = /sw/EasyBuild/containers
installpath (E) = /sw/EasyBuild
packagepath (E) = /sw/EasyBuild/packages
prefix (E) = /sw/EasyBuild
repositorypath (E) = /sw/EasyBuild/ebfiles_repo
robot-paths (D) = /sw/EasyBuild/software/EasyBuild/4.0.1/easybuild/
easyconfigs
sourcepath (E) = /sw/EasyBuild/sources
--
Dr. Alan O'Cais
E-CAM Software Manager
Juelich Supercomputing Centre
Forschungszentrum Juelich GmbH
52425 Juelich, Germany
Phone: +49 2461 61 5213
Fax: +49 2461 61 6656
E-mail: [email protected]<mailto:[email protected]>
WWW: http://www.fz-juelich.de/ias/jsc/EN
------------------------------------------------------------------------------------------------
------------------------------------------------------------------------------------------------
Forschungszentrum Juelich GmbH
52425 Juelich
Sitz der Gesellschaft: Juelich
Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498
Vorsitzender des Aufsichtsrats: MinDir Volker Rieke
Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender),
Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt,
Prof. Dr. Sebastian M. Schmidt
------------------------------------------------------------------------------------------------
------------------------------------------------------------------------------------------------
När du har kontakt med oss på Uppsala universitet med e-post så innebär det att
vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du
läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/
E-mailing Uppsala University means that we will process your personal data. For
more information on how this is performed, please read here:
http://www.uu.se/en/about-uu/data-protection-policy
