Le 24/02/2015 10:06, Johannes Ring a écrit : Silly me. Here are the logs, sorry for the noise, people...
$ bash fenics-install.sh Created temporary directory /tmp/fenics-install.1xdbJV for FEniCS installation.
Downloading HashDist... Clonage dans 'hashdist'... remote: Counting objects: 4775, done. remote: Total 4775 (delta 0), reused 0 (delta 0), pack-reused 4775 Réception d'objets: 100% (4775/4775), 2.13 MiB | 1.28 MiB/s, done. Résolution des deltas: 100% (2889/2889), done. Vérification de la connectivité... fait. Downloading HashStack... Clonage dans 'hashstack'... remote: Counting objects: 6382, done. remote: Compressing objects: 100% (51/51), done. remote: Total 6382 (delta 27), reused 0 (delta 0), pack-reused 6331 Réception d'objets: 100% (6382/6382), 1.20 MiB | 1015.00 KiB/s, done. Résolution des deltas: 100% (3809/3809), done. Vérification de la connectivité... fait. Downloading FEniCS Install... Clonage dans 'fenics-developer-tools'... remote: Counting objects: 306, done. remote: Compressing objects: 100% (301/301), done. remote: Total 306 (delta 195), reused 0 (delta 0) Réception d'objets: 100% (306/306), 109.02 KiB | 0 bytes/s, done. Résolution des deltas: 100% (195/195), done. Vérification de la connectivité... fait. patching file pkgs/petsc/petsc.py Hunk #1 succeeded at 88 with fuzz 2 (offset 8 lines). patching file pkgs/petsc/petsc.yaml patching file pkgs/dolfin/dolfin-cmake-find_path.patch patching file pkgs/dolfin/dolfin.yaml The next patch would create the file pkgs/hypre.yaml, which already exists! Skipping patch. 1 out of 1 hunk ignored patching file pkgs/petsc/petsc.py Reversed (or previously applied) patch detected! Skipping patch. 5 out of 5 hunks ignored -- saving rejects to file pkgs/petsc/petsc.py.rej patching file pkgs/hypre.yaml Reversed (or previously applied) patch detected! Skipping patch. 1 out of 1 hunk ignored -- saving rejects to file pkgs/hypre.yaml.rej patching file pkgs/petsc/petsc.py Reversed (or previously applied) patch detected! Skipping patch. 1 out of 1 hunk ignored -- saving rejects to file pkgs/petsc/petsc.py.rej patching file pkgs/hypre.yaml Hunk #1 FAILED at 117. Hunk #2 succeeded at 151 (offset 20 lines). 1 out of 2 hunks FAILED -- saving rejects to file pkgs/hypre.yaml.rej patching file pkgs/hypre.yaml Reversed (or previously applied) patch detected! Skipping patch. 2 out of 2 hunks ignored -- saving rejects to file pkgs/hypre.yaml.rej patching file pkgs/hypre.yaml Reversed (or previously applied) patch detected! Skipping patch. 2 out of 2 hunks ignored -- saving rejects to file pkgs/hypre.yaml.rej patching file pkgs/hypre.yaml Reversed (or previously applied) patch detected! Skipping patch. 1 out of 1 hunk ignored -- saving rejects to file pkgs/hypre.yaml.rej Ready to build FEniCS. This may take about 2 hours. The following build types are supported: [0] development version of FEniCS [default] [1] latest stable version of FEniCS, currently 1.5 [2] only dependencies, including e.g. MPI, PETSc, Swig, Boost Please select build type [0, 1, 2]: 0 Using HashDist profile /tmp/fenics-install.1xdbJV/fenics-developer-tools/install/profiles/fenics.Linux.yaml. Development build requested. Updating dolfin to changeset 98ef90018de9ac10c3b6c5d071a0f52819e794a5. Updating ffc to changeset 8b58f0bdaba232852e9a7e499e498d2dc019ecdb. Updating fiat to changeset 67ccdccead35c11411fea2814aa204b5bf07d608. Updating instant to changeset 63211e62ac0c2d57720e4e3654c7a79c78ce6051. Updating mshr to changeset 55325bd99e2b023ef0aa84645fbb2c56b9b15c00. Updating ufl to changeset 40aa49fde7006e201a08129c18115c65b45d048c. Updating uflacs to changeset 13ae207f4b2a723f7b679af55c058efcc653cb90. Starting build... Directory ba created. Directory bld created. Directory src created. Directory db created. Directory cache created. Directory gcroots created. Default configuration file /home/fenics/.hashdist/config.yaml written. Downloading http://releases.nixos.org/patchelf/patchelf-0.8/patchelf-0.8.tar.bz2... [=========================] 100.0% (0.1MB of 0.1MB) 0.879MB/s ETA 0s [patchelf] Building patchelf/k3rloj265ogt, follow log with: [patchelf] tail -f /home/fenics/.hashdist/tmp/patchelf-k3rloj265ogt/build.log Downloading https://github.com/xianyi/OpenBLAS/archive/v0.2.13.tar.gz... / [blas] Building blas/gdnhmas4n27e, follow log with: [blas] tail -f /home/fenics/.hashdist/tmp/blas-gdnhmas4n27e/build.log Downloading http://ftp.heanet.ie/mirrors/gnu/gdbm/gdbm-1.11.tar.gz... [=========================] 100.0% (0.8MB of 0.8MB) 0.874MB/s ETA 0s [gdbm] Building gdbm/xqni5hcjx43a, follow log with: [gdbm] tail -f /home/fenics/.hashdist/tmp/gdbm-xqni5hcjx43a/build.log Downloading https://sourceforge.net/projects/pcre/files/pcre/8.34/pcre-8.34.tar.bz2... [=========================] 100.0% (1.4MB of 1.4MB) 0.885MB/s ETA 0s [pcre] Building pcre/2dpe5reczy3r, follow log with: [pcre] tail -f /home/fenics/.hashdist/tmp/pcre-2dpe5reczy3r/build.log Downloading http://bzip.org/1.0.6/bzip2-1.0.6.tar.gz... [=========================] 100.0% (0.7MB of 0.7MB) 1.331MB/s ETA 0s [bzip2] Building bzip2/yhn7t7sdxdfd, follow log with: [bzip2] tail -f /home/fenics/.hashdist/tmp/bzip2-yhn7t7sdxdfd/build.log Downloading http://www.cmake.org/files/v3.2/cmake-3.2.0-rc1.tar.gz... [=========================] 100.0% (6.1MB of 6.1MB) 0.825MB/s ETA 0s [cmake] Building cmake/nanfm6dw2fzx, follow log with: [cmake] tail -f /home/fenics/.hashdist/tmp/cmake-nanfm6dw2fzx/build.log Downloading http://bitbucket.org/eigen/eigen/get/3.2.1.tar.bz2... [=========================] 100.0% (1.1MB of 1.1MB) 0.198MB/s ETA 0s [eigen] Building eigen/aoytfcoxhttj, follow log with: [eigen] tail -f /home/fenics/.hashdist/tmp/eigen-aoytfcoxhttj/build.log Downloading http://ftp.gnu.org/gnu/m4/m4-1.4.17.tar.bz2... [=========================] 100.0% (1.4MB of 1.4MB) 0.701MB/s ETA 0s [m4] Building m4/44k2kvxu365p, follow log with: [m4] tail -f /home/fenics/.hashdist/tmp/m4-44k2kvxu365p/build.log [lapack] Building lapack/zzrggbkqot7x, follow log with: [lapack] tail -f /home/fenics/.hashdist/tmp/lapack-zzrggbkqot7x/build.log Downloading http://ftp.gnu.org/pub/gnu/ncurses/ncurses-5.9.tar.gz... [=========================] 100.0% (2.7MB of 2.7MB) 0.903MB/s ETA 0s [ncurses] Building ncurses/viognkgus4nj, follow log with: [ncurses] tail -f /home/fenics/.hashdist/tmp/ncurses-viognkgus4nj/build.log Downloading http://download.zeromq.org/zeromq-3.2.4.tar.gz... [=========================] 100.0% (2.0MB of 2.0MB) 0.860MB/s ETA 0s [zmq] Building zmq/ezabxw2ecth4, follow log with: [zmq] tail -f /home/fenics/.hashdist/tmp/zmq-ezabxw2ecth4/build.log [openblas] Building openblas/2m4j6oz5vldj, follow log with: [openblas] tail -f /home/fenics/.hashdist/tmp/openblas-2m4j6oz5vldj/build.log Downloading http://downloads.sourceforge.net/project/flex/flex-2.5.39.tar.bz2... [=========================] 100.0% (1.5MB of 1.5MB) 1.441MB/s ETA 0s [flex] Building flex/eeduf457bgf4, follow log with: [flex] tail -f /home/fenics/.hashdist/tmp/flex-eeduf457bgf4/build.log Downloading http://www.mpich.org/static/tarballs/3.0.3/mpich-3.0.3.tar.gz... [=========================] 100.0% (10.5MB of 10.5MB) 1.398MB/s ETA 0s 5s [mpi] Building mpi/hbd47qrzmwye, follow log with: [mpi] tail -f /home/fenics/.hashdist/tmp/mpi-hbd47qrzmwye/build.log Downloading http://ftp.gnu.org/gnu/readline/readline-6.2.tar.gz... [=========================] 100.0% (2.2MB of 2.2MB) 0.108MB/s ETA 0s [readline] Building readline/5tdfuoei3z6e, follow log with: [readline] tail -f /home/fenics/.hashdist/tmp/readline-5tdfuoei3z6e/build.log Downloading https://sqlite.org/2013/sqlite-autoconf-3071700.tar.gz... [=========================] 100.0% (1.8MB of 1.8MB) 0.896MB/s ETA 0s [sqlite] Building sqlite/m5jo67qgu6zf, follow log with: [sqlite] tail -f /home/fenics/.hashdist/tmp/sqlite-m5jo67qgu6zf/build.log Downloading http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz... [=========================] 100.0% (0.4MB of 0.4MB) 0.260MB/s ETA 0s [szip] Building szip/em7uejvxazrn, follow log with: [szip] tail -f /home/fenics/.hashdist/tmp/szip-em7uejvxazrn/build.log Downloading http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis/parmetis-4.0.3.tar.gz... [=========================] 100.0% (5.3MB of 5.3MB) 0.660MB/s ETA 0s 15s [parmetis] Building parmetis/swux5owl6onc, follow log with: [parmetis] tail -f /home/fenics/.hashdist/tmp/parmetis-swux5owl6onc/build.log [superlu_dist] Building superlu_dist/dkkgllj66sqt, follow log with: [superlu_dist] tail -f /home/fenics/.hashdist/tmp/superlu_dist-dkkgllj66sqt/build.log Downloading http://www.cise.ufl.edu/research/sparse/SuiteSparse/SuiteSparse-4.0.2.tar.gz... [=========================] 100.0% (21.4MB of 21.4MB) 1.211MB/s ETA 0s 0s [suitesparse] Building suitesparse/wfhr2dth3mfb, follow log with: [suitesparse] tail -f /home/fenics/.hashdist/tmp/suitesparse-wfhr2dth3mfb/build.log Downloading http://mirrors.kernel.org/gnu/gmp/gmp-5.1.3.tar.bz2... | [gmp] Building gmp/vadkrj43wtyr, follow log with: [gmp] tail -f /home/fenics/.hashdist/tmp/gmp-vadkrj43wtyr/build.log [launcher] Building launcher/wvmh5uvayzv3, follow log with: [launcher] tail -f /home/fenics/.hashdist/tmp/launcher-wvmh5uvayzv3/build.log Downloading http://downloads.sourceforge.net/project/libpng/zlib/1.2.7/zlib-1.2.7.tar.bz2... [=========================] 100.0% (0.5MB of 0.5MB) 0.927MB/s ETA 0s [zlib] Building zlib/3el5ccejre7b, follow log with: [zlib] tail -f /home/fenics/.hashdist/tmp/zlib-3el5ccejre7b/build.log Downloading http://xmlsoft.org/sources/libxml2-2.9.1.tar.gz... [=========================] 100.0% (4.9MB of 4.9MB) 1.643MB/s ETA 0s [libxml2] Building libxml2/rnluwaluut6h, follow log with: [libxml2] tail -f /home/fenics/.hashdist/tmp/libxml2-rnluwaluut6h/build.log Downloading http://download.osgeo.org/libtiff/tiff-4.0.3.tar.gz... [=========================] 100.0% (2.0MB of 2.0MB) 0.601MB/s ETA 0s [libtiff] Building libtiff/pignbw7m5fpk, follow log with: [libtiff] tail -f /home/fenics/.hashdist/tmp/libtiff-pignbw7m5fpk/build.log Downloading http://download.savannah.gnu.org/releases/freetype/freetype-2.4.11.tar.gz... [=========================] 100.0% (2.0MB of 2.0MB) 1.484MB/s ETA 0s [freetype] Building freetype/3j5vs5xri633, follow log with: [freetype] tail -f /home/fenics/.hashdist/tmp/freetype-3j5vs5xri633/build.log Downloading http://sourceforge.net/projects/libpng/files/libpng16/older-releases/1.6.6/libpng-1.6.6.tar.gz... [=========================] 100.0% (1.2MB of 1.2MB) 0.292MB/s ETA 0s [png] Building png/q24b4y6ojqdw, follow log with: [png] tail -f /home/fenics/.hashdist/tmp/png-q24b4y6ojqdw/build.log Downloading http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8.13/src/hdf5-1.8.13.tar.bz2... [=========================] 100.0% (9.1MB of 9.1MB) 0.403MB/s ETA 0s 26s [hdf5] Building hdf5/htbi7zgabkmm, follow log with: [hdf5] tail -f /home/fenics/.hashdist/tmp/hdf5-htbi7zgabkmm/build.log Downloading http://ftp.gnu.org/gnu/bison/bison-3.0.tar.gz... [=========================] 100.0% (3.1MB of 3.1MB) 0.111MB/s ETA 0s 23s [bison] Building bison/jri2642x26uh, follow log with: [bison] tail -f /home/fenics/.hashdist/tmp/bison-jri2642x26uh/build.log Downloading http://fenicsproject.org/pub/software/contrib/scotch_6.0.0_esmumps.tar.gz... [=========================] 100.0% (4.3MB of 4.3MB) 0.999MB/s ETA 0s [scotch] Building scotch/vyqtwuifsjry, follow log with: [scotch] tail -f /home/fenics/.hashdist/tmp/scotch-vyqtwuifsjry/build.log Downloading http://www.mpfr.org/mpfr-3.1.2/mpfr-3.1.2.tar.bz2... [=========================] 100.0% (1.2MB of 1.2MB) 0.568MB/s ETA 0s [mpfr] Building mpfr/vxwmnxjsshse, follow log with: [mpfr] tail -f /home/fenics/.hashdist/tmp/mpfr-vxwmnxjsshse/build.log Downloading http://ftp.gnu.org/gnu/sed/sed-4.2.tar.bz2... [=========================] 100.0% (0.8MB of 0.8MB) 0.169MB/s ETA 0s [gnu-sed] Building gnu-sed/kouvqjatysek, follow log with: [gnu-sed] tail -f /home/fenics/.hashdist/tmp/gnu-sed-kouvqjatysek/build.log Downloading http://ftp.mcs.anl.gov/pub/petsc/externalpackages/hypre-2.9.1a.tar.gz... [=========================] 100.0% (8.6MB of 8.6MB) 0.657MB/s ETA 0s 17s [hypre] Building hypre/uhvvn42klqkb, follow log with: [hypre] tail -f /home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb/build.log [hypre|ERROR] Command '[u'/bin/bash', '_hashdist/build.sh']' returned non-zero exit status 127 [hypre|ERROR] command failed (code=127); raising
$ tail /home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/build.log 2015/02/25 08:10:58 - INFO: [package:run_job] /home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/bin/mpicc -O -fPIC -DHAVE_CONFIG_H -I. -I./.. -I/home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/src/hypre/include -I/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/include -DHYPRE_TIMING -DHYPRE_FORTRAN -c maxwell_unscaled.c 2015/02/25 08:10:58 - INFO: [package:run_job] Building maxwell_unscaled ... 2015/02/25 08:10:58 - INFO: [package:run_job] /home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/bin/mpicc -o maxwell_unscaled maxwell_unscaled.o -L/home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/src/hypre/lib -lHYPRE -L/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -lopenblas -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -lopenblas -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -Wl,-rpath=/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -L/home/fenics/.hashdist/bld/gnu-sed/kouvqjatysek/lib -Wl,-rpath=/home/fenics/.hashdist/bld/gnu-sed/kouvqjatysek/lib -L/home/fenics/.hashdist/bld/lapack/zzrggbkqot7x/lib -Wl,-rpath=/home/fenics/.hashdist/bld/lapack/zzrggbkqot7x/lib -L/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -Wl,-rpath=/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -L/home/fenics/.hashdist/bld/patchelf/k3rloj265ogt/lib -Wl,-rpath=/home/fenics/.hashdist/bld/patchelf/k3rloj265ogt/lib -lm 2015/02/25 08:10:58 - INFO: [package:run_job] /home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/bin/mpicc -O -fPIC -DHAVE_CONFIG_H -I. -I./.. -I/home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/src/hypre/include -I/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/include -DHYPRE_TIMING -DHYPRE_FORTRAN -c ams_driver.c 2015/02/25 08:10:59 - INFO: [package:run_job] Building ams_driver ... 2015/02/25 08:10:59 - INFO: [package:run_job] /home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/bin/mpicc -o ams_driver ams_driver.o -L/home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/src/hypre/lib -lHYPRE -L/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -lopenblas -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -lopenblas -L/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -Wl,-rpath=/home/fenics/.hashdist/bld/blas/gdnhmas4n27e/lib -L/home/fenics/.hashdist/bld/gnu-sed/kouvqjatysek/lib -Wl,-rpath=/home/fenics/.hashdist/bld/gnu-sed/kouvqjatysek/lib -L/home/fenics/.hashdist/bld/lapack/zzrggbkqot7x/lib -Wl,-rpath=/home/fenics/.hashdist/bld/lapack/zzrggbkqot7x/lib -L/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -Wl,-rpath=/home/fenics/.hashdist/bld/mpi/hbd47qrzmwye/lib -L/home/fenics/.hashdist/bld/patchelf/k3rloj265ogt/lib -Wl,-rpath=/home/fenics/.hashdist/bld/patchelf/k3rloj265ogt/lib -lm 2015/02/25 08:10:59 - INFO: [package:run_job] make[1]: Leaving directory `/home/fenics/.hashdist/tmp/hypre-uhvvn42klqkb-1/src/test' 2015/02/25 08:10:59 - INFO: [package:run_job] ./test/ij: error while loading shared libraries: libHYPRE-2.9.1a.so: cannot open shared object file: No such file or directory 2015/02/25 08:10:59 - ERROR: [package:run_job] Command '[u'/bin/bash', '_hashdist/build.sh']' returned non-zero exit status 127 2015/02/25 08:10:59 - ERROR: [package:run_job] command failed (code=127); raising
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