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Test report for proposed foss/2019a and intel/2019a common toolchains (20190123)
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Test report for proposed 2019a common toolchains

  • foss/2019a (see also easybuilders/easybuild-easyconfigs#7371)

    • GCC 8.2.0 (latest) + binutils 2.31.1 (latest)
    • OpenMPI 3.1.3 (latest 3.x, not using 4.0.0)
    • OpenBLAS 0.3.5 (latest)
    • FFTW 3.3.8 (latest)
    • ScaLAPACK 2.0.2 (latest)

  • intel/2019a (see easybuilders/easybuild-easyconfigs#7372)

    • GCC 8.2.0 + binutils 2.31.1 as a base (both latest)
    • Intel compilers 2019 update 1 (latest)
    • Intel MPI 2018 update 4 (latest 2018.x)
      • not using 2019 update 1 due to known problems with large MPI jobs (may be fixed in 2019 update 2 according to Intel support?)
    • Intel MKL 2019 update 1 (latest)

Test setup

@boegel tested all foss/2018b and intel/2018b easyconfigs with foss/2019a and intel/2019a

  • trivial search & replace of:
    • 2018b with 2019a (for foss and intel toolchains)
    • 7.3.0 with 8.2.0 (for GCCcore)
    • 2.30 with 2.31.1 (for binutils)
  • other software/dependency versions were only updated as needed (see below)

Test systems

  • CentOS 7.6 @ Intel Sandy Bridge
  • CentOS 7.6 @ Intel Haswell
  • CentOS 7.6 @ Intel Skylake [incomplete]

Test results

Summary

  • success (446):

    • 102 easyconfigs with GCCcore/8.2.0
    • 234 easyconfigs with foss/2019a
    • 110 easyconfigs with intel/2019a

  • resolved failures by updating to latest version (3):

    • HDF5 (1.10.2 -> 1.10.4) with foss/2019a and intel/2019a
    • libjpeg-turbo (2.0.0 -> 2.0.1) with GCCcore-8.2.0
    • NASM (2.13.03 -> 2.14.02) with GCCcore-8.2.0

  • unresolved failures (6):

    • Bowtie-1.2.2-foss-2019a.eb (no updates)
    • DIAMOND-0.9.24-foss-2019a.eb (updated from 0.9.22)
    • ELPA-2016.11.001.pre-intel-2019a.eb (have not tried latest version yet)
    • scikit-image-0.14.2-foss-2019a-Python-3.6.6.eb + scikit-image-0.14.2-intel-2019a-Python-3.6.6.eb (updated from 0.14.1)
    • SeqAn-2.4.0-intel-2019a.eb (no updates)
    • ZeroMQ-4.3.1-foss-2019a.eb (only fails on Haswell, not on Sandy Bridge)
    • failing because of missing dependencies (5):
      • FMRIprep-1.1.8-foss-2019a-Python-3.6.6.eb (requires scikit-image)
      • IPython-7.2.0-foss-2019a-Python-3.6.6.eb (requires ZeroMQ)
      • QuantumESPRESSO-6.3-intel-2019a.eb (requires ELPA)
      • seq2HLA-2.3-foss-2019a-Python-2.7.15.eb (requires Bowtie)
      • SCIPhI-0.1.3-intel-2019a.eb (requires SeqAn)

Detailed info w.r.t. failures

  • Bowtie-1.2.2-foss-2019a.eb (no updates)
ebwt.h: In member function ‘uint32_t* Ebwt<TStr>::isa() const’:
            ebwt.h:865:44: error: cannot convert ‘TIndexOffU* const’ {aka ‘long unsigned int* const’} to ‘uint32_t*’ {aka ‘unsigned int*’}         in return
          uint32_t*   isa() const          { return _isa; } /* check */
                                                                  ^~~~
  • DIAMOND-0.9.24-foss-2019a.eb
* CMakeFiles/diamond.dir/src/align/greedy_pipeline.cpp.o:greedy_pipeline.cpp:function ExtensionPipeline::Greedy::Pipeline::run(Statistics&): error: undefined reference to 'Fixed_score_buffer<int> const& needleman_wunsch<int, Local>(sequence, sequence, int&, Local const&, int const&)'
collect2: error: ld returned 1 exit status
  • ELPA-2016.11.001.pre-intel-2019a.eb (have not tried latest version yet)
ld: private_modules: file not recognized: Is a directory
  • scikit-image-0.14.2-foss-2019a-Python-3.6.6.eb, scikit-image-0.14.2-intel-2019a-Python-3.6.6.eb (updated from 0.14.1)
ImportError: No module named '_tifffile'
  • SeqAn-2.4.0-intel-2019a.eb
error: non-scalar type "seqan::SimdVector8Int" cannot be used in a vacuous destructor call
  • ZeroMQ-4.3.1-foss-2019a.eb
src/tweetnacl.c:229:5: internal compiler error: Segmentation fault

List of successfully installed modules

GCCcore/8.2.0 (102 easyconfigs)

ACTC/1.1-GCCcore-8.2.0
Autoconf/2.69-GCCcore-8.2.0
Automake/1.16.1-GCCcore-8.2.0
Autotools/20180311-GCCcore-8.2.0
Bazel/0.16.0-GCCcore-8.2.0
Bazel/0.18.0-GCCcore-8.2.0
binutils/2.30-GCCcore-8.2.0
binutils/2.31.1-GCCcore-8.2.0
Bison/3.0.4-GCCcore-8.2.0
Bison/3.0.5-GCCcore-8.2.0
Blosc/1.14.4-GCCcore-8.2.0
bzip2/1.0.6-GCCcore-8.2.0
cairo/1.14.12-GCCcore-8.2.0
CFITSIO/3.45-GCCcore-8.2.0
CMake/3.11.4-GCCcore-8.2.0
CMake/3.12.1-GCCcore-8.2.0
CMake/3.13.2-GCCcore-8.2.0
cURL/7.60.0-GCCcore-8.2.0
DBus/1.13.6-GCCcore-8.2.0
Doxygen/1.8.14-GCCcore-8.2.0
expat/2.2.5-GCCcore-8.2.0
file/5.35-GCCcore-8.2.0
flex/2.6.4-GCCcore-8.2.0
fontconfig/2.13.0-GCCcore-8.2.0
freetype/2.9.1-GCCcore-8.2.0
FriBidi/1.0.5-GCCcore-8.2.0
gc/7.6.4-GCCcore-8.2.0
gettext/0.19.8.1-GCCcore-8.2.0
Ghostscript/9.23-GCCcore-8.2.0
GLib/2.54.3-GCCcore-8.2.0
GLPK/4.65-GCCcore-8.2.0
GMP/6.1.2-GCCcore-8.2.0
gperf/3.1-GCCcore-8.2.0
Guile/1.8.8-GCCcore-8.2.0
help2man/1.47.4-GCCcore-8.2.0
help2man/1.47.7-GCCcore-8.2.0
hwloc/1.11.11-GCCcore-8.2.0
hwloc/2.0.2-GCCcore-8.2.0
ICU/61.1-GCCcore-8.2.0
ImageMagick/7.0.8-11-GCCcore-8.2.0
intltool/0.51.0-GCCcore-8.2.0-Perl-5.28.0
JasPer/2.0.14-GCCcore-8.2.0
jemalloc/5.1.0-GCCcore-8.2.0
LAME/3.100-GCCcore-8.2.0
libcerf/1.7-GCCcore-8.2.0
libdrm/2.4.92-GCCcore-8.2.0
libffi/3.2.1-GCCcore-8.2.0
libgd/2.2.5-GCCcore-8.2.0
libjpeg-turbo/2.0.1-GCCcore-8.2.0
libmatheval/1.1.11-GCCcore-8.2.0
libpciaccess/0.14-GCCcore-8.2.0
libpng/1.6.34-GCCcore-8.2.0
libreadline/7.0-GCCcore-8.2.0
libsndfile/1.0.28-GCCcore-8.2.0
libsodium/1.0.16-GCCcore-8.2.0
LibTIFF/4.0.9-GCCcore-8.2.0
libtool/2.4.6-GCCcore-8.2.0
libunistring/0.9.10-GCCcore-8.2.0
libxml2/2.9.8-GCCcore-8.2.0
libxslt/1.1.32-GCCcore-8.2.0
libyaml/0.2.1-GCCcore-8.2.0
LittleCMS/2.9-GCCcore-8.2.0
LLVM/6.0.0-GCCcore-8.2.0
LMDB/0.9.22-GCCcore-8.2.0
Lua/5.1.5-GCCcore-8.2.0
M4/1.4.18-GCCcore-8.2.0
MPFR/4.0.1-GCCcore-8.2.0
NASM/2.14.02-GCCcore-8.2.0
ncurses/6.1-GCCcore-8.2.0
NLopt/2.4.2-GCCcore-8.2.0
NSPR/4.20-GCCcore-8.2.0
NSS/3.39-GCCcore-8.2.0
numactl/2.0.12-GCCcore-8.2.0
OpenJPEG/2.3.0-GCCcore-8.2.0
OpenPGM/5.2.122-GCCcore-8.2.0
PCRE/8.41-GCCcore-8.2.0
Perl/5.28.0-GCCcore-8.2.0
pixman/0.34.0-GCCcore-8.2.0
pkg-config/0.29.2-GCCcore-8.2.0
protobuf/3.6.0-GCCcore-8.2.0
protobuf/3.6.1-GCCcore-8.2.0
Python/2.7.15-GCCcore-8.2.0-bare
Qhull/2015.2-GCCcore-8.2.0
SQLite/3.24.0-GCCcore-8.2.0
Szip/2.1.1-GCCcore-8.2.0
tbb/2018_U5-GCCcore-8.2.0
Tcl/8.6.8-GCCcore-8.2.0
tcsh/6.20.00-GCCcore-8.2.0
texinfo/6.5-GCCcore-8.2.0
Tk/8.6.8-GCCcore-8.2.0
util-linux/2.32-GCCcore-8.2.0
X11/20180604-GCCcore-8.2.0
x264/20181203-GCCcore-8.2.0
x265/2.9-GCCcore-8.2.0
XML-LibXML/2.0132-GCCcore-8.2.0-Perl-5.28.0
XML-Parser/2.44_01-GCCcore-8.2.0-Perl-5.28.0
xorg-macros/1.19.2-GCCcore-8.2.0
xprop/1.2.3-GCCcore-8.2.0
XZ/5.2.4-GCCcore-8.2.0
Yasm/1.3.0-GCCcore-8.2.0
zlib/1.2.11-GCCcore-8.2.0

foss/2019a (234 easyconfigs)

AdapterRemoval/2.2.2-foss-2019a
AFNI/18.3.00-foss-2019a-Python-3.6.6
ANTs/2.3.1-foss-2019a-Python-3.6.6
argtable/2.13-foss-2019a
arpack-ng/3.5.0-foss-2019a
ASAP3/3.10.10-foss-2019a-Python-3.6.6
ASE/3.16.2-foss-2019a-Python-3.6.6
ASE/3.17.0-foss-2019a-Python-3.6.6
ATK/2.26.1-foss-2019a
ATK/2.28.1-foss-2019a
BamTools/2.5.1-foss-2019a
BBMap/38.26-foss-2019a
BCFtools/1.9-foss-2019a
bcl2fastq2/2.20.0-foss-2019a
beagle-lib/3.0.2-foss-2019a
Beast/2.5.1-foss-2019a
BEDOPS/2.4.35-foss-2019a
BEDTools/2.27.1-foss-2019a
BerkeleyGW/2.0.0-foss-2019a
Bio-DB-HTS/2.11-foss-2019a-Perl-5.28.0
bioawk/1.0-foss-2019a
BioPerl/1.7.2-foss-2019a-Perl-5.28.0
Biopython/1.72-foss-2019a-Python-2.7.15
Biopython/1.72-foss-2019a-Python-3.6.6
Biopython/1.73-foss-2019a-Python-3.6.6
BLAT/3.5-foss-2019a
Boost.Python/1.67.0-foss-2019a-Python-2.7.15
Boost/1.67.0-foss-2019a
Boost/1.68.0-foss-2019a-Python-2.7.15
Boost/1.68.0-foss-2019a-Python-3.6.6
Bowtie2/2.3.4.2-foss-2019a
BWA/0.7.17-foss-2019a
canu/1.8-foss-2019a-Perl-5.28.0
CGAL/4.11.1-foss-2019a-Python-2.7.15
CLHEP/2.4.1.0-foss-2019a
Clustal-Omega/1.2.4-foss-2019a
ClustalW2/2.1-foss-2019a
cutadapt/1.18-foss-2019a-Python-2.7.15
cutadapt/1.18-foss-2019a-Python-3.6.6
dask/0.19.4-foss-2019a-Python-3.6.6
DBD-mysql/4.048-foss-2019a-Perl-5.28.0
DMTCP/2.5.2-foss-2019a
ELPA/2016.11.001.pre-foss-2019a
ETSF_IO/1.0.4-foss-2019a
fastq-tools/0.8-foss-2019a
FastTree/2.1.10-foss-2019a
FFmpeg/3.4.5-foss-2019a
FFmpeg/4.1-foss-2019a
FLASH/1.2.11-foss-2019a
FLASH/2.2.00-foss-2019a
FLTK/1.3.4-foss-2019a
freeglut/3.0.0-foss-2019a
FSL/5.0.11-foss-2019a-Python-3.6.6
FSL/5.0.11-foss-2019a
future/0.16.0-foss-2019a-Python-2.7.15
GATE/8.1.p01-foss-2019a-Python-2.7.15
GATK/4.0.8.1-foss-2019a-Python-2.7.15
GATK/4.0.8.1-foss-2019a-Python-3.6.6
GATK/4.0.10.0-foss-2019a-Python-3.6.6
GDAL/2.2.3-foss-2019a-Python-2.7.15
GDAL/2.2.3-foss-2019a-Python-3.6.6
gdc-client/1.3.0-foss-2019a-Python-2.7.15
Gdk-Pixbuf/2.36.12-foss-2019a
Geant4/10.5-foss-2019a
GEOS/3.6.2-foss-2019a-Python-2.7.15
GEOS/3.6.2-foss-2019a-Python-3.6.6
GitPython/2.1.11-foss-2019a-Python-3.6.6
GL2PS/1.4.0-foss-2019a
GLIMMER/3.02b-foss-2019a
GlimmerHMM/3.0.4-foss-2019a
gnuplot/5.2.5-foss-2019a
GObject-Introspection/1.54.1-foss-2019a-Python-2.7.15
GPAW/1.4.0-foss-2019a-Python-3.6.6
GraphicsMagick/1.3.31-foss-2019a
GROMACS/2018.1-foss-2019a-PLUMED
GROMACS/2018.2-foss-2019a
GROMACS/2018.3-foss-2019a
GTK+/2.24.32-foss-2019a
h5py/2.8.0-foss-2019a-Python-2.7.15
h5py/2.8.0-foss-2019a-Python-3.6.6
HarfBuzz/2.2.0-foss-2019a
HDF5/1.10.4-foss-2019a
HMMER/3.2.1-foss-2019a
HPL/2.2-foss-2019a
HPL/2.3-foss-2019a
HTSeq/0.11.0-foss-2019a-Python-2.7.15
HTSlib/1.9-foss-2019a
ICA-AROMA/0.4.4-beta-foss-2019a-Python-3.6.6
iCount/20180820-foss-2019a-Python-3.6.6
IDBA-UD/1.1.3-foss-2019a
Infernal/1.1.2-foss-2019a
IntaRNA/2.3.1-foss-2019a-Python-2.7.15
ITK/4.13.1-foss-2019a-Python-2.7.15
ITK/4.13.1-foss-2019a-Python-3.6.6
ITK/5.0b01-foss-2019a-Python-3.6.6
JAGS/4.3.0-foss-2019a
Jellyfish/2.2.10-foss-2019a
kallisto/0.45.0-foss-2019a
Keras/2.2.4-foss-2019a-Python-3.6.6
libgeotiff/1.4.2-foss-2019a
libglade/2.6.4-foss-2019a
libGLU/9.0.0-foss-2019a
libvdwxc/0.3.2-foss-2019a
libwebp/1.0.0-foss-2019a
libxc/3.0.1-foss-2019a
libxc/4.2.3-foss-2019a
lxml/4.2.5-foss-2019a-Python-2.7.15
lxml/4.2.5-foss-2019a-Python-3.6.6
LZO/2.10-foss-2019a
MagresPython/20160329-foss-2019a-Python-2.7.15
Mako/1.0.7-foss-2019a-Python-2.7.15
MariaDB-connector-c/2.3.7-foss-2019a
MariaDB/10.3.10-foss-2019a
matplotlib/2.2.3-foss-2019a-Python-2.7.15
matplotlib/3.0.0-foss-2019a-Python-3.6.6
matplotlib/3.0.2-foss-2019a-Python-3.6.6
medaka/0.4.3-foss-2019a-Python-3.6.6
Mesa/18.1.1-foss-2019a
Meson/0.48.1-foss-2019a-Python-3.6.6
METIS/5.1.0-foss-2019a
minimap2/2.13-foss-2019a
mkl-dnn/0.16-foss-2019a
Mothur/1.41.0-foss-2019a-Python-2.7.15
motif/2.3.8-foss-2019a
mpmath/1.0.0-foss-2019a-Python-2.7.15
MUMmer/4.0.0beta2-foss-2019a
MuPeXI/1.2.0-foss-2019a-Perl-5.28.0-Python-2.7.15
NAMD/2.13-foss-2019a-mpi
ncbi-vdb/2.9.3-foss-2019a
netCDF-C++4/4.3.0-foss-2019a
netCDF-Fortran/4.4.4-foss-2019a
netCDF/4.6.1-foss-2019a
nettle/3.4-foss-2019a
NGS/2.9.3-foss-2019a-Java-1.8
NiBabel/2.3.0-foss-2019a-Python-3.6.6
Ninja/1.8.2-foss-2019a
Nipype/1.1.3-foss-2019a-Python-3.6.6
numexpr/2.6.5-foss-2019a-Python-2.7.15
Octave/4.4.1-foss-2019a
OpenColorIO/1.1.0-foss-2019a
OpenCV/3.4.5-foss-2019a-Python-2.7.15
OpenCV/4.0.1-foss-2019a-Python-2.7.15
OpenFOAM/v1806-foss-2019a
OpenFOAM/v1812-foss-2019a
OpenFOAM/6-foss-2019a
OpenKIM-API/1.9.7-foss-2019a
OPERA/2.0.6-foss-2019a-Perl-5.28.0
OptiType/1.3.2-foss-2019a-Python-2.7.15
Pango/1.42.4-foss-2019a
parallel/20180822-foss-2019a
ParaView/5.4.1-foss-2019a-mpi
ParMETIS/4.0.3-foss-2019a
PCRE2/10.31-foss-2019a
Pillow/5.3.0-foss-2019a-Python-3.6.6
pkgconfig/1.3.1-foss-2019a-Python-2.7.15
pkgconfig/1.3.1-foss-2019a-Python-3.6.6
PLUMED/2.4.2-foss-2019a
poppler/0.70.1-foss-2019a
POV-Ray/3.7.0.7-foss-2019a
preseq/2.0.3-foss-2019a
PROJ/5.0.0-foss-2019a
protobuf-python/3.6.0-foss-2019a-Python-3.6.6
PSolver/1.7.6-foss-2019a
psutil/5.4.7-foss-2019a-Python-2.7.15
psutil/5.4.7-foss-2019a-Python-3.6.6
pybedtools/0.7.10-foss-2019a-Python-3.6.6
PyCairo/1.18.0-foss-2019a-Python-2.7.15
PyGObject/2.28.7-foss-2019a-Python-2.7.15
PyGTK/2.24.0-foss-2019a-Python-2.7.15
Pyomo/5.5.0-foss-2019a-Python-2.7.15
PyQt5/5.11.3-foss-2019a-Python-3.6.6
Pysam/0.15.1-foss-2019a-Python-2.7.15
Pysam/0.15.1-foss-2019a-Python-3.6.6
PyTables/3.4.4-foss-2019a-Python-2.7.15
Python/2.7.15-foss-2019a
Python/3.6.6-foss-2019a
Python/3.7.0-foss-2019a
PyYAML/3.13-foss-2019a-Python-3.6.6
qrupdate/1.1.2-foss-2019a
Qt/4.8.7-foss-2019a
Qt5/5.10.1-foss-2019a
Qt5/5.11.2-foss-2019a
QuantumESPRESSO/6.3-foss-2019a
QuTiP/4.3.1-foss-2019a-Python-3.6.6
R-bundle-Bioconductor/3.7-foss-2019a-R-3.5.1
R/3.5.1-foss-2019a-Python-2.7.15
R/3.5.1-foss-2019a
rjags/4-8-foss-2019a-R-3.5.1
ROOT/6.14.06-foss-2019a-Python-2.7.15
SAMtools/0.1.20-foss-2019a
SAMtools/1.9-foss-2019a
scikit-learn/0.20.0-foss-2019a-Python-3.6.6
SCOTCH/6.0.6-foss-2019a
SDL2/2.0.9-foss-2019a
Seaborn/0.9.0-foss-2019a-Python-3.6.6
segemehl/0.3.4-foss-2019a
SeqAn/2.4.0-foss-2019a
Seqmagick/0.6.2-foss-2019a-Python-2.7.15
Sibelia/3.0.7-foss-2019a
Siesta/4.1-b4-foss-2019a
SimpleITK/1.1.0-foss-2019a-Python-2.7.15
SimpleITK/1.1.0-foss-2019a-Python-3.6.6
SKESA/2.3.0-foss-2019a
sleuth/0.30.0-foss-2019a-R-3.5.1
snakemake/5.2.4-foss-2019a-Python-3.6.6
SPAdes/3.12.0-foss-2019a
SPAdes/3.13.0-foss-2019a
Sphinx/1.8.1-foss-2019a-Python-2.7.15
Sphinx/1.8.1-foss-2019a-Python-3.6.6
STAR/2.6.1c-foss-2019a
strelka/2.9.9-foss-2019a
StringTie/1.3.5-foss-2019a
Subread/1.6.3-foss-2019a
SuiteSparse/5.1.2-foss-2019a-METIS-5.1.0
SWIG/3.0.12-foss-2019a-Python-2.7.15
SWIG/3.0.12-foss-2019a-Python-3.6.6
TensorFlow/1.10.1-foss-2019a-Python-3.6.6
TensorFlow/1.11.0-foss-2019a-Python-3.6.6
TensorFlow/1.12.0-foss-2019a-Python-3.6.6
Theano/1.0.3-foss-2019a-Python-3.6.6
Tkinter/2.7.15-foss-2019a-Python-2.7.15
Tkinter/3.6.6-foss-2019a-Python-3.6.6
tqdm/4.24.0-foss-2019a-Python-2.7.15
Trim_Galore/0.5.0-foss-2019a
UDUNITS/2.2.26-foss-2019a
VCFtools/0.1.16-foss-2019a-Perl-5.28.0
VEP/94.0-foss-2019a-Perl-5.28.0
ViennaRNA/2.4.10-foss-2019a-Python-2.7.15
Vim/8.1.0483-foss-2019a-Python-2.7.15
VSEARCH/2.9.1-foss-2019a
VTK/8.1.1-foss-2019a-Python-2.7.15
VTK/8.1.1-foss-2019a-Python-3.6.6
wheel/0.31.1-foss-2019a-Python-3.6.6
XMDS2/2.2.3-foss-2019a-Python-2.7.15

intel/2019a (110 easyconfigs)

4ti2/1.6.9-intel-2019a
ASAP3/3.10.10-intel-2019a-Python-3.6.6
ASE/3.16.2-intel-2019a-Python-3.6.6
ASE/3.17.0-intel-2019a-Python-3.6.6
Assimulo/2.9-intel-2019a-Python-2.7.15
BCFtools/1.9-intel-2019a
Biopython/1.72-intel-2019a-Python-2.7.15
BLAST+/2.7.1-intel-2019a
Blender/2.79b-intel-2019a-Python-3.6.6
Boost/1.67.0-intel-2019a
Boost/1.68.0-intel-2019a-Python-2.7.15
Boost/1.68.0-intel-2019a-Python-3.6.6
BWA/0.7.17-intel-2019a
CFITSIO/3.45-intel-2019a
cftime/1.0.1-intel-2019a-Python-2.7.15
CheMPS2/1.8.8-intel-2019a
CLHEP/2.4.1.0-intel-2019a
dask/0.19.4-intel-2019a-Python-3.6.6
dask/1.0.0-intel-2019a-Python-3.6.6
deepdiff/3.3.0-intel-2019a-Python-2.7.15
ETSF_IO/1.0.4-intel-2019a
FFmpeg/4.1-intel-2019a
FFTW/2.1.5-intel-2019a
FFTW/3.3.8-intel-2019a
FLTK/1.3.4-intel-2019a
Flye/2.4-intel-2019a-Python-2.7.15
FMILibrary/2.0.3-intel-2019a
future/0.16.0-intel-2019a-Python-2.7.15
gap/4.9.3-intel-2019a
Geant4/10.5-intel-2019a
GPAW/1.4.0-intel-2019a-Python-3.6.6
h5py/2.8.0-intel-2019a-Python-2.7.15-serial
h5py/2.8.0-intel-2019a-Python-2.7.15
h5py/2.8.0-intel-2019a-Python-3.6.6
HDDM/0.6.1-intel-2019a-Python-3.6.6
HDF5/1.10.2-intel-2019a
HDF5/1.10.4-intel-2019a
HMMER/3.2.1-intel-2019a
HPL/2.2-intel-2019a
HPL/2.3-intel-2019a
HTSeq/0.11.0-intel-2019a-Python-2.7.15
HTSlib/1.9-intel-2019a
Hyperopt/0.1.1-intel-2019a-Python-3.6.6
Inelastica/1.3.5-intel-2019a-Python-2.7.15
Infernal/1.1.2-intel-2019a
IPython/7.2.0-intel-2019a-Python-3.6.6
libGLU/9.0.0-intel-2019a
Libint/1.1.6-intel-2019a
LibTIFF/4.0.9-intel-2019a
libxc/3.0.1-intel-2019a
libxc/4.2.3-intel-2019a
libxsmm/1.10-intel-2019a
lrslib/6.2-intel-2019a
lxml/4.2.5-intel-2019a-Python-2.7.15
Mako/1.0.7-intel-2019a-Python-2.7.15
MapSplice/2.2.1-intel-2019a-Python-2.7.15
matplotlib/2.2.3-intel-2019a-Python-2.7.15
matplotlib/3.0.0-intel-2019a-Python-3.6.6
Mesa/18.1.1-intel-2019a
molmod/1.4.4-intel-2019a-Python-2.7.15
nanopolish/0.10.2-intel-2019a-Python-2.7.15
netCDF-C++4/4.3.0-intel-2019a
netCDF-Fortran/4.4.4-intel-2019a
netCDF/4.6.1-intel-2019a
netcdf4-python/1.4.1-intel-2019a-Python-2.7.15
nettle/3.4-intel-2019a
networkx/2.2-intel-2019a-Python-2.7.15
networkx/2.2-intel-2019a-Python-3.6.6
NEURON/7.6.5-intel-2019a-Python-2.7.15
Normaliz/3.6.3-intel-2019a
OpenEXR/2.3.0-intel-2019a
OpenImageIO/1.8.16-intel-2019a
OpenKIM-API/1.9.7-intel-2019a
OPERA/2.0.6-intel-2019a-Perl-5.28.0
parallel/20181222-intel-2019a
Pillow/5.3.0-intel-2019a-Python-3.6.6
pkgconfig/1.3.1-intel-2019a-Python-2.7.15
pkgconfig/1.3.1-intel-2019a-Python-3.6.6
PLUMED/2.4.2-intel-2019a
POV-Ray/3.7.0.7-intel-2019a
PSI4/1.2.1-intel-2019a-Python-2.7.15-maxam8
PSI4/1.2.1-intel-2019a-Python-2.7.15
PSolver/1.7.6-intel-2019a
psrecord/1.1-intel-2019a-Python-2.7.15
psrecord/1.1-intel-2019a-Python-3.6.6
pyfits/3.5-intel-2019a-Python-2.7.15
PyFMI/2.4.0-intel-2019a-Python-2.7.15
Pysam/0.15.1-intel-2019a-Python-2.7.15
pytest/3.8.2-intel-2019a-Python-2.7.15
Python/2.7.15-intel-2019a
Python/3.6.6-intel-2019a
Python/3.7.0-intel-2019a
PyYAML/3.13-intel-2019a-Python-3.6.6
RepeatMasker/4.0.8-intel-2019a-Perl-5.28.0-HMMER
SAMtools/0.1.20-intel-2019a
SAMtools/1.9-intel-2019a
scikit-learn/0.20.0-intel-2019a-Python-3.6.6
SDL2/2.0.9-intel-2019a
Siesta/4.1-b4-intel-2019a
strelka/2.9.10-intel-2019a-Python-2.7.15
SUNDIALS/2.6.2-intel-2019a
SWIG/3.0.12-intel-2019a-Python-2.7.15
Tkinter/2.7.15-intel-2019a-Python-2.7.15
Tkinter/3.6.6-intel-2019a-Python-3.6.6
VCFtools/0.1.16-intel-2019a-Perl-5.28.0
ViennaRNA/2.4.10-intel-2019a-Python-2.7.15
VMD/1.9.3-intel-2019a-Python-2.7.15
worker/1.6.8-intel-2019a
yaff/1.4.5-intel-2019a-Python-2.7.15
ZeroMQ/4.2.5-intel-2019a
@akesandgren
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akesandgren commented Jan 23, 2019 •
edited

The failure in ELPA is that ifort 2019 do not accept -mod as the flag to specify where to write F90 module data. It requires -module.
But... libtool in its infinite wisdom knows that -module is a libtool flag to "build a library that can dlopened" and simply removes it leaving the ifort argument to -module ...

Not sure that this can be easily solved at all, i.e. intel fortran 2019 and libtools is kind of incompatible...

But, the problem only exists when libtool is called as "./libtool --tag=FC --mode=link" with a -module somedir arg to ifort.
One need to make sure that ELPA does not pass -module somedir to the link stage, only to compile.

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