From 6d3e1102d5811a01f141368ad05eba73d9905495 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Luk=C3=A1=C5=A1=20Krup=C4=8D=C3=ADk?= Date: Mon, 10 Dec 2018 14:43:59 +0100 Subject: [PATCH] new file: b/Bison/Bison-2.7.eb new file: b/binutils/binutils-2.25-GCCcore-4.9.3.eb new file: b/binutils/binutils-2.25.eb new file: b/byacc/byacc-20120526.eb modified: f/FFTW/FFTW-3.3.5-gompi-2016a.eb modified: f/flex/flex-2.5.39.eb new file: f/foss/foss-2016a.eb modified: g/GCCcore/GCCcore-4.9.3.eb modified: g/GCCcore/GCCcore-5.4.0.eb modified: g/GCCcore/GCCcore-8.1.0.eb modified: g/GROMACS/GROMACS-5.1.4-foss-2016a-hybrid-single-PLUMED.eb new file: g/gompi/gompi-2016a.eb new file: h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb new file: i/icc/icc-2018.1.163-GCC-6.3.0-2.27.eb new file: i/iccifort/iccifort-2018.1.163-GCC-6.3.0-2.27.eb new file: i/ifort/ifort-2018.1.163-GCC-6.3.0-2.27.eb modified: i/iimpi/iimpi-2018a.eb new file: i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb modified: i/intel/intel-2018a.eb modified: l/libarchive/libarchive-3.3.2.eb new file: l/libmatheval/libmatheval-1.1.8.eb new file: n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb modified: n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb modified: o/ORCA/ORCA-4.0.1.2.eb modified: o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb new file: o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb modified: o/OpenMPI/OpenMPI-2.0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb deleted: i/icc/icc-2018.1.163-GCC-6.4.0-2.28.eb deleted: i/iccifort/iccifort-2018.1.163-GCC-6.4.0-2.28.eb deleted: i/ifort/ifort-2018.1.163-GCC-6.4.0-2.28.eb deleted: i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.4.0-2.28.eb --- b/Bison/Bison-2.7.eb | 24 ++++++ b/binutils/binutils-2.25-GCCcore-4.9.3.eb | 24 ++++++ b/binutils/binutils-2.25.eb | 22 ++++++ b/byacc/byacc-20120526.eb | 23 ++++++ f/FFTW/FFTW-3.3.5-gompi-2016a.eb | 2 + f/flex/flex-2.5.39.eb | 4 +- f/foss/foss-2016a.eb | 37 +++++++++ g/GCCcore/GCCcore-4.9.3.eb | 3 + g/GCCcore/GCCcore-5.4.0.eb | 5 +- g/GCCcore/GCCcore-8.1.0.eb | 1 - ...S-5.1.4-foss-2016a-hybrid-single-PLUMED.eb | 4 +- g/gompi/gompi-2016a.eb | 22 ++++++ h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb | 28 +++++++ ...28.eb => icc-2018.1.163-GCC-6.3.0-2.27.eb} | 6 +- ... => iccifort-2018.1.163-GCC-6.3.0-2.27.eb} | 2 +- ....eb => ifort-2018.1.163-GCC-6.3.0-2.27.eb} | 6 +- i/iimpi/iimpi-2018a.eb | 2 +- ...163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb} | 4 +- i/intel/intel-2018a.eb | 4 +- l/libarchive/libarchive-3.3.2.eb | 2 +- l/libmatheval/libmatheval-1.1.8.eb | 36 +++++++++ n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb | 28 +++++++ n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb | 1 - o/ORCA/ORCA-4.0.1.2.eb | 4 - o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb | 14 +++- o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb | 75 +++++++++++++++++++ ....0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb | 8 +- 27 files changed, 364 insertions(+), 27 deletions(-) create mode 100644 b/Bison/Bison-2.7.eb create mode 100644 b/binutils/binutils-2.25-GCCcore-4.9.3.eb create mode 100644 b/binutils/binutils-2.25.eb create mode 100644 b/byacc/byacc-20120526.eb create mode 100644 f/foss/foss-2016a.eb create mode 100644 g/gompi/gompi-2016a.eb create mode 100644 h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb rename i/icc/{icc-2018.1.163-GCC-6.4.0-2.28.eb => icc-2018.1.163-GCC-6.3.0-2.27.eb} (94%) rename i/iccifort/{iccifort-2018.1.163-GCC-6.4.0-2.28.eb => iccifort-2018.1.163-GCC-6.3.0-2.27.eb} (91%) rename i/ifort/{ifort-2018.1.163-GCC-6.4.0-2.28.eb => ifort-2018.1.163-GCC-6.3.0-2.27.eb} (95%) rename i/impi/{impi-2018.1.163-iccifort-2018.1.163-GCC-6.4.0-2.28.eb => impi-2018.1.163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb} (91%) create mode 100644 l/libmatheval/libmatheval-1.1.8.eb create mode 100644 n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb create mode 100644 o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb diff --git a/b/Bison/Bison-2.7.eb b/b/Bison/Bison-2.7.eb new file mode 100644 index 00000000..3b22d0d7 --- /dev/null +++ b/b/Bison/Bison-2.7.eb @@ -0,0 +1,24 @@ +# IT4Innovations 2018 + +easyblock = 'ConfigureMake' + +name = 'Bison' +version = '2.7' + +homepage = 'http://www.gnu.org/software/bison' +description = """Bison is a general-purpose parser generator that converts an annotated context-free grammar +into a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.""" + +toolchain = {'name': 'dummy', 'version': ''} + +sources = [SOURCELOWER_TAR_GZ] +source_urls = [GNU_SOURCE] + +builddependencies = [('M4', '1.4.18')] + +sanity_check_paths = { + 'files': ["bin/%s" % x for x in ["bison", "yacc"]] + ["lib/liby.a"], + 'dirs': [], +} + +moduleclass = 'lang' diff --git a/b/binutils/binutils-2.25-GCCcore-4.9.3.eb b/b/binutils/binutils-2.25-GCCcore-4.9.3.eb new file mode 100644 index 00000000..4a70d26e --- /dev/null +++ b/b/binutils/binutils-2.25-GCCcore-4.9.3.eb @@ -0,0 +1,24 @@ +# IT4Innovations 2018 + +name = 'binutils' +version = '2.25' + +homepage = 'http://directory.fsf.org/project/binutils/' +description = "binutils: GNU binary utilities" + +toolchain = {'name': 'GCCcore', 'version': '4.9.3'} + +sources = [SOURCE_TAR_GZ] +source_urls = [GNU_SOURCE] + +builddependencies = [ + ('M4', '1.4.18', '', True), + ('flex', '2.5.39', '', True), + ('Bison', '3.0.4', '', True), + # zlib required, but being linked in statically, so not a runtime dep + ('zlib', '1.2.8', '', True), + # use same binutils version that was used when building GCC toolchain, to 'bootstrap' this binutils + ('binutils', version, '', True) +] + +moduleclass = 'tools' diff --git a/b/binutils/binutils-2.25.eb b/b/binutils/binutils-2.25.eb new file mode 100644 index 00000000..89bc7022 --- /dev/null +++ b/b/binutils/binutils-2.25.eb @@ -0,0 +1,22 @@ +# IT4Innovations 2018 + +name = 'binutils' +version = '2.25' + +homepage = 'http://directory.fsf.org/project/binutils/' +description = "binutils: GNU binary utilities" + +toolchain = {'name': 'dummy', 'version': ''} + +sources = [SOURCE_TAR_GZ] +source_urls = [GNU_SOURCE] + +builddependencies = [ + ('M4', '1.4.18'), + ('flex', '2.5.39'), + ('Bison', '3.0.4'), + # zlib required, but being linked in statically, so not a runtime dep + ('zlib', '1.2.8'), +] + +moduleclass = 'tools' diff --git a/b/byacc/byacc-20120526.eb b/b/byacc/byacc-20120526.eb new file mode 100644 index 00000000..938aeb74 --- /dev/null +++ b/b/byacc/byacc-20120526.eb @@ -0,0 +1,23 @@ +# IT4Innovations 2018 + +easyblock = 'ConfigureMake' + +name = 'byacc' +version = '20120526' + +homepage = 'http://invisible-island.net/byacc/byacc.html' +description = """Berkeley Yacc (byacc) is generally conceded to be the best yacc variant available. + In contrast to bison, it is written to avoid dependencies upon a particular compiler.""" + + +toolchain = {'name': 'dummy', 'version': ''} + +sources = [SOURCELOWER_TGZ] +source_urls = ['https://invisible-mirror.net/archives/byacc/'] + +sanity_check_paths = { + 'files': ["bin/yacc"], + 'dirs': [] + } + +moduleclass = 'lang' diff --git a/f/FFTW/FFTW-3.3.5-gompi-2016a.eb b/f/FFTW/FFTW-3.3.5-gompi-2016a.eb index ac3d8f09..aecb11b5 100644 --- a/f/FFTW/FFTW-3.3.5-gompi-2016a.eb +++ b/f/FFTW/FFTW-3.3.5-gompi-2016a.eb @@ -1,3 +1,5 @@ +# IT4Innovations 2018 + easyblock = 'ConfigureMake' name = 'FFTW' diff --git a/f/flex/flex-2.5.39.eb b/f/flex/flex-2.5.39.eb index e4d83f16..e66cb240 100644 --- a/f/flex/flex-2.5.39.eb +++ b/f/flex/flex-2.5.39.eb @@ -1,3 +1,5 @@ +# IT4Innovations 2018 + name = 'flex' version = '2.5.39' @@ -11,6 +13,6 @@ toolchainopts = {'pic': True} sources = [SOURCELOWER_TAR_GZ] source_urls = ['http://prdownloads.sourceforge.net/%(namelower)s'] -builddependencies = [('M4', '1.4.17')] +builddependencies = [('M4', '1.4.18')] moduleclass = 'lang' diff --git a/f/foss/foss-2016a.eb b/f/foss/foss-2016a.eb new file mode 100644 index 00000000..d4e79fb0 --- /dev/null +++ b/f/foss/foss-2016a.eb @@ -0,0 +1,37 @@ +# IT4Innovations 2018 + +easyblock = 'Toolchain' + +name = 'foss' +version = '2016a' + +homepage = '(none)' +description = """GNU Compiler Collection (GCC) based compiler toolchain, including + OpenMPI for MPI support, OpenBLAS (BLAS and LAPACK support), FFTW and ScaLAPACK.""" + +toolchain = {'name': 'dummy', 'version': 'dummy'} + +gccver = '4.9.3-2.25' + +blaslib = 'OpenBLAS' +blasver = '0.2.15' +blas = '%s-%s' % (blaslib, blasver) +blassuff = '-LAPACK-3.6.0' + +# toolchain used to build foss dependencies +comp_mpi_tc_name = 'gompi' +comp_mpi_tc = (comp_mpi_tc_name, version) + +# compiler toolchain depencies +# we need GCC and OpenMPI as explicit dependencies instead of gompi toolchain +# because of toolchain preperation functions +# For binutils, stick to http://wiki.osdev.org/Cross-Compiler_Successful_Builds +dependencies = [ + ('GCC', gccver), + ('OpenMPI', '1.10.7', '', ('GCC', gccver)), + (blaslib, blasver, blassuff, ('GCC', gccver)), + ('FFTW', '3.3.5', '', comp_mpi_tc), + ('ScaLAPACK', '2.0.2', '-%s%s' % (blas, blassuff), comp_mpi_tc), +] + +moduleclass = 'toolchain' diff --git a/g/GCCcore/GCCcore-4.9.3.eb b/g/GCCcore/GCCcore-4.9.3.eb index b85dde79..f4d74cbb 100644 --- a/g/GCCcore/GCCcore-4.9.3.eb +++ b/g/GCCcore/GCCcore-4.9.3.eb @@ -1,3 +1,5 @@ +# IT4Innovations + easyblock = 'EB_GCC' name = 'GCCcore' @@ -16,6 +18,7 @@ source_urls = [ 'http://ftpmirror.gnu.org/gmp', # idem for GMP 'http://ftpmirror.gnu.org/mpfr', # idem for MPFR 'http://www.multiprecision.org/mpc/download', # MPC official + 'https://ftp.gnu.org/gnu/mpc/', ] sources = [ 'gcc-%(version)s.tar.bz2', diff --git a/g/GCCcore/GCCcore-5.4.0.eb b/g/GCCcore/GCCcore-5.4.0.eb index 5ba5110b..374c9796 100644 --- a/g/GCCcore/GCCcore-5.4.0.eb +++ b/g/GCCcore/GCCcore-5.4.0.eb @@ -17,7 +17,8 @@ source_urls = [ 'http://ftpmirror.gnu.org/gmp', # idem for GMP 'http://ftpmirror.gnu.org/mpfr', # idem for MPFR 'http://www.multiprecision.org/mpc/download', # MPC official - 'ftp://gcc.gnu.org/pub/gcc/infrastructure/', # GCC dependencies + #'ftp://gcc.gnu.org/pub/gcc/infrastructure/', # GCC dependencies + 'https://mirror.math.princeton.edu/pub/gcc/infrastructure/', 'http://gcc.cybermirror.org/infrastructure/', # HTTP mirror for GCC dependencies ] @@ -37,7 +38,7 @@ patches = [ builddependencies = [ ('binutils', '2.26'), - ('M4', '1.4.17'), + ('M4', '1.4.18'), ] checksums = [ diff --git a/g/GCCcore/GCCcore-8.1.0.eb b/g/GCCcore/GCCcore-8.1.0.eb index 30d449e7..ea6ccd4c 100644 --- a/g/GCCcore/GCCcore-8.1.0.eb +++ b/g/GCCcore/GCCcore-8.1.0.eb @@ -46,7 +46,6 @@ checksums = [ builddependencies = [ ('M4', '1.4.18'), ('binutils', '2.30'), - ('GCCcore', '6.3.0'), ] languages = ['c', 'c++', 'fortran'] diff --git a/g/GROMACS/GROMACS-5.1.4-foss-2016a-hybrid-single-PLUMED.eb b/g/GROMACS/GROMACS-5.1.4-foss-2016a-hybrid-single-PLUMED.eb index 5ca7c6c1..75acf808 100644 --- a/g/GROMACS/GROMACS-5.1.4-foss-2016a-hybrid-single-PLUMED.eb +++ b/g/GROMACS/GROMACS-5.1.4-foss-2016a-hybrid-single-PLUMED.eb @@ -1,6 +1,8 @@ +# IT4Innovations 2018 + name = 'GROMACS' version = '5.1.4' -versionsuffix = '-hybrid-single-PLUMED-test' +versionsuffix = '-hybrid-single-PLUMED' homepage = 'http://www.gromacs.org' description = """GROMACS is a versatile package to perform molecular dynamics, diff --git a/g/gompi/gompi-2016a.eb b/g/gompi/gompi-2016a.eb new file mode 100644 index 00000000..d5f61fb6 --- /dev/null +++ b/g/gompi/gompi-2016a.eb @@ -0,0 +1,22 @@ +# IT4Innovations 2018 + +easyblock = "Toolchain" + +name = 'gompi' +version = '2016a' + +homepage = '(none)' +description = """GNU Compiler Collection (GCC) based compiler toolchain, + including OpenMPI for MPI support.""" + +toolchain = {'name': 'dummy', 'version': 'dummy'} + +gccver = '4.9.3-2.25' + +# compiler toolchain dependencies +dependencies = [ + ('GCC', gccver), # includes both GCC 4.9.3 and binutils 2.25 + ('OpenMPI', '1.10.7', '', ('GCC', gccver)), +] + +moduleclass = 'toolchain' diff --git a/h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb b/h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb new file mode 100644 index 00000000..9e46c082 --- /dev/null +++ b/h/hwloc/hwloc-1.11.7-GCC-4.9.3-2.25.eb @@ -0,0 +1,28 @@ +# IT4Innovations 2018 + +easyblock = 'ConfigureMake' + +name = 'hwloc' +version = '1.11.7' + +homepage = 'http://www.open-mpi.org/projects/hwloc/' +description = """The Portable Hardware Locality (hwloc) software package provides a portable abstraction +(across OS, versions, architectures, ...) of the hierarchical topology of modern architectures, including +NUMA memory nodes, sockets, shared caches, cores and simultaneous multithreading. It also gathers various +system attributes such as cache and memory information as well as the locality of I/O devices such as +network interfaces, InfiniBand HCAs or GPUs. It primarily aims at helping applications with gathering +information about modern computing hardware so as to exploit it accordingly and efficiently.""" + +toolchain = {'name': 'GCC', 'version': '4.9.3-2.25'} + +source_urls = [ + 'http://www.open-mpi.org/software/hwloc/v%(version_major_minor)s/downloads/'] +sources = [SOURCE_TAR_GZ] + +dependencies = [ + ('numactl', '2.0.11', '', ('GCCcore', '4.9.3')), +] + +configopts = "--enable-libnuma=$EBROOTNUMACTL" + +moduleclass = 'system' diff --git a/i/icc/icc-2018.1.163-GCC-6.4.0-2.28.eb b/i/icc/icc-2018.1.163-GCC-6.3.0-2.27.eb similarity index 94% rename from i/icc/icc-2018.1.163-GCC-6.4.0-2.28.eb rename to i/icc/icc-2018.1.163-GCC-6.3.0-2.27.eb index a7519edc..7699adf5 100644 --- a/i/icc/icc-2018.1.163-GCC-6.4.0-2.28.eb +++ b/i/icc/icc-2018.1.163-GCC-6.3.0-2.27.eb @@ -1,3 +1,5 @@ +# IT4Innovations 2018 + name = 'icc' version = '2018.1.163' @@ -11,8 +13,8 @@ sources = [ checksums = ['ddbfdf88eed095817650ec0a226ef3b9c07c41c855d258e80eaade5173fedb6e'] -gccver = '6.4.0' -binutilsver = '2.28' +gccver = '6.3.0' +binutilsver = '2.27' versionsuffix = '-GCC-%s-%s' % (gccver, binutilsver) dependencies = [ diff --git a/i/iccifort/iccifort-2018.1.163-GCC-6.4.0-2.28.eb b/i/iccifort/iccifort-2018.1.163-GCC-6.3.0-2.27.eb similarity index 91% rename from i/iccifort/iccifort-2018.1.163-GCC-6.4.0-2.28.eb rename to i/iccifort/iccifort-2018.1.163-GCC-6.3.0-2.27.eb index c5f93491..d0c72ac3 100644 --- a/i/iccifort/iccifort-2018.1.163-GCC-6.4.0-2.28.eb +++ b/i/iccifort/iccifort-2018.1.163-GCC-6.3.0-2.27.eb @@ -2,7 +2,7 @@ easyblock = 'Toolchain' name = 'iccifort' version = '2018.1.163' -versionsuffix = '-GCC-6.4.0-2.28' +versionsuffix = '-GCC-6.3.0-2.27' homepage = 'http://software.intel.com/en-us/intel-cluster-toolkit-compiler/' description = "Intel C, C++ & Fortran compilers" diff --git a/i/ifort/ifort-2018.1.163-GCC-6.4.0-2.28.eb b/i/ifort/ifort-2018.1.163-GCC-6.3.0-2.27.eb similarity index 95% rename from i/ifort/ifort-2018.1.163-GCC-6.4.0-2.28.eb rename to i/ifort/ifort-2018.1.163-GCC-6.3.0-2.27.eb index 616e5ed0..38c9ad2f 100644 --- a/i/ifort/ifort-2018.1.163-GCC-6.4.0-2.28.eb +++ b/i/ifort/ifort-2018.1.163-GCC-6.3.0-2.27.eb @@ -1,3 +1,5 @@ +# IT4Innovations 2018 + name = 'ifort' version = '2018.1.163' @@ -16,8 +18,8 @@ checksums = [ # ifort_2018.1.163_no_mpi_mic_dependency.patch ] -gccver = '6.4.0' -binutilsver = '2.28' +gccver = '6.3.0' +binutilsver = '2.27' versionsuffix = '-GCC-%s-%s' % (gccver, binutilsver) dependencies = [ diff --git a/i/iimpi/iimpi-2018a.eb b/i/iimpi/iimpi-2018a.eb index 904a6c4b..02d56a1b 100644 --- a/i/iimpi/iimpi-2018a.eb +++ b/i/iimpi/iimpi-2018a.eb @@ -9,7 +9,7 @@ description = """Intel C/C++ and Fortran compilers, alongside Intel MPI.""" toolchain = {'name': 'dummy', 'version': ''} compver = '2018.1.163' -suff = '-GCC-6.4.0-2.28' +suff = '-GCC-6.3.0-2.27' dependencies = [ ('icc', compver, suff), ('ifort', compver, suff), diff --git a/i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.4.0-2.28.eb b/i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb similarity index 91% rename from i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.4.0-2.28.eb rename to i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb index 5225dd6c..aab0d7ce 100644 --- a/i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.4.0-2.28.eb +++ b/i/impi/impi-2018.1.163-iccifort-2018.1.163-GCC-6.3.0-2.27.eb @@ -1,10 +1,12 @@ +# IT4Innovations 2018 + name = 'impi' version = '2018.1.163' homepage = 'http://software.intel.com/en-us/intel-mpi-library/' description = "Intel MPI Library, compatible with MPICH ABI" -toolchain = {'name': 'iccifort', 'version': '2018.1.163-GCC-6.4.0-2.28'} +toolchain = {'name': 'iccifort', 'version': '2018.1.163-GCC-6.3.0-2.27'} sources = ['l_mpi_%(version)s.tgz'] diff --git a/i/intel/intel-2018a.eb b/i/intel/intel-2018a.eb index b5e99e97..c3d64a3e 100644 --- a/i/intel/intel-2018a.eb +++ b/i/intel/intel-2018a.eb @@ -9,8 +9,8 @@ description = "Compiler toolchain including Intel compilers, Intel MPI and Intel toolchain = {'name': 'dummy', 'version': ''} compver = '2018.1.163' -gccver = '6.4.0' -binutilsver = '2.28' +gccver = '6.3.0' +binutilsver = '2.27' gccsuff = '-GCC-%s-%s' % (gccver, binutilsver) dependencies = [ ('GCCcore', gccver), diff --git a/l/libarchive/libarchive-3.3.2.eb b/l/libarchive/libarchive-3.3.2.eb index 67af4cfe..7b2d2f04 100644 --- a/l/libarchive/libarchive-3.3.2.eb +++ b/l/libarchive/libarchive-3.3.2.eb @@ -15,7 +15,7 @@ source_urls = ['https://github.com/libarchive/libarchive/archive/'] sources = ['v3.3.2.tar.gz'] builddependencies = [ - ('CMake', '3.9.1'), + ('CMake', '3.13.1'), ] dependencies = [ diff --git a/l/libmatheval/libmatheval-1.1.8.eb b/l/libmatheval/libmatheval-1.1.8.eb new file mode 100644 index 00000000..3ff257c4 --- /dev/null +++ b/l/libmatheval/libmatheval-1.1.8.eb @@ -0,0 +1,36 @@ +# IT4Innovations 2017 + +easyblock = 'ConfigureMake' + +name = 'libmatheval' +version = '1.1.8' + +homepage = 'http://www.gnu.org/software/libmatheval/' +description = """GNU libmatheval is a library (callable from C and Fortran) to parse + and evaluate symbolic expressions input as text.""" + +toolchain = {'name': 'dummy', 'version': ''} +toolchainopts = {'pic': True} + +sources = [SOURCELOWER_TAR_GZ] +source_urls = [GNU_SOURCE] + +dependencies = [ + ('flex', '2.6.4'), + ('Bison', '3.0.4'), + ('byacc', '20120526'), + ('guile', '1.8.8'), +] + +configopts = '--with-pic ' + +# fix for guile-config being broken because shebang line contains full +# path to bin/guile +configopts += 'GUILE_CONFIG="$EBROOTGUILE/bin/guile -e main -s $EBROOTGUILE/bin/guile-config"' + +sanity_check_paths = { + 'files': ['lib/libmatheval.a', 'include/matheval.h'], + 'dirs': [], +} + +moduleclass = 'lib' diff --git a/n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb b/n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb new file mode 100644 index 00000000..bba5bdb6 --- /dev/null +++ b/n/numactl/numactl-2.0.11-GCC-4.9.3-2.25.eb @@ -0,0 +1,28 @@ +# IT4Innovations 2018 + +easyblock = 'ConfigureMake' + +name = 'numactl' +version = '2.0.11' + +homepage = 'http://oss.sgi.com/projects/libnuma/' +description = """The numactl program allows you to run your application program on specific cpu's and memory nodes. + It does this by supplying a NUMA memory policy to the operating system before running your program. + The libnuma library provides convenient ways for you to add NUMA memory policies into your own program.""" + +toolchain = {'name': 'GCC', 'version': '4.9.3-2.25'} + +source_urls = ['https://github.com/numactl/numactl/archive/'] +sources = ['v%(version)s.tar.gz'] +checksums = ['3e099a59b2c527bcdbddd34e1952ca87462d2cef4c93da9b0bc03f02903f7089'] + +builddependencies = [('Autotools', '20150215', '', True)] + +preconfigopts = "./autogen.sh && " + +sanity_check_paths = { + 'files': ['bin/numactl', 'bin/numastat', 'lib/libnuma.%s' % SHLIB_EXT, 'lib/libnuma.a'], + 'dirs': ['share/man', 'include'] +} + +moduleclass = 'tools' diff --git a/n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb b/n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb index ce774580..1f993991 100644 --- a/n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb +++ b/n/numactl/numactl-2.0.11-GCC-6.3.0-2.27.eb @@ -15,7 +15,6 @@ toolchainopts = {'pic': True} source_urls = ['https://github.com/numactl/numactl/archive/'] sources = [SOURCE_TAR_GZ] -checksums = ['3e099a59b2c527bcdbddd34e1952ca87462d2cef4c93da9b0bc03f02903f7089'] preconfigopts = "./autogen.sh && " diff --git a/o/ORCA/ORCA-4.0.1.2.eb b/o/ORCA/ORCA-4.0.1.2.eb index f49bfa78..e976670e 100644 --- a/o/ORCA/ORCA-4.0.1.2.eb +++ b/o/ORCA/ORCA-4.0.1.2.eb @@ -27,11 +27,7 @@ sanity_check_paths = { ['orca_%s' % x for x in ['2mkl', 'asa', 'chelpg', 'ciprep', 'eca', 'ecplib', 'euler', 'fci', 'fitpes', 'gstep', 'loc', 'mapspc', 'md', 'mergefrag', 'ndoint', 'numfreq', 'plot', -<< << << < HEAD 'pltvib', 'pop', 'rel', 'vib', 'vpot']], -== == == = - 'pltvib', 'pop', 'rel', 'vib', 'vpot']], ->>>>>> > 96f1245aa28a346d2bdb7f950751af4e8748184f 'dirs': [], } diff --git a/o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb b/o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb index 44c395b8..f9dd3409 100644 --- a/o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb +++ b/o/OpenMPI/OpenMPI-1.10.2-GCC-4.9.3-2.25.eb @@ -1,7 +1,9 @@ +# IT4Innovations 2018 + easyblock = 'ConfigureMake' name = 'OpenMPI' -version = '1.10.2' +version = '1.10.7' homepage = 'http://www.open-mpi.org/' description = """The Open MPI Project is an open source MPI-2 implementation.""" @@ -12,10 +14,10 @@ sources = [SOURCELOWER_TAR_GZ] source_urls = [ 'http://www.open-mpi.org/software/ompi/v%(version_major_minor)s/downloads'] -dependencies = [('hwloc', '1.11.2')] +dependencies = [('hwloc', '1.11.7')] builddependencies = [ - ('Java', '1.8.0_51', '', True) + ('Java', '1.8.0_121', '', True) ] configopts = '--with-threads=posix --enable-shared --enable-mpi-thread-multiple --with-verbs ' @@ -31,7 +33,7 @@ configopts += '--enable-mpi-java ' # Java support RT#4090 preconfigopts = 'export LIBS="-ldl" && ' # needed for --with-verbs -osdependencies = [('libibverbs-dev', 'libibverbs-devel')] +osdependencies = [('libibverbs-dev', 'libibverbs-devel', 'rdma-core-devel')] libs = [ "mpi_cxx", @@ -66,4 +68,8 @@ sanity_check_paths = { 'dirs': ["include/openmpi/ompi/mpi/cxx"], } +modextravars = {'OMPI_MCA_btl_openib_if_include': 'mlx4_0', + 'OMPI_MCA_oob_tcp_if_include': '10.0.0.0/8', + } + moduleclass = 'mpi' diff --git a/o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb b/o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb new file mode 100644 index 00000000..f9dd3409 --- /dev/null +++ b/o/OpenMPI/OpenMPI-1.10.7-GCC-4.9.3-2.25.eb @@ -0,0 +1,75 @@ +# IT4Innovations 2018 + +easyblock = 'ConfigureMake' + +name = 'OpenMPI' +version = '1.10.7' + +homepage = 'http://www.open-mpi.org/' +description = """The Open MPI Project is an open source MPI-2 implementation.""" + +toolchain = {'name': 'GCC', 'version': '4.9.3-2.25'} + +sources = [SOURCELOWER_TAR_GZ] +source_urls = [ + 'http://www.open-mpi.org/software/ompi/v%(version_major_minor)s/downloads'] + +dependencies = [('hwloc', '1.11.7')] + +builddependencies = [ + ('Java', '1.8.0_121', '', True) +] + +configopts = '--with-threads=posix --enable-shared --enable-mpi-thread-multiple --with-verbs ' +# suppress failure modes in relation to mpirun path +configopts += '--enable-mpirun-prefix-by-default ' +configopts += '--with-hwloc=$EBROOTHWLOC ' # hwloc support +# statically link component, don't do dynamic loading +configopts += '--disable-dlopen ' +configopts += '--with-tm=/opt/pbs/default ' # Enable PBS +configopts += '--enable-mpi-java ' # Java support RT#4090 + +# for PBS Pro 13 +preconfigopts = 'export LIBS="-ldl" && ' + +# needed for --with-verbs +osdependencies = [('libibverbs-dev', 'libibverbs-devel', 'rdma-core-devel')] + +libs = [ + "mpi_cxx", + "mpi_mpifh", + "mpi", + "ompitrace", + "open-pal", + "open-rte", + "vt", + "vt-hyb", + "vt-mpi", + "vt-mpi-unify"] +sanity_check_paths = { + 'files': [ + "bin/%s" % + binfile for binfile in [ + "ompi_info", + "opal_wrapper", + "orterun"]] + + [ + "lib/lib%s.%s" % + (libfile, + SHLIB_EXT) for libfile in libs] + + [ + "include/%s.h" % + x for x in [ + "mpi-ext", + "mpif-config", + "mpif", + "mpi", + "mpi_portable_platform"]], + 'dirs': ["include/openmpi/ompi/mpi/cxx"], +} + +modextravars = {'OMPI_MCA_btl_openib_if_include': 'mlx4_0', + 'OMPI_MCA_oob_tcp_if_include': '10.0.0.0/8', + } + +moduleclass = 'mpi' diff --git a/o/OpenMPI/OpenMPI-2.0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb b/o/OpenMPI/OpenMPI-2.0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb index 4cd5d41f..eadbba37 100644 --- a/o/OpenMPI/OpenMPI-2.0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb +++ b/o/OpenMPI/OpenMPI-2.0.1-iccifort-2017.1.132-GCC-6.3.0-2.27.eb @@ -1,3 +1,5 @@ +# IT4Innovations 2018 + easyblock = 'ConfigureMake' name = 'OpenMPI' @@ -24,7 +26,8 @@ configopts = '--with-threads=posix --enable-shared --enable-mpi-thread-multiple configopts += '--enable-mpirun-prefix-by-default ' configopts += '--with-hwloc=$EBROOTHWLOC ' # hwloc support # statically link component, don't do dynamic loading -configopts += '--disable-dlopen ' +# configopts += '--disable-dlopen ' # dont disable dlopen! +# https://github.com/open-mpi/ompi/issues/3630 configopts += '--with-tm=/opt/pbs/default ' # Enable PBS configopts += '--enable-mpi-java ' # Java support RT#4090 @@ -32,8 +35,7 @@ configopts += '--enable-mpi-java ' # Java support RT#4090 preconfigopts = 'export LIBS="-ldl" && ' # needed for --with-verbs -osdependencies = [('libibverbs-dev', 'libibverbs-devel'), ] - +osdependencies = [('libibverbs-dev', 'libibverbs-devel', 'rdma-core-devel')] libs = [ "mpi_cxx", "mpi_mpifh",