Merge branch 'master' into sage_tensorflow_build

Custom_EasyBlocks/2020a/gem5.py

+############################################
+# Copyright 2020 Forschungszentrum Juelich #
+############################################
+"""
+EasyBlock for building gem5
+
+@author: Stepan Nassyr (Forschungszentrum Juelich - Juelich Supercomputing Center (JSC))
+"""
+from easybuild.framework.easyblock import EasyBlock
+from easybuild.framework.easyconfig import MANDATORY
+from easybuild.tools.run import run_cmd
+
+
+class gem5(EasyBlock):
+
+    @staticmethod
+    def extra_options():
+        extra_vars = {
+            'gem5_isa': ['X86', "Target Instruction Set Architecture (ISA)", MANDATORY],
+        }
+        return EasyBlock.extra_options(extra_vars)
+
+    def configure_step(self):
+        pass
+
+    def build_step(self, verbose=False):
+        par = ''
+        if self.cfg['parallel']:
+            par = "-j %s" % self.cfg['parallel']
+
+        cmd = "%(prebuildopts)s scons build/%(gem5_isa)s/gem5.opt %(par)s %(buildopts)s" % {
+            'buildopts': self.cfg['buildopts'],
+            'gem5_isa': self.cfg['gem5_isa'],
+            'prebuildopts': self.cfg['prebuildopts'],
+            'par': par,
+        }
+        (out, _) = run_cmd(cmd, log_all=True, log_output=verbose)
+
+        return out
+
+    def test_step(self):
+        pass
+
+    def install_step(self):
+        cmd = "mkdir -p %(installdir)s/bin; cp build/%(gem5_isa)s/gem5.opt %(installdir)s/bin/" % {
+            'installdir': self.installdir,
+            'gem5_isa': self.cfg['gem5_isa'],
+        }
+        (out, _) = run_cmd(cmd, log_all=True)
+
+        return out

Golden_Repo/2020a-unconfirmed/c/CubeGUI/CubeGUI-4.4.4-armlinux-20.0.eb

+##
+# This is an easyconfig file for EasyBuild, see https://github.com/easybuilders/easybuild
+#
+# Copyright:: Copyright 2019 Juelich Supercomputing Centre, Germany
+# Authors::   Markus Geimer <m.geimer@fz-juelich.de>
+# License::   3-clause BSD
+#
+# This work is based on experiences from the UNITE project
+# http://apps.fz-juelich.de/unite/
+##
+
+easyblock = 'EB_Score_minus_P'
+
+name = 'CubeGUI'
+version = '4.4.4'
+
+homepage = 'https://www.scalasca.org/software/cube-4.x/download.html'
+description = """
+ Cube, which is used as performance report explorer for Scalasca and Score-P,
+ is a generic tool for displaying a multi-dimensional performance space
+ consisting of the dimensions (i) performance metric, (ii) call path, and
+ (iii) system resource. Each dimension can be represented as a tree, where
+ non-leaf nodes of the tree can be collapsed or expanded to achieve the
+ desired level of granularity.
+
+ This module provides the Cube graphical report explorer.
+"""
+
+toolchain = {'name': 'armlinux', 'version': '20.0'}
+
+source_urls = ['https://apps.fz-juelich.de/scalasca/releases/cube/%(version_major_minor)s/dist']
+sources = [SOURCELOWER_TAR_GZ]
+checksums = [
+    '9b7b96d5a64b558a9017cc3599bba93a42095534e018e3de9b1f80ab6d04cc34',  # cubegui-4.4.4.tar.gz
+]
+
+builddependencies = [
+    # use same binutils version that was used when building GCCcore
+    ('binutils', '2.34'),
+    ('CubeLib', '4.4.4'),
+]
+
+dependencies = [
+    ('Qt5', '5.14.2'),
+]
+
+sanity_check_paths = {
+    'files': ['bin/cube', 'bin/cubegui-config',
+              'lib/libcube4gui.a', 'lib/libcube4gui.%s' % SHLIB_EXT],
+    'dirs': ['include/cubegui', 'lib/cube-plugins'],
+}
+
+moduleclass = 'perf'

Golden_Repo/2020a-unconfirmed/h/h5py/h5py-2.10.0-GCC-8.4.0-serial-Python-3.8.2.eb

+# This file is part of JSC's public easybuild repository (https://github.com/easybuilders/jsc)
+easyblock = "PythonPackage"
+
+name = 'h5py'
+version = '2.10.0'
+pysuffix = '-Python-%(pyver)s'
+versionsuffix = '-serial%s' % pysuffix
+
+homepage = 'http://www.h5py.org/'
+description = """HDF5 for Python (h5py) is a general-purpose Python interface to the Hierarchical Data Format library,
+ version 5. HDF5 is a versatile, mature scientific software library designed for the fast, flexible storage of enormous
+ amounts of data.
+"""
+
+
+toolchain = {'name': 'GCC', 'version': '8.4.0'}
+
+source_urls = [PYPI_SOURCE]
+sources = [SOURCE_TAR_GZ]
+
+req_py_majver = 3
+req_py_minver = 0
+
+builddependencies = [
+    ('pkgconfig', '1.5.1', pysuffix),
+    ('binutils', '2.34'),
+]
+
+dependencies = [
+    ('Python', '3.8.2'),
+    ('OpenMPI', '4.0.3', '', ('GCC', '8.4.0')), # No SciPy-Stack without MPI
+    ('SciPy-Stack', '2020a.8', pysuffix, ('goolf', '2020a.8')), # numpy required
+    ('HDF5', '1.12.0', '-serial'),
+]
+
+sanity_check_paths = {
+    'files': [],
+    'dirs': ['lib/python%(pyshortver)s/site-packages/'],
+}
+
+moduleclass = 'data'

Golden_Repo/2020a/h/h5py/h5py-2.10.0-GCC-9.2.0-serial-Python-3.8.2.eb → Golden_Repo/2020a-unconfirmed/h/h5py/h5py-2.10.0-GCC-9.3.0-serial-Python-3.8.2.eb

@@ -13,7 +13,7 @@ description = """HDF5 for Python (h5py) is a general-purpose Python interface to
 """
 
 
-toolchain = {'name': 'GCC', 'version': '9.2.0'}
+toolchain = {'name': 'GCC', 'version': '9.3.0'}
 
 source_urls = [PYPI_SOURCE]
 sources = [SOURCE_TAR_GZ]
@@ -28,7 +28,7 @@ builddependencies = [
 
 dependencies = [
     ('Python', '3.8.2'),
-    ('OpenMPI', '4.0.3', '', ('GCC', '9.2.0')), # No SciPy-Stack without MPI
+    ('OpenMPI', '4.0.3', '', ('GCC', '9.3.0')), # No SciPy-Stack without MPI
     ('SciPy-Stack', '2020a', pysuffix, ('goolf', '2020a')), # numpy required
     ('HDF5', '1.12.0', '-serial'),
 ]

Golden_Repo/2020a/h/h5py/h5py-2.10.0-goolf-2020a.8-Python-3.8.2.eb → Golden_Repo/2020a-unconfirmed/h/h5py/h5py-2.10.0-goolf-2020a.8-Python-3.8.2.eb

@@ -30,7 +30,7 @@ builddependencies = [
 
 dependencies = [
     ('Python', '3.8.2'),
-    ('SciPy-Stack', '2020a.7', versionsuffix, ('goolf', '2020a.7')), # numpy required
+    ('SciPy-Stack', '2020a.8', versionsuffix, ('goolf', '2020a.8')), # numpy required
     ('mpi4py', '3.0.3', versionsuffix),  # required for MPI support
     ('HDF5', '1.12.0'),
 ]

Golden_Repo/2020a/q/Qt5/Qt5-5.14.1-armlinux-20.0.eb → Golden_Repo/2020a-unconfirmed/q/Qt5/Qt5-5.14.2-armlinux-20.0.eb

 easyblock = 'EB_Qt'
 
 name = 'Qt5'
-version = '5.14.1'
+version = '5.14.2'
 
 homepage = 'https://qt.io/'
 description = "Qt is a comprehensive cross-platform C++ application framework."
@@ -18,11 +18,13 @@ sources = ['qt-everywhere-src-%(version)s.tar.xz']
 patches = [
     'Qt5-%(version)s_fix-avx2.patch',
     'Qt5-%(version)s_fix-qmake-libdir.patch',
+    'Qt5-%(version)s-aarch64-user_fpsimd_struct.patch',
+    'Qt5-%(version)s-armlinux-invalidateBackingStore.patch',
 ]
 checksums = [
-    '6f17f488f512b39c2feb57d83a5e0a13dcef32999bea2e2a8f832f54a29badb8',  # qt-everywhere-src-5.14.1.tar.xz
-    '6f46005f056bf9e6ff3e5d012a874d18ee03b33e685941f2979c970be91a9dbc',  # Qt5-5.14.1_fix-avx2.patch
-    '511ca9c0599ceb1989f73d8ceea9199c041512d3a26ee8c5fd870ead2c10cb63',  # Qt5-5.14.1_fix-qmake-libdir.patch
+    'c6fcd53c744df89e7d3223c02838a33309bd1c291fcb6f9341505fe99f7f19fa',  # qt-everywhere-src-5.14.2.tar.xz
+    '6f46005f056bf9e6ff3e5d012a874d18ee03b33e685941f2979c970be91a9dbc',  # Qt5-5.14.2_fix-avx2.patch
+    '511ca9c0599ceb1989f73d8ceea9199c041512d3a26ee8c5fd870ead2c10cb63',  # Qt5-5.14.2_fix-qmake-libdir.patch
 ]
 
 osdependencies = [('libevent-devel')]
@@ -41,12 +43,23 @@ builddependencies = [
 
 dependencies = [
     ('double-conversion', '3.1.5'),
+    ('freetype', '2.10.1'),
+    ('fontconfig', '2.13.92'),
     ('GLib', '2.62.0'),
+    ('GTK+', '3.24.14'),
+    ('HarfBuzz', '2.6.4'),
     ('PCRE2', '10.34'),
     ('libpng', '1.6.37'),
+    ('SQLite', '3.31.1'),
     # deps for QtWebEngine
-    ('X11', '20190717'),
+    ('X11', '20200326'),
     ('DBus', '1.13.12'),
+    ('ICU', '66.1'),
+    ('libxml2', '2.9.9','-Python-3.8.2'),
+    ('libxslt', '1.1.33'),
+    ('opus', '1.3.1'),
+    ('libwebp', '1.1.0'),
+    ('FFmpeg', '4.2.2'),
     ('libGLU', '9.0.1'),
     ('libvpx', '1.8.2'),
     ('libjpeg-turbo', '2.0.4'),
@@ -58,7 +71,8 @@ dependencies = [
 # qtgamepad needs recent kernel/libevdev (fails on RHEL 6.x)
 # configopts = '-skip qtgamepad'
 
-configopts = " -nomake examples -nomake tests"
+configopts = " -nomake examples -nomake tests -system-ffmpeg -system-doubleconversion"
+platform = "linux-g++"
 
 # make sure QtWebEngine component is being built & installed
 check_qtwebengine = True

Golden_Repo/2020a-unconfirmed/q/Qt5/Qt5-5.14.2-armlinux-invalidateBackingStore.patch

+diff -urN qt-everywhere-src-5.14.2-unpatched/qtbase/src/widgets/kernel/qwidgetrepaintmanager.cpp qt-everywhere-src-5.14.2/qtbase/src/widgets/kernel/qwidgetrepaintmanager.cpp
+--- qt-everywhere-src-5.14.2-unpatched/qtbase/src/widgets/kernel/qwidgetrepaintmanager.cpp	2020-04-20 21:45:16.920719171 +0200
++++ qt-everywhere-src-5.14.2/qtbase/src/widgets/kernel/qwidgetrepaintmanager.cpp	2020-04-20 21:46:45.371155494 +0200
+@@ -187,6 +187,7 @@
+             QWidgetRepaintManager::UpdateLater, QWidgetRepaintManager::BufferInvalid);
+     }
+ }
++template Q_AUTOTEST_EXPORT void QWidgetPrivate::invalidateBackingStore<QRegion>(const QRegion &r);
+ // Needed by tst_QWidget
+ template Q_AUTOTEST_EXPORT void QWidgetPrivate::invalidateBackingStore<QRect>(const QRect &r);
+ 

Golden_Repo/2020a-unconfirmed/s/Scalasca/Scalasca-2.5-alplompi-20.0.eb

+# This file is part of JSC's public easybuild repository (https://github.com/easybuilders/jsc)
+##
+# This is an easyconfig file for EasyBuild, see https://github.com/easybuilders/easybuild
+# Copyright:: Copyright 2013-2020 Juelich Supercomputing Centre, Germany
+# Authors::   Bernd Mohr <b.mohr@fz-juelich.de>
+#             Markus Geimer <m.geimer@fz-juelich.de>
+# License::   3-clause BSD
+#
+# This work is based on experiences from the UNITE project
+# http://apps.fz-juelich.de/unite/
+##
+
+easyblock = 'EB_Score_minus_P'
+
+name = 'Scalasca'
+version = '2.5'
+
+homepage = 'http://www.scalasca.org/'
+description = """
+ Scalasca is a software tool that supports the performance optimization of
+ parallel programs by measuring and analyzing their runtime behavior. The
+ analysis identifies potential performance bottlenecks -- in particular
+ those concerning communication and synchronization -- and offers guidance
+ in exploring their causes.
+"""
+
+
+toolchain = {'name': 'alplompi', 'version': '20.0'}
+
+source_urls = ['http://apps.fz-juelich.de/scalasca/releases/scalasca/%(version_major_minor)s/dist']
+sources = [SOURCELOWER_TAR_GZ]
+
+builddependencies = [
+    ('CubeWriter', '4.4.3'),
+]
+
+dependencies = [
+    ('CubeGUI', '4.4.4'),
+    ('CubeLib', '4.4.4'),
+    ('OTF2', '2.2'),
+    ('Score-P', '6.0'),
+]
+
+sanity_check_paths = {
+    'files': ['bin/scalasca', ('lib/libpearl.replay.a', 'lib64/libpearl.replay.a')],
+    'dirs': [],
+}
+
+# Ensure that local metric documentation is found by CubeGUI
+modextrapaths = {'CUBE_DOCPATH': 'share/doc/scalasca/patterns'}
+
+moduleclass = 'perf'

Golden_Repo/2020a-unconfirmed/s/Score-P/Score-P-6.0-alompi-20.0.eb

+##
+# This is an easyconfig file for EasyBuild, see https://github.com/easybuilders/easybuild
+# Copyright:: Copyright 2013-2019 Juelich Supercomputing Centre, Germany
+# Authors::   Bernd Mohr <b.mohr@fz-juelich.de>
+#             Markus Geimer <m.geimer@fz-juelich.de>
+# License::   3-clause BSD
+#
+# This work is based on experiences from the UNITE project
+# http://apps.fz-juelich.de/unite/
+##
+
+name = 'Score-P'
+version = '6.0'
+
+homepage = 'https://www.score-p.org'
+description = """
+ The Score-P measurement infrastructure is a highly scalable and easy-to-use
+ tool suite for profiling, event tracing, and online analysis of HPC
+ applications.
+"""
+
+toolchain = {'name': 'alompi', 'version': '20.0'}
+
+source_urls = ['https://www.vi-hps.org/cms/upload/packages/scorep/']
+sources = ['scorep-%(version)s.tar.gz']
+patches = ['Score-P-6.0-add-armlinux.patch']
+checksums = [
+    '5dc1023eb766ba5407f0b5e0845ec786e0021f1da757da737db1fb71fc4236b8',  # scorep-6.0.tar.gz
+]
+
+builddependencies = [
+    ('CubeLib', '4.4.4'),
+    ('CubeWriter', '4.4.3'),
+    # Unwinding/sampling support (optional):
+    ('libunwind', '1.3.2'),
+]
+
+dependencies = [
+    # binutils is implicitly available via GCC toolchain
+    # ('binutils', '2.31.1'),
+    ('OPARI2', '2.0.5'),
+    ('OTF2', '2.2'),
+    # Hardware counter support (optional):
+    ('PAPI', '6.0.0.1'),
+    # PDT source-to-source instrumentation support (optional):
+    ('PDT', '3.25.1'),
+]
+
+configopts = '--enable-shared'
+
+sanity_check_paths = {
+    'files': ['bin/scorep', 'include/scorep/SCOREP_User.h',
+              'lib/libscorep_adapter_mpi_event.a',
+              'lib/libscorep_adapter_mpi_event.%s' % SHLIB_EXT],
+    'dirs': [],
+}
+
+# Ensure that local metric documentation is found by CubeGUI
+modextrapaths = {'CUBE_DOCPATH': 'share/doc/scorep/profile'}
+
+moduleclass = 'perf'

Golden_Repo/2020a/a/APR-util/APR-util-1.6.1-Clang-10.0.0.eb

+# This file is part of JSC's public easybuild repository (https://github.com/easybuilders/jsc)
+easyblock = 'ConfigureMake'
+
+name = 'APR-util'
+version = '1.6.1'
+
+homepage = 'http://apr.apache.org/'
+description = """
+Apache Portable Runtime (APR) util libraries.
+"""
+
+
+toolchain = {'name': 'Clang', 'version': '10.0.0'}
+
+source_urls = ['http://archive.apache.org/dist/apr/']
+sources = [SOURCELOWER_TAR_GZ]
+
+builddependencies = [
+    ('binutils', '2.34'),
+]
+
+dependencies = [
+    ('APR', '1.7.0'),
+    ('SQLite', '3.31.1'),
+    ('expat', '2.2.9'),
+]
+
+configopts = "--with-apr=$EBROOTAPR/bin/apr-1-config --with-sqlite3=$EBROOTSQLITE --with-expat=$EBROOTEXPAT "
+
+sanity_check_paths = {
+    'files': ["bin/apu-1-config", "lib/libaprutil-1.%s" % SHLIB_EXT, "lib/libaprutil-1.a"],
+    'dirs': ["include/apr-1"],
+}
+
+parallel = 1
+
+moduleclass = 'tools'

Golden_Repo/2020a/a/APR-util/APR-util-1.6.1-GCCcore-10.1.0.eb

+# This file is part of JSC's public easybuild repository (https://github.com/easybuilders/jsc)
+easyblock = 'ConfigureMake'
+
+name = 'APR-util'
+version = '1.6.1'
+
+homepage = 'http://apr.apache.org/'
+description = """
+Apache Portable Runtime (APR) util libraries.
+"""
+
+
+toolchain = {'name': 'GCCcore', 'version': '10.1.0'}
+
+source_urls = ['http://archive.apache.org/dist/apr/']
+sources = [SOURCELOWER_TAR_GZ]
+
+builddependencies = [
+    ('binutils', '2.34'),
+]
+
+dependencies = [
+    ('APR', '1.7.0'),
+    ('SQLite', '3.31.1'),
+    ('expat', '2.2.9'),
+]
+
+configopts = "--with-apr=$EBROOTAPR/bin/apr-1-config --with-sqlite3=$EBROOTSQLITE --with-expat=$EBROOTEXPAT "
+
+sanity_check_paths = {
+    'files': ["bin/apu-1-config", "lib/libaprutil-1.%s" % SHLIB_EXT, "lib/libaprutil-1.a"],
+    'dirs': ["include/apr-1"],
+}
+
+parallel = 1
+
+moduleclass = 'tools'