{lib}[foss/2023a] TensorFlow v2.13.0 (incl. patch for Bazel v6.3.1 to fix TensorFlow sanity check failure)

easybuild/easyconfigs/b/Bazel/Bazel-6.3.1-GCCcore-12.3.0.eb

@@ -9,7 +9,11 @@ toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
 
 source_urls = ['https://github.com/bazelbuild/%(namelower)s/releases/download/%(version)s']
 sources = ['%(namelower)s-%(version)s-dist.zip']
-checksums = ['2676319e86c5aeab142dccd42434364a33aa330a091c13562b7de87a10e68775']
+patches = ['Bazel-6.3.1_add-symlinks-in-runfiles.patch']
+checksums = [
+    {'bazel-6.3.1-dist.zip': '2676319e86c5aeab142dccd42434364a33aa330a091c13562b7de87a10e68775'},
+    {'Bazel-6.3.1_add-symlinks-in-runfiles.patch': '81db53aa87229557480b6f719c99a0f1af9c69dfec12185451e520b0128c3ae2'},
+]
 
 builddependencies = [
     ('binutils', '2.40'),

easybuild/easyconfigs/b/Bazel/Bazel-6.3.1_add-symlinks-in-runfiles.patch

@@ -0,0 +1,22 @@
+Bazel doesn't always copy all files as required leading e.g. to failures in TF sanity check: https://github.com/tensorflow/tensorflow/issues/60326
+
+From https://github.com/bazelbuild/bazel/pull/19378
+
+Author: Alexander Grund (TU Dresden)
+
+diff --git a/src/main/starlark/builtins_bzl/common/cc/experimental_cc_shared_library.bzl b/src/main/starlark/builtins_bzl/common/cc/experimental_cc_shared_library.bzl
+index b9f3b5b7ac..3af1e61c63 100644
+--- a/src/main/starlark/builtins_bzl/common/cc/experimental_cc_shared_library.bzl
++++ b/src/main/starlark/builtins_bzl/common/cc/experimental_cc_shared_library.bzl
+@@ -728,7 +728,10 @@ def _cc_shared_library_impl(ctx):
+         # precompiled_dynamic_library.dynamic_library could be None if the library to link just contains
+         # an interface library which is valid if the actual library is obtained from the system.
+         if precompiled_dynamic_library.dynamic_library != None:
+-            precompiled_only_dynamic_libraries_runfiles.append(precompiled_dynamic_library.dynamic_library)
++            if precompiled_dynamic_library.resolved_symlink_dynamic_library != None:
++                precompiled_only_dynamic_libraries_runfiles.append(precompiled_dynamic_library.resolved_symlink_dynamic_library)
++            else:
++                precompiled_only_dynamic_libraries_runfiles.append(precompiled_dynamic_library.dynamic_library)
+
+     runfiles = runfiles.merge(ctx.runfiles(files = precompiled_only_dynamic_libraries_runfiles))
+

easybuild/easyconfigs/f/flatbuffers-python/flatbuffers-python-23.5.26-GCCcore-12.3.0.eb

@@ -0,0 +1,27 @@
+easyblock = 'PythonPackage'
+
+name = 'flatbuffers-python'
+version = '23.5.26'
+
+homepage = 'https://github.com/google/flatbuffers/'
+description = """Python Flatbuffers runtime library."""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://pypi.python.org/packages/source/f/flatbuffers']
+sources = [{'download_filename': 'flatbuffers-%(version)s.tar.gz', 'filename': SOURCE_TAR_GZ}]
+checksums = ['9ea1144cac05ce5d86e2859f431c6cd5e66cd9c78c558317c7955fb8d4c78d89']
+
+dependencies = [
+    ('binutils', '2.40'),
+    ('Python', '3.11.3'),
+]
+
+download_dep_fail = True
+use_pip = True
+sanity_pip_check = True
+
+preinstallopts = 'VERSION=%(version)s '
+options = {'modulename': 'flatbuffers'}
+
+moduleclass = 'devel'

easybuild/easyconfigs/f/flatbuffers/flatbuffers-23.5.26-GCCcore-12.3.0.eb

@@ -0,0 +1,33 @@
+##
+# Author:    Robert Mijakovic <[email protected]>
+##
+easyblock = 'CMakeNinja'
+
+name = 'flatbuffers'
+version = '23.5.26'
+
+homepage = 'https://github.com/google/flatbuffers/'
+description = """FlatBuffers: Memory Efficient Serialization Library"""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+toolchainopts = {'pic': True}
+
+source_urls = ['https://github.com/google/flatbuffers/archive/v%(version)s/']
+sources = [SOURCE_TAR_GZ]
+checksums = ['1cce06b17cddd896b6d73cc047e36a254fb8df4d7ea18a46acf16c4c0cd3f3f3']
+
+builddependencies = [
+    ('binutils', '2.40'),
+    ('CMake', '3.26.3'),
+    ('Ninja', '1.11.1'),
+    ('Python', '3.11.3'),
+]
+
+configopts = '-DFLATBUFFERS_ENABLE_PCH=ON '
+
+sanity_check_paths = {
+    'files': ['include/flatbuffers/flatbuffers.h', 'bin/flatc', 'lib/libflatbuffers.a'],
+    'dirs': ['lib/cmake'],
+}
+
+moduleclass = 'devel'

easybuild/easyconfigs/h/h5py/h5py-3.9.0-foss-2023a.eb

@@ -0,0 +1,35 @@
+easyblock = 'PythonPackage'
+
+name = 'h5py'
+version = '3.9.0'
+
+homepage = 'https://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': 'foss', 'version': '2023a'}
+toolchainopts = {'usempi': True}
+
+sources = [SOURCE_TAR_GZ]
+checksums = ['e604db6521c1e367c6bd7fad239c847f53cc46646f2d2651372d05ae5e95f817']
+
+builddependencies = [('pkgconfig', '1.5.5', '-python')]
+
+dependencies = [
+    ('Python', '3.11.3'),
+    ('SciPy-bundle', '2023.07'),
+    ('mpi4py', '3.1.4'),
+    ('HDF5', '1.14.0'),
+]
+
+use_pip = True
+sanity_pip_check = True
+download_dep_fail = True
+
+# h5py's setup.py will disable setup_requires if H5PY_SETUP_REQUIRES is set to 0
+# without this environment variable, pip will fetch the minimum numpy version h5py supports during install,
+# even though SciPy-bundle provides a newer version that satisfies h5py's install_requires dependency.
+preinstallopts = 'HDF5_MPI=ON HDF5_DIR="$EBROOTHDF5" H5PY_SETUP_REQUIRES=0 '
+
+moduleclass = 'data'

easybuild/easyconfigs/j/JsonCpp/JsonCpp-1.9.5-GCCcore-12.3.0.eb

@@ -0,0 +1,29 @@
+easyblock = "CMakeNinja"
+
+name = 'JsonCpp'
+version = '1.9.5'
+
+homepage = 'https://open-source-parsers.github.io/jsoncpp-docs/doxygen/index.html'
+description = """ JsonCpp is a C++ library that allows manipulating JSON values,
+ including serialization and deserialization to and from strings. It can also preserve existing comment in
+ unserialization/serialization steps, making it a convenient format to store user input files. """
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://github.com/open-source-parsers/jsoncpp/archive']
+sources = ['%(version)s.tar.gz']
+checksums = ['f409856e5920c18d0c2fb85276e24ee607d2a09b5e7d5f0a371368903c275da2']
+
+builddependencies = [
+    ('CMake', '3.26.3'),
+    ('Ninja', '1.11.1'),
+    ('pkgconf', '1.9.5'),
+    ('binutils', '2.40'),
+]
+
+sanity_check_paths = {
+    'files': ['include/json/json.h', 'lib/libjsoncpp.%s' % SHLIB_EXT],
+    'dirs': [],
+}
+
+moduleclass = 'lib'

easybuild/easyconfigs/m/mpi4py/mpi4py-3.1.4-gompi-2023a.eb

@@ -0,0 +1,25 @@
+easyblock = 'PythonBundle'
+
+name = 'mpi4py'
+version = '3.1.4'
+
+homepage = 'https://github.com/mpi4py/mpi4py'
+description = """MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for
+ the Python programming language, allowing any Python program to exploit multiple processors."""
+
+toolchain = {'name': 'gompi', 'version': '2023a'}
+
+dependencies = [
+    ('Python', '3.11.3'),
+]
+
+use_pip = True
+sanity_pip_check = True
+
+exts_list = [
+    (name, version, {
+        'checksums': ['17858f2ebc623220d0120d1fa8d428d033dde749c4bc35b33d81a66ad7f93480'],
+    }),
+]
+
+moduleclass = 'lib'

easybuild/easyconfigs/n/nsync/nsync-1.26.0-GCCcore-12.3.0.eb

@@ -0,0 +1,26 @@
+easyblock = 'CMakeNinja'
+
+name = 'nsync'
+version = '1.26.0'
+
+homepage = 'https://github.com/google/nsync'
+description = """nsync is a C library that exports various synchronization primitives, such as mutexes"""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://github.com/google/nsync/archive/v%(version)s/']
+sources = [SOURCE_TAR_GZ]
+checksums = ['80fc1e605bb3cf5f272811ece39c4fb6761ffcb9b30563301845cc9ff381eb8b']
+
+builddependencies = [
+    ('binutils', '2.40'),
+    ('CMake', '3.26.3'),
+    ('Ninja', '1.11.1'),
+]
+
+sanity_check_paths = {
+    'files': ['include/nsync.h', 'lib/libnsync.a', 'lib/libnsync_cpp.a'],
+    'dirs': [],
+}
+
+moduleclass = 'devel'

easybuild/easyconfigs/p/pkgconfig/pkgconfig-1.5.5-GCCcore-12.3.0-python.eb

@@ -0,0 +1,31 @@
+easyblock = 'PythonPackage'
+
+name = 'pkgconfig'
+version = '1.5.5'
+# The -python versionsuffix is used to avoid confusion between
+# pkg-config (the tool) and pkgconfig (the Python wrappers)
+versionsuffix = '-python'
+
+homepage = 'https://github.com/matze/pkgconfig'
+description = """pkgconfig is a Python module to interface with the pkg-config command line tool"""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+sources = [SOURCE_TAR_GZ]
+checksums = ['deb4163ef11f75b520d822d9505c1f462761b4309b1bb713d08689759ea8b899']
+
+builddependencies = [
+    ('binutils', '2.40'),
+    ('poetry', '1.5.1'),
+]
+
+dependencies = [
+    ('Python', '3.11.3'),
+    ('pkgconf', '1.9.5'),
+]
+
+use_pip = True
+download_dep_fail = True
+sanity_pip_check = True
+
+moduleclass = 'devel'

easybuild/easyconfigs/p/protobuf-python/protobuf-python-4.24.0-GCCcore-12.3.0.eb

@@ -0,0 +1,35 @@
+easyblock = 'PythonPackage'
+
+name = 'protobuf-python'
+version = '4.24.0'
+
+homepage = 'https://github.com/google/protobuf/'
+description = """Python Protocol Buffers runtime library."""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://pypi.python.org/packages/source/p/protobuf']
+sources = ['protobuf-%(version)s.tar.gz']
+checksums = ['5d0ceb9de6e08311832169e601d1fc71bd8e8c779f3ee38a97a78554945ecb85']
+
+builddependencies = [('binutils', '2.40')]
+
+dependencies = [
+    ('Python', '3.11.3'),
+    ('protobuf', '24.0')
+]
+
+download_dep_fail = True
+use_pip = True
+sanity_pip_check = True
+
+# Make sure protobuf is installed as a regular folder or it will not be found if
+# other google packages are installed in other site-packages folders
+sanity_check_paths = {
+    'files': [],
+    'dirs': ['lib/python%(pyshortver)s/site-packages/google/protobuf'],
+}
+
+options = {'modulename': 'google.protobuf'}
+
+moduleclass = 'devel'