Merge pull request easybuilders#20830 from boegel/20240614201041_new_…

…pr_SciPy-bundle202405

{lang}[gfbf/2024.05] SciPy-bundle v2024.05, meson-python v0.16.0, hypothesis v6.103.1

easybuild/easyconfigs/h/hypothesis/hypothesis-6.103.1-GCCcore-13.3.0.eb

@@ -0,0 +1,29 @@
+easyblock = 'PythonPackage'
+
+name = 'hypothesis'
+version = '6.103.1'
+
+homepage = "https://github.com/HypothesisWorks/hypothesis"
+description = """Hypothesis is an advanced testing library for Python. It lets you write tests which are parametrized
+ by a source of examples, and then generates simple and comprehensible examples that make your tests fail. This lets
+ you find more bugs in your code with less work."""
+
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
+
+sources = [SOURCE_TAR_GZ]
+checksums = ['d299d5c21d6408eab3be670c94c974f3acf0b511c61fe81804b09091e393ee1f']
+
+builddependencies = [
+    ('binutils', '2.42'),
+]
+
+dependencies = [
+    ('Python', '3.12.3'),
+    ('Python-bundle-PyPI', '2024.06'),  # required for attrs, sortedcontainers
+]
+
+use_pip = True
+download_dep_fail = True
+sanity_pip_check = True
+
+moduleclass = 'tools'

easybuild/easyconfigs/m/meson-python/meson-python-0.16.0-GCCcore-13.3.0.eb

@@ -0,0 +1,37 @@
+easyblock = 'PythonBundle'
+
+name = 'meson-python'
+version = '0.16.0'
+
+homepage = 'https://github.com/mesonbuild/meson-python'
+description = "Python build backend (PEP 517) for Meson projects"
+
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
+
+builddependencies = [
+    ('binutils', '2.42'),
+]
+
+dependencies = [
+    ('Python', '3.12.3'),
+    ('Python-bundle-PyPI', '2024.06'),  # provides 'packaging'
+    ('Meson', '1.4.0'),
+]
+
+use_pip = True
+
+exts_list = [
+    ('pyproject-metadata', '0.8.0', {
+        'sources': ['pyproject_metadata-%(version)s.tar.gz'],
+        'checksums': ['376d5a00764ac29440a54579f88e66b7d9cb7e629d35c35a1c7248bfebc9b455'],
+    }),
+    (name, version, {
+        'modulename': 'mesonpy',
+        'sources': ['meson_python-%(version)s.tar.gz'],
+        'checksums': ['9068c17e36c89d6c7ff709fffb2a8a9925e8cd0b02629728e5ceaf2ec505cb5f'],
+    }),
+]
+
+sanity_pip_check = True
+
+moduleclass = 'tools'

easybuild/easyconfigs/s/SciPy-bundle/SciPy-bundle-2024.05-gfbf-2024.05.eb

@@ -0,0 +1,97 @@
+easyblock = 'PythonBundle'
+
+name = 'SciPy-bundle'
+version = '2024.05'
+
+homepage = 'https://python.org/'
+description = "Bundle of Python packages for scientific software"
+
+toolchain = {'name': 'gfbf', 'version': '2024.05'}
+toolchainopts = {'pic': True, 'lowopt': True}
+
+builddependencies = [
+    ('hypothesis', '6.103.1'),
+    ('UnZip', '6.0'),
+    # scipy >= 1.9.0 uses Meson/Ninja
+    ('Meson', '1.4.0'),
+    ('meson-python', '0.16.0'),
+    ('Ninja', '1.12.1'),
+    ('pkgconf', '2.2.0'),   # required by scipy
+]
+
+dependencies = [
+    ('Python', '3.12.3'),
+    ('Python-bundle-PyPI', '2024.06'),
+    ('pybind11', '2.12.0'),  # required by scipy
+]
+
+use_pip = True
+
+# order is important!
+exts_list = [
+    ('numpy', '1.26.4', {
+        'patches': ['numpy-1.22.3_disable-broken-override-test.patch'],
+        'checksums': [
+            {'numpy-1.26.4.tar.gz': '2a02aba9ed12e4ac4eb3ea9421c420301a0c6460d9830d74a9df87efa4912010'},
+            {'numpy-1.22.3_disable-broken-override-test.patch':
+             '9c589bb073b28b25ff45eb3c63c57966aa508dd8b318d0b885b6295271e4983c'},
+        ],
+    }),
+    ('ply', '3.11', {
+        'checksums': ['00c7c1aaa88358b9c765b6d3000c6eec0ba42abca5351b095321aef446081da3'],
+    }),
+    ('gast', '0.5.4', {
+        'checksums': ['9c270fe5f4b130969b54174de7db4e764b09b4f7f67ccfc32480e29f78348d97'],
+    }),
+    ('beniget', '0.4.1', {
+        'checksums': ['75554b3b8ad0553ce2f607627dad3d95c60c441189875b98e097528f8e23ac0c'],
+    }),
+    ('pythran', '0.16.1', {
+        'checksums': ['861748c0f9c7d422b32724b114b3817d818ed4eab86c09781aa0a3f7ceabb7f9'],
+    }),
+    ('versioneer', '0.29', {
+        'checksums': ['5ab283b9857211d61b53318b7c792cf68e798e765ee17c27ade9f6c924235731'],
+    }),
+    ('scipy', '1.13.1', {
+        'enable_slow_tests': True,
+        'ignore_test_result': False,
+        'patches': [
+            'scipy-1.11.1_disable-tests.patch',
+            'scipy-1.11.1_xfail-aarch64_test_maxiter_worsening.patch',
+        ],
+        'checksums': [
+            {'scipy-1.13.1.tar.gz': '095a87a0312b08dfd6a6155cbbd310a8c51800fc931b8c0b84003014b874ed3c'},
+            {'scipy-1.11.1_disable-tests.patch': '906bfb03397d94882ccdc1b93bc2c8e854e0e060c2d107c83042992394e6a4af'},
+            {'scipy-1.11.1_xfail-aarch64_test_maxiter_worsening.patch':
+             '918c8e6fa8215d459126f267764c961bde729ea4a116c7f6287cddfdc58ffcea'},
+        ],
+    }),
+    ('numexpr', '2.10.0', {
+        'patches': ['numexpr-2.10.0_fix-numpy-1.x.patch'],
+        'checksums': [
+            {'numexpr-2.10.0.tar.gz': 'c89e930752639df040539160326d8f99a84159bbea41943ab8e960591edaaef0'},
+            {'numexpr-2.10.0_fix-numpy-1.x.patch': '8d70b2e95579e6f0adc07bc615144f7657b3b607f9210ec328b6622458ca726d'},
+        ],
+    }),
+    ('Bottleneck', '1.3.8', {
+        'checksums': ['6780d896969ba7f53c8995ba90c87c548beb3db435dc90c60b9a10ed1ab4d868'],
+    }),
+    ('tzdata', '2024.1', {
+        'checksums': ['2674120f8d891909751c38abcdfd386ac0a5a1127954fbc332af6b5ceae07efd'],
+    }),
+    ('pandas', '2.2.2', {
+        'preinstallopts': "export PANDAS_CI=0 && ",
+        'checksums': ['9e79019aba43cb4fda9e4d983f8e88ca0373adbb697ae9c6c43093218de28b54'],
+    }),
+    ('mpmath', '1.3.0', {
+        'checksums': ['7a28eb2a9774d00c7bc92411c19a89209d5da7c4c9a9e227be8330a23a25b91f'],
+    }),
+    ('deap', '1.4.1', {
+        'modulename': 'deap.base',
+        'checksums': ['cc01de9892dfa7d1bc9803dab28892fead177f0182c81db47360a240ead778ff'],
+    }),
+]
+
+sanity_pip_check = True
+
+moduleclass = 'lang'

easybuild/easyconfigs/s/SciPy-bundle/numexpr-2.10.0_fix-numpy-1.x.patch

@@ -0,0 +1,18 @@
+fix for: error: PyDataType_SET_ELSIZE was not declared in this scope
+see https://github.com/pydata/numexpr/pull/485
+
+--- numexpr-2.10.0/numexpr/interpreter.cpp.orig	2024-06-14 21:47:27.999098607 +0200
++++ numexpr-2.10.0/numexpr/interpreter.cpp	2024-06-14 21:49:53.403776961 +0200
+@@ -47,6 +47,12 @@
+ #define AVAILABLE(Haystack, Haystack_Len, J, Needle_Len)   \
+   ((Haystack_Len) >= (J) + (Needle_Len))
+
++// To allow building with NumPy<2 locally define the new NumPy macros:
++#if NPY_ABI_VERSION < 0x02000000
++  #define PyDataType_ELSIZE(descr) ((descr)->elsize)
++  #define PyDataType_SET_ELSIZE(descr, size) (descr)->elsize = size
++#endif
++
+ #include "str-two-way.hpp"
+
+ #ifdef DEBUG