{ai}[foss/2023a] Slideflow v3.0.1 w/ CUDA 12.1.1

easybuild/easyconfigs/s/Slideflow/Slideflow-3.0.1-foss-2023a-CUDA-12.1.1.eb

@@ -0,0 +1,163 @@
+easyblock = 'PythonBundle'
+
+name = 'Slideflow'
+version = '3.0.1'
+versionsuffix = '-CUDA-12.1.1'
+
+homepage = 'https://slideflow.dev/'
+description = """Slideflow is a Python package that provides a unified API for
+building and testing deep learning models for histopathology, supporting both
+Tensorflow/Keras and PyTorch."""
+
+toolchain = {'name': 'foss', 'version': '2023a'}
+
+builddependencies = [
+    ('CMake', '3.26.3'),
+    ('scikit-build', '0.17.6'),
+    ('poetry', '1.7.1'),
+]
+
+dependencies = [
+    ('aiohttp', '3.8.5'),
+    ('numba', '0.58.1'),
+    ('Python', '3.11.3'),
+    ('Python-bundle-PyPI', '2023.06'),
+    ('pyvips', '2.2.3'),
+    ('Pillow', '10.0.0'),
+    ('PyTorch', '2.1.2', '-CUDA-12.1.1'),
+    ('scikit-learn', '1.3.1'),
+    ('scikit-image', '0.22.0'),
+    ('torchvision', '0.16.0', '-CUDA-12.1.1'),
+    ('tqdm', '4.66.1'),
+    ('SWIG', '4.1.1'),
+    ('SciPy-bundle', '2023.07'),
+    ('PyOpenGL', '3.1.7'),
+    ('spaCy', '3.7.4'),
+    ('h5py', '3.9.0'),
+    ('Ninja', '1.11.1'),
+    ('OpenCV', '4.8.1', '-CUDA-12.1.1-contrib'),
+    ('rasterio', '1.3.9'),
+    ('dask', '2023.9.2'),
+    ('psutil', '5.9.8'),
+    ('tensorboard', '2.15.1'),
+    ('umap-learn', '0.5.5'),
+    ('zarr', '2.17.1'),
+    ('Arrow', '14.0.1'),
+    ('BeautifulSoup', '4.12.2'),
+    ('wrapt', '1.15.0'),
+    ('GLFW', '3.4'),
+    ('Seaborn', '0.13.2'),
+]
+
+use_pip = True
+sanity_pip_check = True
+
+exts_list = [
+    ('triangle', '20230923', {
+        'sources': [{
+            'filename': '%(name)s-v%(version)s.tar.gz',
+            'git_config': {
+                'url': 'https://github.com/drufat',
+                'repo_name': 'triangle',
+                'tag': 'v20230923', 'recursive': True
+            }
+        }],
+        'checksums': [None],
+    }),
+    (name, version, {
+        'patches': ['%(name)s-%(version)s_fix-opencv-dep.patch'],
+        'source_urls': ['https://github.com/jamesdolezal/%(namelower)s/archive/refs/tags/'],
+        'sources': ['%(version)s.tar.gz'],
+        'checksums': [
+            {'3.0.1.tar.gz': '7fd6ca92805943e3d9d0208471205049ba48e46a9d8b910528d12788a01d5c2b'},
+            {'Slideflow-3.0.1_fix-opencv-dep.patch':
+             '802438a42402a11de90fb09e1847336fa3664f0bca4d54512e15a1651171a8b9'},
+        ],
+    }),
+    ('crc32c', '2.4', {
+        'checksums': ['d985c4d9b1a1fd16c593d83f8735a8e4e156790a95338a1e0b199aac51ca1e5e'],
+    }),
+    ('ConfigSpace', '0.7.1', {
+        'modulename': 'ConfigSpace',
+        'checksums': ['57b5b8e28ed6ee14ecf6206fdca43ca698ef63bc1531f081d482b26acf4edf1a'],
+    }),
+    ('defusedxml', '0.7.1', {
+        'checksums': ['1bb3032db185915b62d7c6209c5a8792be6a32ab2fedacc84e01b52c51aa3e69'],
+    }),
+    ('more-itertools', '9.1.0', {
+        'checksums': ['cabaa341ad0389ea83c17a94566a53ae4c9d07349861ecb14dc6d0345cf9ac5d'],
+    }),
+    ('pyparsing', '3.1.0', {
+        'checksums': ['edb662d6fe322d6e990b1594b5feaeadf806803359e3d4d42f11e295e588f0ea'],
+    }),
+    ('typing_extensions', '4.9.0', {
+        'checksums': ['23478f88c37f27d76ac8aee6c905017a143b0b1b886c3c9f66bc2fd94f9f5783'],
+    }),
+    ('fpdf2', '2.7.9', {
+        'modulename': 'fpdf',
+        'checksums': ['f364c0d816a5e364eeeda9761cf5c961bae8c946f080cf87fed7f38ab773b318'],
+    }),
+    ('gdown', '5.2.0', {
+        'checksums': ['2145165062d85520a3cd98b356c9ed522c5e7984d408535409fd46f94defc787'],
+    }),
+    ('glfw', '2.7.0', {
+        'checksums': ['0e209ad38fa8c5be67ca590d7b17533d95ad1eb57d0a3f07b98131db69b79000'],
+    }),
+    ('imgui', '2.0.0', {
+        'checksums': ['2fbdb8eed3b8dbd7ea98af9e4c1c6582b0bc4da942a258de16333d8c653d67e1'],
+    }),
+    ('lifelines', '0.28.0', {
+        'checksums': ['eecf726453fd409c94fef8a521f8e593bcd09337f920fe885131f01cfe58b25e'],
+    }),
+    ('autograd', '1.6.2', {
+        'checksums': ['8731e08a0c4e389d8695a40072ada4512641c113b6cace8f4cfbe8eb7e9aedeb'],
+    }),
+    ('autograd-gamma', '0.5.0', {
+        'checksums': ['f27abb7b8bb9cffc8badcbf59f3fe44a9db39e124ecacf1992b6d952934ac9c4'],
+    }),
+    ('formulaic', '1.0.1', {
+        'checksums': ['64dd7992a7aa5bbceb1e40679d0f01fc6f0ba12b7d23d78094a88c2edc68fba1'],
+    }),
+    ('interface_meta', '1.3.0', {
+        'checksums': ['8a4493f8bdb73fb9655dcd5115bc897e207319e36c8835f39c516a2d7e9d79a1'],
+    }),
+    ('parameterized', '0.9.0', {
+        'checksums': ['7fc905272cefa4f364c1a3429cbbe9c0f98b793988efb5bf90aac80f08db09b1'],
+    }),
+    ('pyperclip', '1.8.2', {
+        'checksums': ['105254a8b04934f0bc84e9c24eb360a591aaf6535c9def5f29d92af107a9bf57'],
+    }),
+    ('cffi', '1.15.1', {
+        'checksums': ['d400bfb9a37b1351253cb402671cea7e89bdecc294e8016a707f6d1d8ac934f9'],
+    }),
+    ('saliency', '0.2.1', {
+        'checksums': ['79a3f64393a3ce89620bf46629af120c36a061019eff51b32b173378c8b18c63'],
+    }),
+    ('shapely', '2.0.4', {
+        'checksums': ['5dc736127fac70009b8d309a0eeb74f3e08979e530cf7017f2f507ef62e6cfb8'],
+    }),
+    ('smac', '1.4.0', {
+        'checksums': ['c58260af5ac2b2cd50b74f879202d5b5890c25d81e4c528abb51045ef4c679f9'],
+    }),
+    ('emcee', '3.1.6', {
+        'checksums': ['11af4daf6ab8f9ca69681e3c29054665db7bbd87fd4eb8e437d2c3a1248c637d'],
+    }),
+    ('joblib', '1.2.0', {
+        'checksums': ['e1cee4a79e4af22881164f218d4311f60074197fb707e082e803b61f6d137018'],
+    }),
+    ('pynisher', '0.6.4', {
+        'checksums': ['111d91aad471375c0509a912415ff90053ef909100facf412511383af107c124'],
+    }),
+    ('pyrfr', '0.9.0', {
+        'checksums': ['bc6e758317cf79579fe6b7ce5f01dd42f77c991bf707e33646e8c6a9112c186b'],
+    }),
+    ('regex', '2023.6.3', {
+        'checksums': ['72d1a25bf36d2050ceb35b517afe13864865268dfb45910e2e17a84be6cbfeb0'],
+    }),
+    ('protobuf', '3.20.3', {
+        'modulename': 'google.protobuf',
+        'checksums': ['2e3427429c9cffebf259491be0af70189607f365c2f41c7c3764af6f337105f2'],
+    }),
+]
+
+moduleclass = "ai"

easybuild/easyconfigs/s/Slideflow/Slideflow-3.0.1_fix-opencv-dep.patch

@@ -0,0 +1,12 @@
+Removes dependency on opencv-python-headless which causes conflicts.
+
+--- 3.0.1/foss-2023a-CUDA-12.1.1/Slideflow/slideflow-3.0.1/setup.py.orig	2024-10-02 14:50:03.699316470 +0200
++++ 3.0.1/foss-2023a-CUDA-12.1.1/Slideflow/slideflow-3.0.1/setup.py	2024-10-02 14:50:31.615652542 +0200
+@@ -128,7 +128,6 @@
+         'scikit-learn',
+         'matplotlib>=3.2',
+         'imageio',
+-        opencv_pkg,
+         'shapely',
+         'umap-learn',
+         'seaborn<0.14',