{lib}[foss/2021b] DeepLabCut v2.2.3 w/ Python 3.9.6

easybuild/easyconfigs/d/DeepLabCut/DeepLabCut-2.2.3-foss-2021b-CUDA-11.4.1.eb

@@ -0,0 +1,80 @@
+# Loosely based on PR #7680 
+# J. Sassmannshausen (Imperial College London/UK)
+
+easyblock = 'PythonBundle'
+
+name = 'DeepLabCut'
+version = '2.2.3'
+versionsuffix = '-CUDA-%(cudaver)s'
+local_version = '%(versionsuffix)s-contrib'
+
+homepage = 'http://www.mousemotorlab.org/deeplabcut'
+description = "Markerless tracking of user-defined features with deep learning"
+
+toolchain = {'name': 'foss', 'version': '2021b'}
+toolchainopts = {'pic': True}
+
+dependencies = [
+    ('CUDA', '11.4.1', '', SYSTEM),
+    ('cuDNN', '8.2.2.26', '-CUDA-%(cudaver)s', SYSTEM),
+    ('Python', '3.9.6'),
+    ('h5py', '3.6.0'),
+    ('IPython', '7.26.0'),
+    ('scikit-learn', '1.0.2'),
+    ('scikit-image', '0.19.1'),
+    ('TensorFlow', '2.7.1', versionsuffix),
+    ('PyYAML', '5.4.1'),
+    ('wxPython', '4.2.0'),
+    ('OpenCV', '4.5.5', local_version),
+    ('numba', '0.54.1'),
+    ('libyaml', '0.2.5'),
+    ('imgaug', '0.4.0', versionsuffix),
+    ('tqdm', '4.62.3'),
+    ('ruamel.yaml', '0.17.21'),
+    ('PyYAML', '5.4.1'),
+    ('statsmodels', '0.13.1'),
+    ('PyTorch', '1.11.0', versionsuffix),
+    ('MoviePy', '1.0.3'),
+    ('SciPy-bundle', '2021.10'),
+    ('HDF5', '1.12.1'),
+    ('LZO', '2.10'),
+    ('Blosc', '1.21.1'),
+]
+
+sanity_pip_check = True
+use_pip = True
+
+exts_list = [
+    ('filterpy', '1.4.5', {
+        'sources': ['%(name)s-%(version)s.zip'],
+        'checksums': ['4f2a4d39e4ea601b9ab42b2db08b5918a9538c168cff1c6895ae26646f3d73b1'],
+    }),
+    ('tensorpack', '0.11', {
+        'checksums': ['022b610e416e62e3575424cd08e60af27808a5fb6914294615391caf582cbd4f'],
+    }),
+    ('tf_slim', '1.1.0', {
+        'source_urls': ['https://github.com/google-research/tf-slim/archive'],
+        'sources': ['v%(version)s.tar.gz'],
+        'checksums': ['964cde4b7728a408dcd5c841ab6b93d95137ab4b60db28b10400f86286bfeb8b'],
+    }),
+    ('msgpack-numpy', '0.4.8', {
+        'checksums': ['c667d3180513422f9c7545be5eec5d296dcbb357e06f72ed39cc683797556e69'],
+        'sources': ['msgpack-numpy-0.4.8.tar.gz'],
+    }),
+    # requires PyTables >= 3.7.0
+    ('PyTables', '3.7.0', {
+        'source_urls': ['https://github.com/PyTables/PyTables/archive/'],
+        'sources': ['v%(version)s.tar.gz'],
+        'patches': ['%(name)s-%(version)s-fix-libs.patch'],
+        'checksums': ['41065fc11b958dde09bd5b9c069d88e40ca07ad10687dd597835fcc8199e81ea',
+                      # PyTables-3.7.0-fix-libs.patch:
+                      '022c26960b8401f3693974f57be49832b72ee1f3a0a92f8e0dd9281c7c0e2c8c'],
+        'modulename': 'tables',
+    }),
+    (name, version, {
+        'source_tmpl': '%(namelower)s-%(version)s.tar.gz',
+        'checksums': ['13c1df41c24015a302425cde4b0d3d9fa97fc0fe7e0b45efc82ae66398b29cbf'],
+    }),
+]
+
+moduleclass = 'lib'

easybuild/easyconfigs/d/DeepLabCut/PyTables-3.7.0-fix-libs.patch

@@ -0,0 +1,19 @@
+# pyTables expects that LIBS is a list of library names and will add
+# a -l by itself.
+# original patch by ward.poelmans@ugent.be, ported to PyTables 3.5.2 by Kenneth Hoste (HPC-UGent)
+# updated to 3.7.0 by J. Sassmannshausen (Imperial College London/UK)
+diff --git a/PyTables-3.7.0.orig/setup.py b/PyTables-3.7.0/setup.py
+index ab8f8e3..5804ca3 100755
+--- a/PyTables-3.7.0.orig/setup.py
++++ b/PyTables-3.7.0/setup.py
+@@ -526,6 +526,10 @@ if __name__ == "__main__":
+     # is not a good idea.
+     CFLAGS = os.environ.get("CFLAGS", "").split()
+     LIBS = os.environ.get("LIBS", "").split()
++    for idx, lib in enumerate(LIBS):
++        if lib.startswith("-l"):
++            LIBS[idx] = lib.replace("-l", "")
++
+     CONDA_PREFIX = os.environ.get("CONDA_PREFIX", "")
+     # We start using pkg-config since some distributions are putting HDF5
+     # (and possibly other libraries) in exotic locations.  See issue #442.