progress on #395 Cellformer

395_Cellformer/Cellformer-20230814-foss-2023a.eb

@@ -13,9 +13,20 @@ toolchain = {'name': 'foss', 'version': '2023a'}
 dependencies = [
     ('Python', '3.11.3'),
     ('ArchR', '1.0.2'),
-    # ('PyTorch', '2.0.0'),  # TODO
+    ('PyTorch', '2.1.2'),
     ('scikit-learn', '1.3.1'),
-    # ('PyTorch-Lightning', '2.0.4'),  # TODO
+    ('PyTorch-Lightning', '2.2.1'),
+    ('anndata', '0.10.5'),
+    ('h5py', '3.9.0'),
+    ('SciPy-bundle', '2023.07'),
+    ('Seaborn', '0.13.2'),
+    ('tensorboard', '2.15.1'),
+    ('tensorboardX', '2.6.2.2'),
+    ('torchvision', '0.16.0'),
+    ('tqdm', '4.66.1'),
+    ('scanpy', '1.9.8'),
+    ('pretty-yaml', '1.9.8'),
+    ('Arrow', '14.0.1'),
 ]
 
 use_pip = True
@@ -30,6 +41,22 @@ exts_list = [
         'source_tmpl': SOURCE_PY3_WHL,
         'checksums': ['0bdb5fbf55eb157790bf92a94994891429fd1c3ce04063408d1e90768cbd9c8f'],
     }),
+    ('mpl_scatter_density', '0.7', {
+        'source_tmpl': SOURCE_PY3_WHL,
+        'checksums': ['721b4efeafcbc0ba4a5c1ecd8f401dc2d1aa6a372445c5b49e1da34e70a95ead'],
+    }),
+    ('tensorboard_data_server', '0.7.2', {
+        'source_tmpl': SOURCE_PY3_WHL,
+        'checksums': ['7e0610d205889588983836ec05dc098e80f97b7e7bbff7e994ebb78f578d0ddb'],
+    }),
+    ('tensorboard_plugin_wit', '1.8.1', {
+        'source_tmpl': SOURCE_PY3_WHL,
+        'checksums': ['ff26bdd583d155aa951ee3b152b3d0cffae8005dc697f72b44a8e8c2a77a8cbe'],
+    }),
+    ('torchmetrics', '1.4.1', {
+        'source_tmpl': SOURCE_PY3_WHL,
+        'checksums': ['c2e7cd56dd8bdc60ae63d712f3bdce649f23bd174d9180bdd0b746e0230b865a'],
+    }),
     (name, version, {
         'source_urls': ['https://github.com/elo-nsrb/Cellformer/archive/']
         'sources': [{'download_filename': '%s.tar.gz' % local_commit, 'filename': '%(name)s-%(version)s.tar.gz'}],

395_Cellformer/pretty-yaml-24.7.0-GCCcore-12.3.0.eb

@@ -0,0 +1,31 @@
+easyblock = 'PythonPackage'
+
+name = 'pretty-yaml'
+local_mod = 'pyaml'
+version = '24.7.0'
+
+homepage = 'https://github.com/mk-fg/pretty-yaml'
+description = """PyYAML-based python module to produce pretty and readable YAML-serialized data.
+This module is for serialization only, see ruamel.yaml module for literate YAML
+parsing (keeping track of comments, spacing, line/column numbers of values, etc)."""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://pypi.python.org/packages/source/p/%s/' % local_mod]
+sources = ['%s-%%(version)s.tar.gz' % local_mod]
+checksums = ['5d0fdf9e681036fb263a783d0298fc3af580a6e2a6cf1a3314ffc48dc3d91ccb']
+
+builddependencies = [('binutils', '2.40')]
+
+dependencies = [
+    ('Python', '3.11.3'),
+    ('PyYAML', '6.0'),
+]
+
+use_pip = True
+download_dep_fail = True
+sanity_pip_check = True
+
+options = {'modulename': local_mod}
+
+moduleclass = 'lib'