clean up easyconfigs that explicitly set use_pip, `sanity_pip_check…

…`, and `download_dep_fail`
easybuilders · Dec 18, 2024 · d07a623 · d07a623
1 parent de307c0
commit d07a623
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diff --git a/easybuild/easyconfigs/a/ASE/ASE-3.23.0-gfbf-2023b.eb b/easybuild/easyconfigs/a/ASE/ASE-3.23.0-gfbf-2023b.eb
@@ -22,9 +22,6 @@ dependencies = [
     ('spglib-python', '2.5.0'),  # optional
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('pytest-mock', '3.14.0', {
         'checksums': ['2719255a1efeceadbc056d6bf3df3d1c5015530fb40cf347c0f9afac88410bd0'],

diff --git a/easybuild/easyconfigs/a/ASE/ASE-3.23.0-gfbf-2024a.eb b/easybuild/easyconfigs/a/ASE/ASE-3.23.0-gfbf-2024a.eb
@@ -22,9 +22,6 @@ dependencies = [
     ('spglib-python', '2.5.0'),  # optional
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('pytest-mock', '3.14.0', {
         'checksums': ['2719255a1efeceadbc056d6bf3df3d1c5015530fb40cf347c0f9afac88410bd0'],

diff --git a/easybuild/easyconfigs/a/AlphaPulldown/AlphaPulldown-2.0.0-foss-2023a-CUDA-12.1.1.eb b/easybuild/easyconfigs/a/AlphaPulldown/AlphaPulldown-2.0.0-foss-2023a-CUDA-12.1.1.eb
@@ -40,7 +40,6 @@ dependencies = [
     ('JupyterLab', '4.0.5'),
 ]
 local_commit = 'cc4b0af60518c078305bbe4c584691d1ed9ade31'
-use_pip = True
 
 local_tests = [
     'custom_db',
@@ -105,7 +104,6 @@ exts_list = [
 ]
 
 fix_python_shebang_for = ['bin/*.py']
-sanity_pip_check = True
 
 sanity_check_paths = {
     'files': ['bin/run_multimer_jobs.py', 'bin/rename_colab_search_a3m.py',

diff --git a/easybuild/easyconfigs/a/Arrow/Arrow-17.0.0-gfbf-2024a.eb b/easybuild/easyconfigs/a/Arrow/Arrow-17.0.0-gfbf-2024a.eb
@@ -58,9 +58,6 @@ _pyarrow_preinstall_opts += "PYARROW_WITH_DATASET=1 PYARROW_WITH_PARQUET=1 PYARR
 
 exts_defaultclass = 'PythonPackage'
 exts_default_options = {
-    'download_dep_fail': True,
-    'use_pip': True,
-    'sanity_pip_check': True,
 }
 exts_list = [
     ('pyarrow', version, {

diff --git a/easybuild/easyconfigs/a/absl-py/absl-py-2.1.0-GCCcore-13.3.0.eb b/easybuild/easyconfigs/a/absl-py/absl-py-2.1.0-GCCcore-13.3.0.eb
@@ -14,15 +14,11 @@ builddependencies = [('binutils', '2.42')]
 
 dependencies = [('Python', '3.12.3')]
 
-use_pip = True
-
 exts_list = [
     ('absl-py', version, {
         'modulename': 'absl',
         'checksums': ['7820790efbb316739cde8b4e19357243fc3608a152024288513dd968d7d959ff'],
     }),
 ]
 
-sanity_pip_check = True
-
 moduleclass = 'tools'
diff --git a/easybuild/easyconfigs/a/aiohttp/aiohttp-3.10.10-GCCcore-13.3.0.eb b/easybuild/easyconfigs/a/aiohttp/aiohttp-3.10.10-GCCcore-13.3.0.eb
@@ -19,8 +19,6 @@ dependencies = [
     ('Python-bundle-PyPI', '2024.06'),
 ]
 
-use_pip = True
-
 # aioredis and aiosignal do not depend on aiohttp, but are commonly used together and share dependencies
 exts_list = [
     ('botocore', '1.35.36', {
@@ -67,6 +65,4 @@ exts_list = [
     }),
 ]
 
-sanity_pip_check = True
-
 moduleclass = 'lib'
diff --git a/easybuild/easyconfigs/a/anndata/anndata-0.11.1-foss-2023b.eb b/easybuild/easyconfigs/a/anndata/anndata-0.11.1-foss-2023b.eb
@@ -20,9 +20,6 @@ dependencies = [
     ('h5py', '3.11.0'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('array_api_compat', '1.9.1', {
         'checksums': ['17bab828c93c79a5bb8b867145b71fcb889686607c5672b060aef437e0359ea8'],

diff --git a/easybuild/easyconfigs/b/BindCraft/BindCraft-1.1.0-foss-2023a-CUDA-12.1.1.eb b/easybuild/easyconfigs/b/BindCraft/BindCraft-1.1.0-foss-2023a-CUDA-12.1.1.eb
@@ -42,9 +42,6 @@ dependencies = [
 exts_defaultclass = 'PythonPackage'
 exts_default_options = {
     'source_urls': [PYPI_SOURCE],
-    'download_dep_fail': True,
-    'use_pip': True,
-    'sanity_pip_check': True,
 }
 exts_list = [
     ('PDBFixer', '1.9', {

diff --git a/easybuild/easyconfigs/b/BindCraft/BindCraft-1.1.0-foss-2023a.eb b/easybuild/easyconfigs/b/BindCraft/BindCraft-1.1.0-foss-2023a.eb
@@ -40,9 +40,6 @@ dependencies = [
 exts_defaultclass = 'PythonPackage'
 exts_default_options = {
     'source_urls': [PYPI_SOURCE],
-    'download_dep_fail': True,
-    'use_pip': True,
-    'sanity_pip_check': True,
 }
 exts_list = [
     ('PDBFixer', '1.9', {

diff --git a/easybuild/easyconfigs/b/bakta/bakta-1.10.1-foss-2023b.eb b/easybuild/easyconfigs/b/bakta/bakta-1.10.1-foss-2023b.eb
@@ -25,9 +25,6 @@ dependencies = [
     ('archspec', '0.2.2'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('about_time', '4.2.1', {
         'source_tmpl': SOURCE_PY3_WHL,

diff --git a/easybuild/easyconfigs/b/bin2cell/bin2cell-0.3.2-foss-2023a.eb b/easybuild/easyconfigs/b/bin2cell/bin2cell-0.3.2-foss-2023a.eb
@@ -29,9 +29,6 @@ exts_list = [
     }),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 sanity_check_commands = ['python -c "import cv2"']
 
 moduleclass = 'bio'
diff --git a/easybuild/easyconfigs/b/bokeh/bokeh-3.6.0-gfbf-2024a.eb b/easybuild/easyconfigs/b/bokeh/bokeh-3.6.0-gfbf-2024a.eb
@@ -22,8 +22,6 @@ dependencies = [
     ('tornado', '6.4.1'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('contourpy', '1.2.1', {
         'checksums': ['4d8908b3bee1c889e547867ca4cdc54e5ab6be6d3e078556814a22457f49423c'],
@@ -44,6 +42,4 @@ sanity_check_paths = {
 
 sanity_check_commands = ["bokeh --help"]
 
-sanity_pip_check = True
-
 moduleclass = 'tools'
diff --git a/easybuild/easyconfigs/b/boto3/boto3-1.35.36-GCCcore-13.3.0.eb b/easybuild/easyconfigs/b/boto3/boto3-1.35.36-GCCcore-13.3.0.eb
@@ -34,7 +34,4 @@ exts_list = [
     }),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 moduleclass = 'lib'
diff --git a/easybuild/easyconfigs/c/CIRCE/CIRCE-0.3.4-foss-2023a.eb b/easybuild/easyconfigs/c/CIRCE/CIRCE-0.3.4-foss-2023a.eb
@@ -20,9 +20,6 @@ dependencies = [
     ('scanpy', '1.9.8'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 # Some requirements are too strict.
 local_preinstallopts = """sed -i 's/pandas = "[^"]*"/pandas = "*"/g' pyproject.toml && """
 local_preinstallopts += """sed -i "s/'pandas>=[^']*'/'pandas'/g" setup.py && """

diff --git a/easybuild/easyconfigs/c/CPPE/CPPE-0.3.1-GCC-12.3.0.eb b/easybuild/easyconfigs/c/CPPE/CPPE-0.3.1-GCC-12.3.0.eb
@@ -28,9 +28,6 @@ dependencies = [
 exts_defaultclass = 'PythonPackage'
 exts_default_options = {
     'source_urls': [PYPI_SOURCE],
-    'download_dep_fail': True,
-    'use_pip': True,
-    'sanity_pip_check': True,
 }
 
 exts_list = [

diff --git a/easybuild/easyconfigs/c/CVXOPT/CVXOPT-1.3.2-foss-2023a.eb b/easybuild/easyconfigs/c/CVXOPT/CVXOPT-1.3.2-foss-2023a.eb
@@ -28,10 +28,6 @@ dependencies = [
     ('GSL', '2.7'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-download_dep_fail = True
-
 preinstallopts = " ".join([
     'CVXOPT_BUILD_FFTW=1',
     'CVXOPT_BUILD_GSL=1',

diff --git a/easybuild/easyconfigs/c/Cellformer/Cellformer-20240917-foss-2023a-R-4.3.2.eb b/easybuild/easyconfigs/c/Cellformer/Cellformer-20240917-foss-2023a-R-4.3.2.eb
@@ -43,9 +43,6 @@ dependencies = [
 exts_defaultclass = 'PythonPackage'
 exts_default_options = {
     'source_urls': [PYPI_SOURCE],
-    'download_dep_fail': True,
-    'use_pip': True,
-    'sanity_pip_check': True,
     'installopts': '',
 }
 

diff --git a/easybuild/easyconfigs/c/cmcrameri/cmcrameri-1.9-gfbf-2023a.eb b/easybuild/easyconfigs/c/cmcrameri/cmcrameri-1.9-gfbf-2023a.eb
@@ -14,14 +14,10 @@ dependencies = [
     ('matplotlib', '3.7.2'),
 ]
 
-use_pip = True
-
 exts_list = [
     (name, version, {
         'checksums': ['56faf9b7f53eb03fed450137bec7dc25c1854929d7b841b9c75616fc2c357640'],
     }),
 ]
 
-sanity_pip_check = True
-
 moduleclass = 'tools'
diff --git a/easybuild/easyconfigs/c/cooler/cooler-0.10.2-foss-2023b.eb b/easybuild/easyconfigs/c/cooler/cooler-0.10.2-foss-2023b.eb
@@ -24,8 +24,6 @@ dependencies = [
     ('multiprocess', '0.70.16'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('asciitree', '0.3.3', {
         'checksums': ['4aa4b9b649f85e3fcb343363d97564aa1fb62e249677f2e18a96765145cc0f6e'],
@@ -41,6 +39,4 @@ exts_list = [
     }),
 ]
 
-sanity_pip_check = True
-
 moduleclass = 'bio'
diff --git a/easybuild/easyconfigs/d/Dask-ML/Dask-ML-2022.5.27-foss-2022a.eb b/easybuild/easyconfigs/d/Dask-ML/Dask-ML-2022.5.27-foss-2022a.eb
@@ -19,9 +19,6 @@ dependencies = [
     ('SciPy-bundle', '2022.05'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('sparse', '0.14.0', {
         'checksums': ['5f5827a37f6cd6f6730a541f994c95c60a3ae2329e01f4ba21ced5339aea0098'],

diff --git a/easybuild/easyconfigs/d/Dask-ML/Dask-ML-2024.4.4-foss-2023a.eb b/easybuild/easyconfigs/d/Dask-ML/Dask-ML-2024.4.4-foss-2023a.eb
@@ -21,9 +21,6 @@ dependencies = [
     ('SciPy-bundle', '2023.07'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('sparse', '0.15.4', {
         # replace use of 'version_file' (which requires setuptools-scm >= 8.0) with 'write_to'

diff --git a/easybuild/easyconfigs/d/dask/dask-2024.9.1-gfbf-2024a.eb b/easybuild/easyconfigs/d/dask/dask-2024.9.1-gfbf-2024a.eb
@@ -17,8 +17,6 @@ dependencies = [
     ('bokeh', '3.6.0'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('toolz', '0.12.1', {
         'checksums': ['ecca342664893f177a13dac0e6b41cbd8ac25a358e5f215316d43e2100224f4d'],
@@ -59,6 +57,4 @@ sanity_check_paths = {
 
 sanity_check_commands = ["dask-scheduler --help"]
 
-sanity_pip_check = True
-
 moduleclass = 'data'
diff --git a/easybuild/easyconfigs/d/datalad/datalad-1.1.0-GCCcore-13.2.0.eb b/easybuild/easyconfigs/d/datalad/datalad-1.1.0-GCCcore-13.2.0.eb
@@ -26,8 +26,6 @@ dependencies = [
     ('scikit-build', '0.17.6'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('humanize', '4.9.0', {
         'checksums': ['582a265c931c683a7e9b8ed9559089dea7edcf6cc95be39a3cbc2c5d5ac2bcfa'],
@@ -69,8 +67,6 @@ exts_list = [
     }),
 ]
 
-sanity_pip_check = True
-
 sanity_check_paths = {
     'files': ['bin/datalad'],
     'dirs': [],

diff --git a/easybuild/easyconfigs/d/dill/dill-0.3.8-GCCcore-13.2.0.eb b/easybuild/easyconfigs/d/dill/dill-0.3.8-GCCcore-13.2.0.eb
@@ -20,8 +20,4 @@ dependencies = [
     ('Python', '3.11.5'),
 ]
 
-use_pip = True
-download_dep_fail = True
-sanity_pip_check = True
-
 moduleclass = 'data'
diff --git a/easybuild/easyconfigs/d/dm-control/dm-control-1.0.18-foss-2023a.eb b/easybuild/easyconfigs/d/dm-control/dm-control-1.0.18-foss-2023a.eb
@@ -26,8 +26,6 @@ dependencies = [
     ('tqdm', '4.66.1'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('dm-env', '1.6', {
         'checksums': ['a436eb1c654c39e0c986a516cee218bea7140b510fceff63f97eb4fcff3d93de'],
@@ -46,8 +44,6 @@ exts_list = [
     }),
 ]
 
-sanity_pip_check = True
-
 options = {'modulename': 'tree'}
 
 moduleclass = 'ai'
diff --git a/easybuild/easyconfigs/d/dm-haiku/dm-haiku-0.0.13-foss-2023a.eb b/easybuild/easyconfigs/d/dm-haiku/dm-haiku-0.0.13-foss-2023a.eb
@@ -15,8 +15,6 @@ dependencies = [
     ('jax', '0.4.25'),  # required by jmp, also provides absl-py
 ]
 
-use_pip = True
-
 exts_list = [
     ('jmp', '0.0.4', {
         'source_tmpl': SOURCE_PY3_WHL,
@@ -29,6 +27,4 @@ exts_list = [
     }),
 ]
 
-sanity_pip_check = True
-
 moduleclass = 'lib'
diff --git a/easybuild/easyconfigs/e/edlib/edlib-1.3.9.post1-GCC-13.3.0.eb b/easybuild/easyconfigs/e/edlib/edlib-1.3.9.post1-GCC-13.3.0.eb
@@ -13,9 +13,6 @@ dependencies = [
     ('Python-bundle-PyPI', '2024.06'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('cogapp', '3.4.1', {
         'checksums': ['a806d5db9e318a1a2d3fce988008179168e7db13e5e55b19b79763f9bb9d2982'],

diff --git a/easybuild/easyconfigs/e/eggnog-mapper/eggnog-mapper-2.1.12-foss-2023a.eb b/easybuild/easyconfigs/e/eggnog-mapper/eggnog-mapper-2.1.12-foss-2023a.eb
@@ -36,10 +36,6 @@ dependencies = [
 # strip out (too) strict version requirements for dependencies
 preinstallopts = "sed -i 's/==[0-9.]*//g' setup.cfg && "
 
-use_pip = True
-sanity_pip_check = True
-download_dep_fail = True
-
 sanity_check_paths = {
     'files': ['bin/create_dbs.py', 'bin/download_eggnog_data.py', 'bin/emapper.py'],
     'dirs': ['lib/python%(pyshortver)s/site-packages'],

diff --git a/easybuild/easyconfigs/f/Fiona/Fiona-1.10.1-foss-2024a.eb b/easybuild/easyconfigs/f/Fiona/Fiona-1.10.1-foss-2024a.eb
@@ -22,9 +22,6 @@ dependencies = [
     ('Shapely', '2.0.6'),  # optional for 'calc' extras
 ]
 
-sanity_pip_check = True
-use_pip = True
-
 exts_list = [
     ('cligj', '0.7.2', {
         'checksums': ['a4bc13d623356b373c2c27c53dbd9c68cae5d526270bfa71f6c6fa69669c6b27'],

diff --git a/easybuild/easyconfigs/f/FloPy/FloPy-3.8.2-gfbf-2023a.eb b/easybuild/easyconfigs/f/FloPy/FloPy-3.8.2-gfbf-2023a.eb
@@ -20,7 +20,4 @@ exts_list = [
     }),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 moduleclass = 'geo'
diff --git a/easybuild/easyconfigs/f/fastparquet/fastparquet-2024.11.0-gfbf-2023a.eb b/easybuild/easyconfigs/f/fastparquet/fastparquet-2024.11.0-gfbf-2023a.eb
@@ -128,9 +128,6 @@ crates = [
     ('zstd-sys', '2.0.13+zstd.1.5.6'),
 ]
 
-use_pip = True
-sanity_pip_check = True
-
 exts_list = [
     ('thrift', '0.21.0', {
         'checksums': ['5e6f7c50f936ebfa23e924229afc95eb219f8c8e5a83202dd4a391244803e402'],

diff --git a/easybuild/easyconfigs/f/funannotate/funannotate-1.8.17-foss-2023a.eb b/easybuild/easyconfigs/f/funannotate/funannotate-1.8.17-foss-2023a.eb
@@ -56,8 +56,6 @@ dependencies = [
     ('EVidenceModeler', '2.1.0'),
 ]
 
-use_pip = True
-
 exts_list = [
     ('distro', '1.9.0', {
         'checksums': ['2fa77c6fd8940f116ee1d6b94a2f90b13b5ea8d019b98bc8bafdcabcdd9bdbed'],
@@ -88,7 +86,4 @@ sanity_check_commands = [
     "funannotate check --show-versions",
 ]
 
-
-sanity_pip_check = True
-
 moduleclass = 'bio'
diff --git a/easybuild/easyconfigs/g/GPAW/GPAW-24.6.0-foss-2024a.eb b/easybuild/easyconfigs/g/GPAW/GPAW-24.6.0-foss-2024a.eb
@@ -37,10 +37,6 @@ dependencies = [
 prebuildopts = 'GPAW_CONFIG=doc/platforms/Linux/EasyBuild/config_foss.py'
 preinstallopts = prebuildopts
 
-download_dep_fail = True
-use_pip = True
-sanity_pip_check = True
-
 sanity_check_paths = {
     'files': ['bin/gpaw%s' % x for x in ['', '-analyse-basis', '-basis', '-plot-parallel-timings',
                                          '-runscript', '-setup', '-upfplot']],