2026-03-20T14:31:47,182 Created temporary directory: /tmp/pip-ephem-wheel-cache-j7_27hm_ 2026-03-20T14:31:47,184 Created temporary directory: /tmp/pip-build-tracker-skofwd6h 2026-03-20T14:31:47,184 Initialized build tracking at /tmp/pip-build-tracker-skofwd6h 2026-03-20T14:31:47,185 Created build tracker: /tmp/pip-build-tracker-skofwd6h 2026-03-20T14:31:47,185 Entered build tracker: /tmp/pip-build-tracker-skofwd6h 2026-03-20T14:31:47,186 Created temporary directory: /tmp/pip-wheel-bk_1qmta 2026-03-20T14:31:47,189 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-03-20T14:31:47,192 Created temporary directory: /tmp/pip-ephem-wheel-cache-uc3dqywp 2026-03-20T14:31:47,213 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-20T14:31:47,217 2 location(s) to search for versions of spatialformer: 2026-03-20T14:31:47,217 * https://pypi.org/simple/spatialformer/ 2026-03-20T14:31:47,217 * https://www.piwheels.org/simple/spatialformer/ 2026-03-20T14:31:47,218 Fetching project page and analyzing links: https://pypi.org/simple/spatialformer/ 2026-03-20T14:31:47,219 Getting page https://pypi.org/simple/spatialformer/ 2026-03-20T14:31:47,220 Found index url https://pypi.org/simple 2026-03-20T14:31:47,357 Fetched page https://pypi.org/simple/spatialformer/ as application/vnd.pypi.simple.v1+json 2026-03-20T14:31:47,360 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/67/e8/96287c1d40f52743b8b0d95e7ae7edfa5b3dae9ad193ac4fd283bb0726dd/SpatialFormer-0.0.2-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.9) 2026-03-20T14:31:47,361 Found link https://files.pythonhosted.org/packages/57/ed/b3d4ff5a83254298007850bde4d0e575dc5ef44c08f0407045a4ddc5143f/SpatialFormer-0.0.2.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.9), version: 0.0.2 2026-03-20T14:31:47,362 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/61/7f/f281a742e3ef3e3229bb6e6840a45cf151130b28e9ff6ee89f4c01253d42/spatialformer-0.0.20-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.8) 2026-03-20T14:31:47,363 Found link https://files.pythonhosted.org/packages/04/6a/e64b79f3c0c14d16ba740d29b12b83bf269b5644127814969c6d8fd42a60/spatialformer-0.0.20.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.8), version: 0.0.20 2026-03-20T14:31:47,364 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/81/4a/28b750ea2236955fa02c2810e513b4bafa33167752e8012e5684718bc76f/spatialformer-0.1.1-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,365 Found link https://files.pythonhosted.org/packages/0b/50/d7ea0775f830fe96b5c47f510f6ed34bb0c576f3ab2316b5558637fbe84a/spatialformer-0.1.1.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10), version: 0.1.1 2026-03-20T14:31:47,365 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/e6/1c/b53e2ee4988b2290f601f0b0271b20e317a7a67769352cd3b9d79fc58bb3/spatialformer-0.1.2-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,366 Found link https://files.pythonhosted.org/packages/25/86/4f0cdfb8e011e46781ecaa31deb9b07a440302cae6306406e9f394cc62b9/spatialformer-0.1.2.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10), version: 0.1.2 2026-03-20T14:31:47,367 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/c8/73/c8063afb0735bfa83c6ed0a4f21743b43eb57c90672ccc7f4b27abac4ac2/spatialformer-0.1.3-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,368 Found link https://files.pythonhosted.org/packages/10/f0/b3fe686dc22e745e23209a8892bacd026a9f61cab192a30df2487383b5e5/spatialformer-0.1.3.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10), version: 0.1.3 2026-03-20T14:31:47,369 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/05/1d/0beedf110bb7a14c7f2289046a38ab2d160af1cb77aed60d03d1d4ad436c/spatialformer-0.1.4-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,370 Found link https://files.pythonhosted.org/packages/94/da/215fc99202870be1445f3dec0de0250bf74faa5276a9b5c40af423231e1c/spatialformer-0.1.4.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10), version: 0.1.4 2026-03-20T14:31:47,370 Skipping link: No binaries permitted for spatialformer: https://files.pythonhosted.org/packages/85/72/fbe9f2043c92b967d39ace23051321e613139f18f0286fb88a35934c8c27/spatialformer-0.1.5-py3-none-any.whl (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,371 Found link https://files.pythonhosted.org/packages/88/47/927779624f4a903cac77c86042869bc6686ada6f83d6581c6a5a31d4aff0/spatialformer-0.1.5.tar.gz (from https://pypi.org/simple/spatialformer/) (requires-python:>=3.10), version: 0.1.5 2026-03-20T14:31:47,372 Fetching project page and analyzing links: https://www.piwheels.org/simple/spatialformer/ 2026-03-20T14:31:47,372 Getting page https://www.piwheels.org/simple/spatialformer/ 2026-03-20T14:31:47,374 Found index url https://www.piwheels.org/simple 2026-03-20T14:31:47,526 Fetched page https://www.piwheels.org/simple/spatialformer/ as text/html 2026-03-20T14:31:47,527 Skipping link: No binaries permitted for spatialformer: https://www.piwheels.org/simple/spatialformer/spatialformer-0.1.1-py3-none-any.whl#sha256=ea17bdcb84caee63440effbdf751abeb1c4dc6dfcfc98f7cf14964e1198d3046 (from https://www.piwheels.org/simple/spatialformer/) (requires-python:>=3.10) 2026-03-20T14:31:47,528 Skipping link: not a file: https://www.piwheels.org/simple/spatialformer/ 2026-03-20T14:31:47,529 Skipping link: not a file: https://pypi.org/simple/spatialformer/ 2026-03-20T14:31:47,548 Given no hashes to check 1 links for project 'spatialformer': discarding no candidates 2026-03-20T14:31:47,566 Collecting spatialformer==0.1.3 2026-03-20T14:31:47,569 Created temporary directory: /tmp/pip-unpack-h6clqgk8 2026-03-20T14:31:47,784 Downloading spatialformer-0.1.3.tar.gz (3.9 MB) 2026-03-20T14:31:48,708 Added spatialformer==0.1.3 from https://files.pythonhosted.org/packages/10/f0/b3fe686dc22e745e23209a8892bacd026a9f61cab192a30df2487383b5e5/spatialformer-0.1.3.tar.gz to build tracker '/tmp/pip-build-tracker-skofwd6h' 2026-03-20T14:31:48,709 Running setup.py (path:/tmp/pip-wheel-bk_1qmta/spatialformer_4ce3e452b6694629b086ad9094714cb9/setup.py) egg_info for package spatialformer 2026-03-20T14:31:48,710 Created temporary directory: /tmp/pip-pip-egg-info-v3_s2237 2026-03-20T14:31:48,711 Preparing metadata (setup.py): started 2026-03-20T14:31:48,712 Running command python setup.py egg_info 2026-03-20T14:31:49,580 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-20T14:31:49,580 !! 2026-03-20T14:31:49,581 ******************************************************************************** 2026-03-20T14:31:49,582 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-20T14:31:49,583 License :: OSI Approved :: MIT License 2026-03-20T14:31:49,584 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-20T14:31:49,585 ******************************************************************************** 2026-03-20T14:31:49,586 !! 2026-03-20T14:31:49,587 self._finalize_license_expression() 2026-03-20T14:31:49,611 running egg_info 2026-03-20T14:31:49,638 creating /tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info 2026-03-20T14:31:49,639 writing /tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/PKG-INFO 2026-03-20T14:31:49,642 writing dependency_links to /tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/dependency_links.txt 2026-03-20T14:31:49,645 writing requirements to /tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/requires.txt 2026-03-20T14:31:49,646 writing top-level names to /tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/top_level.txt 2026-03-20T14:31:49,647 writing manifest file '/tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/SOURCES.txt' 2026-03-20T14:31:49,786 reading manifest file '/tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/SOURCES.txt' 2026-03-20T14:31:49,787 reading manifest template 'MANIFEST.in' 2026-03-20T14:31:49,790 warning: no files found matching 'spatialformer/spatial_embeddings/*.json' 2026-03-20T14:31:49,790 adding license file 'LICENSE' 2026-03-20T14:31:49,794 writing manifest file '/tmp/pip-pip-egg-info-v3_s2237/spatialformer.egg-info/SOURCES.txt' 2026-03-20T14:31:49,902 Preparing metadata (setup.py): finished with status 'done' 2026-03-20T14:31:49,906 Source in /tmp/pip-wheel-bk_1qmta/spatialformer_4ce3e452b6694629b086ad9094714cb9 has version 0.1.3, which satisfies requirement spatialformer==0.1.3 from https://files.pythonhosted.org/packages/10/f0/b3fe686dc22e745e23209a8892bacd026a9f61cab192a30df2487383b5e5/spatialformer-0.1.3.tar.gz 2026-03-20T14:31:49,907 Removed spatialformer==0.1.3 from https://files.pythonhosted.org/packages/10/f0/b3fe686dc22e745e23209a8892bacd026a9f61cab192a30df2487383b5e5/spatialformer-0.1.3.tar.gz from build tracker '/tmp/pip-build-tracker-skofwd6h' 2026-03-20T14:31:49,913 Created temporary directory: /tmp/pip-unpack-m7z822kg 2026-03-20T14:31:49,914 Building wheels for collected packages: spatialformer 2026-03-20T14:31:49,919 Created temporary directory: /tmp/pip-wheel-_o0de0rk 2026-03-20T14:31:49,919 Building wheel for spatialformer (setup.py): started 2026-03-20T14:31:49,921 Destination directory: /tmp/pip-wheel-_o0de0rk 2026-03-20T14:31:49,921 Running command python setup.py bdist_wheel 2026-03-20T14:31:50,760 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-20T14:31:50,760 !! 2026-03-20T14:31:50,761 ******************************************************************************** 2026-03-20T14:31:50,762 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-20T14:31:50,763 License :: OSI Approved :: MIT License 2026-03-20T14:31:50,765 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-20T14:31:50,765 ******************************************************************************** 2026-03-20T14:31:50,767 !! 2026-03-20T14:31:50,767 self._finalize_license_expression() 2026-03-20T14:31:50,768 running bdist_wheel 2026-03-20T14:31:50,896 running build 2026-03-20T14:31:50,897 running build_py 2026-03-20T14:31:50,929 creating build/lib/spatialformer 2026-03-20T14:31:50,931 copying spatialformer/data_loader.py -> build/lib/spatialformer 2026-03-20T14:31:50,934 copying spatialformer/utils.py -> build/lib/spatialformer 2026-03-20T14:31:50,938 copying spatialformer/processor.py -> build/lib/spatialformer 2026-03-20T14:31:50,940 copying spatialformer/GraphSAGE.py -> build/lib/spatialformer 2026-03-20T14:31:50,943 copying spatialformer/graphsage.py -> build/lib/spatialformer 2026-03-20T14:31:50,945 copying spatialformer/train.py -> build/lib/spatialformer 2026-03-20T14:31:50,948 copying spatialformer/__init__.py -> build/lib/spatialformer 2026-03-20T14:31:50,950 creating build/lib/spatialformer/config 2026-03-20T14:31:50,951 copying spatialformer/config/__init__.py -> build/lib/spatialformer/config 2026-03-20T14:31:50,954 creating build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,955 copying spatialformer/gene_gene_calculation/find_gene_interaction.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,958 copying spatialformer/gene_gene_calculation/mask_dataset.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,960 copying spatialformer/gene_gene_calculation/process.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,963 copying spatialformer/gene_gene_calculation/h5toloader.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,965 copying spatialformer/gene_gene_calculation/__init__.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,967 copying spatialformer/gene_gene_calculation/build_h5ad.py -> build/lib/spatialformer/gene_gene_calculation 2026-03-20T14:31:50,970 creating build/lib/spatialformer/model 2026-03-20T14:31:50,971 copying spatialformer/model/settings.py -> build/lib/spatialformer/model 2026-03-20T14:31:50,973 copying spatialformer/model/Spaformer.py -> build/lib/spatialformer/model 2026-03-20T14:31:50,975 copying spatialformer/model/Spaformer_pair.py -> build/lib/spatialformer/model 2026-03-20T14:31:50,979 copying spatialformer/model/model.py -> build/lib/spatialformer/model 2026-03-20T14:31:50,981 copying spatialformer/model/__init__.py -> build/lib/spatialformer/model 2026-03-20T14:31:50,984 creating build/lib/spatialformer/tools 2026-03-20T14:31:50,985 copying spatialformer/tools/get_embeddings.py -> build/lib/spatialformer/tools 2026-03-20T14:31:50,988 copying spatialformer/tools/__init__.py -> build/lib/spatialformer/tools 2026-03-20T14:31:50,991 creating build/lib/spatialformer/preprocess 2026-03-20T14:31:50,992 copying spatialformer/preprocess/find_gene_interaction.py -> build/lib/spatialformer/preprocess 2026-03-20T14:31:50,994 copying spatialformer/preprocess/__init__.py -> build/lib/spatialformer/preprocess 2026-03-20T14:31:50,997 creating build/lib/spatialformer/tokenizer 2026-03-20T14:31:50,998 copying spatialformer/tokenizer/__init__.py -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,000 creating build/lib/spatialformer/spatial_embeddings 2026-03-20T14:31:51,001 copying spatialformer/spatial_embeddings/__init__.py -> build/lib/spatialformer/spatial_embeddings 2026-03-20T14:31:51,003 creating build/lib/spatialformer/dataloader 2026-03-20T14:31:51,004 copying spatialformer/dataloader/__init__.py -> build/lib/spatialformer/dataloader 2026-03-20T14:31:51,006 copying spatialformer/dataloader/dataloader_paired.py -> build/lib/spatialformer/dataloader 2026-03-20T14:31:51,010 creating build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,011 copying spatialformer/model/submodules/layer_modules.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,014 copying spatialformer/model/submodules/masked_conv.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,016 copying spatialformer/model/submodules/modules.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,019 copying spatialformer/model/submodules/alibi.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,021 copying spatialformer/model/submodules/activations.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,023 copying spatialformer/model/submodules/flash_attention2.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,026 copying spatialformer/model/submodules/__init__.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,028 copying spatialformer/model/submodules/masked_batchnorm.py -> build/lib/spatialformer/model/submodules 2026-03-20T14:31:51,030 running egg_info 2026-03-20T14:31:51,057 writing spatialformer.egg-info/PKG-INFO 2026-03-20T14:31:51,061 writing dependency_links to spatialformer.egg-info/dependency_links.txt 2026-03-20T14:31:51,063 writing requirements to spatialformer.egg-info/requires.txt 2026-03-20T14:31:51,064 writing top-level names to spatialformer.egg-info/top_level.txt 2026-03-20T14:31:51,106 reading manifest file 'spatialformer.egg-info/SOURCES.txt' 2026-03-20T14:31:51,111 reading manifest template 'MANIFEST.in' 2026-03-20T14:31:51,113 warning: no files found matching 'spatialformer/spatial_embeddings/*.json' 2026-03-20T14:31:51,114 adding license file 'LICENSE' 2026-03-20T14:31:51,118 writing manifest file 'spatialformer.egg-info/SOURCES.txt' 2026-03-20T14:31:51,126 copying spatialformer/config/_config_fine_tune_probe.json -> build/lib/spatialformer/config 2026-03-20T14:31:51,129 copying spatialformer/config/_config_graphsave.json -> build/lib/spatialformer/config 2026-03-20T14:31:51,131 copying spatialformer/config/_config_train.json -> build/lib/spatialformer/config 2026-03-20T14:31:51,133 copying spatialformer/config/_config_train_large_pair.json -> build/lib/spatialformer/config 2026-03-20T14:31:51,135 copying spatialformer/config/_config_train_large_single.json -> build/lib/spatialformer/config 2026-03-20T14:31:51,137 copying spatialformer/tokenizer/token.json -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,140 copying spatialformer/tokenizer/tokenv2.json -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,145 copying spatialformer/tokenizer/tokenv3.json -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,148 copying spatialformer/tokenizer/tokenv4.json -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,152 copying spatialformer/tokenizer/tokenv5.json -> build/lib/spatialformer/tokenizer 2026-03-20T14:31:51,157 copying spatialformer/spatial_embeddings/gene_embeddings_GraphSAGE_pandavid.pkl -> build/lib/spatialformer/spatial_embeddings 2026-03-20T14:31:51,258 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2026-03-20T14:31:51,259 !! 2026-03-20T14:31:51,260 ******************************************************************************** 2026-03-20T14:31:51,260 Please avoid running ``setup.py`` directly. 2026-03-20T14:31:51,261 Instead, use pypa/build, pypa/installer or other 2026-03-20T14:31:51,262 standards-based tools. 2026-03-20T14:31:51,263 This deprecation is overdue, please update your project and remove deprecated 2026-03-20T14:31:51,263 calls to avoid build errors in the future. 2026-03-20T14:31:51,265 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2026-03-20T14:31:51,265 ******************************************************************************** 2026-03-20T14:31:51,267 !! 2026-03-20T14:31:51,267 self.initialize_options() 2026-03-20T14:31:51,288 installing to build/bdist.linux-armv7l/wheel 2026-03-20T14:31:51,289 running install 2026-03-20T14:31:51,312 running install_lib 2026-03-20T14:31:51,339 creating build/bdist.linux-armv7l/wheel 2026-03-20T14:31:51,342 creating build/bdist.linux-armv7l/wheel/spatialformer 2026-03-20T14:31:51,343 copying build/lib/spatialformer/data_loader.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,347 creating build/bdist.linux-armv7l/wheel/spatialformer/config 2026-03-20T14:31:51,348 copying build/lib/spatialformer/config/_config_train_large_pair.json -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,350 copying build/lib/spatialformer/config/_config_train_large_single.json -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,352 copying build/lib/spatialformer/config/_config_fine_tune_probe.json -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,353 copying build/lib/spatialformer/config/_config_train.json -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,355 copying build/lib/spatialformer/config/_config_graphsave.json -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,357 copying build/lib/spatialformer/config/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/config 2026-03-20T14:31:51,359 copying build/lib/spatialformer/utils.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,363 creating build/bdist.linux-armv7l/wheel/spatialformer/gene_gene_calculation 2026-03-20T14:31:51,364 copying build/lib/spatialformer/gene_gene_calculation/find_gene_interaction.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,366 copying build/lib/spatialformer/gene_gene_calculation/mask_dataset.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,369 copying build/lib/spatialformer/gene_gene_calculation/process.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,371 copying build/lib/spatialformer/gene_gene_calculation/h5toloader.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,374 copying build/lib/spatialformer/gene_gene_calculation/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,376 copying build/lib/spatialformer/gene_gene_calculation/build_h5ad.py -> build/bdist.linux-armv7l/wheel/./spatialformer/gene_gene_calculation 2026-03-20T14:31:51,379 creating build/bdist.linux-armv7l/wheel/spatialformer/model 2026-03-20T14:31:51,380 copying build/lib/spatialformer/model/settings.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model 2026-03-20T14:31:51,382 creating build/bdist.linux-armv7l/wheel/spatialformer/model/submodules 2026-03-20T14:31:51,383 copying build/lib/spatialformer/model/submodules/layer_modules.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,386 copying build/lib/spatialformer/model/submodules/masked_conv.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,388 copying build/lib/spatialformer/model/submodules/modules.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,391 copying build/lib/spatialformer/model/submodules/alibi.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,393 copying build/lib/spatialformer/model/submodules/activations.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,395 copying build/lib/spatialformer/model/submodules/flash_attention2.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,398 copying build/lib/spatialformer/model/submodules/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,400 copying build/lib/spatialformer/model/submodules/masked_batchnorm.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model/submodules 2026-03-20T14:31:51,402 copying build/lib/spatialformer/model/Spaformer.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model 2026-03-20T14:31:51,405 copying build/lib/spatialformer/model/Spaformer_pair.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model 2026-03-20T14:31:51,408 copying build/lib/spatialformer/model/model.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model 2026-03-20T14:31:51,411 copying build/lib/spatialformer/model/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/model 2026-03-20T14:31:51,412 copying build/lib/spatialformer/processor.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,414 copying build/lib/spatialformer/GraphSAGE.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,417 creating build/bdist.linux-armv7l/wheel/spatialformer/tools 2026-03-20T14:31:51,418 copying build/lib/spatialformer/tools/get_embeddings.py -> build/bdist.linux-armv7l/wheel/./spatialformer/tools 2026-03-20T14:31:51,422 copying build/lib/spatialformer/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/tools 2026-03-20T14:31:51,424 copying build/lib/spatialformer/graphsage.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,426 copying build/lib/spatialformer/train.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,429 creating build/bdist.linux-armv7l/wheel/spatialformer/preprocess 2026-03-20T14:31:51,430 copying build/lib/spatialformer/preprocess/find_gene_interaction.py -> build/bdist.linux-armv7l/wheel/./spatialformer/preprocess 2026-03-20T14:31:51,433 copying build/lib/spatialformer/preprocess/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/preprocess 2026-03-20T14:31:51,435 creating build/bdist.linux-armv7l/wheel/spatialformer/tokenizer 2026-03-20T14:31:51,436 copying build/lib/spatialformer/tokenizer/tokenv2.json -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,440 copying build/lib/spatialformer/tokenizer/tokenv4.json -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,442 copying build/lib/spatialformer/tokenizer/token.json -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,444 copying build/lib/spatialformer/tokenizer/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,446 copying build/lib/spatialformer/tokenizer/tokenv5.json -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,450 copying build/lib/spatialformer/tokenizer/tokenv3.json -> build/bdist.linux-armv7l/wheel/./spatialformer/tokenizer 2026-03-20T14:31:51,453 copying build/lib/spatialformer/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer 2026-03-20T14:31:51,455 creating build/bdist.linux-armv7l/wheel/spatialformer/spatial_embeddings 2026-03-20T14:31:51,456 copying build/lib/spatialformer/spatial_embeddings/gene_embeddings_GraphSAGE_pandavid.pkl -> build/bdist.linux-armv7l/wheel/./spatialformer/spatial_embeddings 2026-03-20T14:31:51,524 copying build/lib/spatialformer/spatial_embeddings/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/spatial_embeddings 2026-03-20T14:31:51,527 creating build/bdist.linux-armv7l/wheel/spatialformer/dataloader 2026-03-20T14:31:51,528 copying build/lib/spatialformer/dataloader/__init__.py -> build/bdist.linux-armv7l/wheel/./spatialformer/dataloader 2026-03-20T14:31:51,530 copying build/lib/spatialformer/dataloader/dataloader_paired.py -> build/bdist.linux-armv7l/wheel/./spatialformer/dataloader 2026-03-20T14:31:51,534 running install_egg_info 2026-03-20T14:31:51,569 Copying spatialformer.egg-info to build/bdist.linux-armv7l/wheel/./spatialformer-0.1.3-py3.11.egg-info 2026-03-20T14:31:51,579 running install_scripts 2026-03-20T14:31:51,591 creating build/bdist.linux-armv7l/wheel/spatialformer-0.1.3.dist-info/WHEEL 2026-03-20T14:31:51,594 creating '/tmp/pip-wheel-_o0de0rk/spatialformer-0.1.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-03-20T14:31:51,598 adding 'spatialformer/GraphSAGE.py' 2026-03-20T14:31:51,601 adding 'spatialformer/__init__.py' 2026-03-20T14:31:51,605 adding 'spatialformer/data_loader.py' 2026-03-20T14:31:51,608 adding 'spatialformer/graphsage.py' 2026-03-20T14:31:51,610 adding 'spatialformer/processor.py' 2026-03-20T14:31:51,612 adding 'spatialformer/train.py' 2026-03-20T14:31:51,618 adding 'spatialformer/utils.py' 2026-03-20T14:31:51,621 adding 'spatialformer/config/__init__.py' 2026-03-20T14:31:51,623 adding 'spatialformer/config/_config_fine_tune_probe.json' 2026-03-20T14:31:51,624 adding 'spatialformer/config/_config_graphsave.json' 2026-03-20T14:31:51,626 adding 'spatialformer/config/_config_train.json' 2026-03-20T14:31:51,627 adding 'spatialformer/config/_config_train_large_pair.json' 2026-03-20T14:31:51,629 adding 'spatialformer/config/_config_train_large_single.json' 2026-03-20T14:31:51,631 adding 'spatialformer/dataloader/__init__.py' 2026-03-20T14:31:51,640 adding 'spatialformer/dataloader/dataloader_paired.py' 2026-03-20T14:31:51,642 adding 'spatialformer/gene_gene_calculation/__init__.py' 2026-03-20T14:31:51,644 adding 'spatialformer/gene_gene_calculation/build_h5ad.py' 2026-03-20T14:31:51,647 adding 'spatialformer/gene_gene_calculation/find_gene_interaction.py' 2026-03-20T14:31:51,650 adding 'spatialformer/gene_gene_calculation/h5toloader.py' 2026-03-20T14:31:51,652 adding 'spatialformer/gene_gene_calculation/mask_dataset.py' 2026-03-20T14:31:51,654 adding 'spatialformer/gene_gene_calculation/process.py' 2026-03-20T14:31:51,659 adding 'spatialformer/model/Spaformer.py' 2026-03-20T14:31:51,665 adding 'spatialformer/model/Spaformer_pair.py' 2026-03-20T14:31:51,666 adding 'spatialformer/model/__init__.py' 2026-03-20T14:31:51,667 adding 'spatialformer/model/model.py' 2026-03-20T14:31:51,669 adding 'spatialformer/model/settings.py' 2026-03-20T14:31:51,670 adding 'spatialformer/model/submodules/__init__.py' 2026-03-20T14:31:51,672 adding 'spatialformer/model/submodules/activations.py' 2026-03-20T14:31:51,673 adding 'spatialformer/model/submodules/alibi.py' 2026-03-20T14:31:51,677 adding 'spatialformer/model/submodules/flash_attention2.py' 2026-03-20T14:31:51,678 adding 'spatialformer/model/submodules/layer_modules.py' 2026-03-20T14:31:51,680 adding 'spatialformer/model/submodules/masked_batchnorm.py' 2026-03-20T14:31:51,682 adding 'spatialformer/model/submodules/masked_conv.py' 2026-03-20T14:31:51,684 adding 'spatialformer/model/submodules/modules.py' 2026-03-20T14:31:51,685 adding 'spatialformer/preprocess/__init__.py' 2026-03-20T14:31:51,687 adding 'spatialformer/preprocess/find_gene_interaction.py' 2026-03-20T14:31:51,689 adding 'spatialformer/spatial_embeddings/__init__.py' 2026-03-20T14:31:52,276 adding 'spatialformer/spatial_embeddings/gene_embeddings_GraphSAGE_pandavid.pkl' 2026-03-20T14:31:52,303 adding 'spatialformer/tokenizer/__init__.py' 2026-03-20T14:31:52,306 adding 'spatialformer/tokenizer/token.json' 2026-03-20T14:31:52,330 adding 'spatialformer/tokenizer/tokenv2.json' 2026-03-20T14:31:52,338 adding 'spatialformer/tokenizer/tokenv3.json' 2026-03-20T14:31:52,345 adding 'spatialformer/tokenizer/tokenv4.json' 2026-03-20T14:31:52,370 adding 'spatialformer/tokenizer/tokenv5.json' 2026-03-20T14:31:52,372 adding 'spatialformer/tools/__init__.py' 2026-03-20T14:31:52,378 adding 'spatialformer/tools/get_embeddings.py' 2026-03-20T14:31:52,381 adding 'spatialformer-0.1.3.dist-info/licenses/LICENSE' 2026-03-20T14:31:52,382 adding 'spatialformer-0.1.3.dist-info/METADATA' 2026-03-20T14:31:52,383 adding 'spatialformer-0.1.3.dist-info/WHEEL' 2026-03-20T14:31:52,384 adding 'spatialformer-0.1.3.dist-info/top_level.txt' 2026-03-20T14:31:52,386 adding 'spatialformer-0.1.3.dist-info/RECORD' 2026-03-20T14:31:52,433 removing build/bdist.linux-armv7l/wheel 2026-03-20T14:31:52,561 Building wheel for spatialformer (setup.py): finished with status 'done' 2026-03-20T14:31:52,603 Created wheel for spatialformer: filename=spatialformer-0.1.3-py3-none-any.whl size=3936146 sha256=8e4adfc89ae0fbbbdbaa3a0d11ea406797372805347a492158d6fbbfba2d292c 2026-03-20T14:31:52,605 Stored in directory: /tmp/pip-ephem-wheel-cache-uc3dqywp/wheels/8e/c1/b4/de0823d5ef65ecc87f4fd7409cee121e6dcaf62ef03d28110c 2026-03-20T14:31:52,618 Successfully built spatialformer 2026-03-20T14:31:52,716 Removed build tracker: '/tmp/pip-build-tracker-skofwd6h'