2022-01-19T11:35:40,141 Created temporary directory: /tmp/pip-ephem-wheel-cache-z914p3hu
2022-01-19T11:35:40,147 Created temporary directory: /tmp/pip-req-tracker-kbkfskj6
2022-01-19T11:35:40,148 Initialized build tracking at /tmp/pip-req-tracker-kbkfskj6
2022-01-19T11:35:40,149 Created build tracker: /tmp/pip-req-tracker-kbkfskj6
2022-01-19T11:35:40,149 Entered build tracker: /tmp/pip-req-tracker-kbkfskj6
2022-01-19T11:35:40,150 Created temporary directory: /tmp/pip-wheel-8ei_dmzu
2022-01-19T11:35:40,216 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-01-19T11:35:40,222 2 location(s) to search for versions of stereopy:
2022-01-19T11:35:40,222 * https://pypi.org/simple/stereopy/
2022-01-19T11:35:40,222 * https://www.piwheels.org/simple/stereopy/
2022-01-19T11:35:40,223 Fetching project page and analyzing links: https://pypi.org/simple/stereopy/
2022-01-19T11:35:40,224 Getting page https://pypi.org/simple/stereopy/
2022-01-19T11:35:40,228 Found index url https://pypi.org/simple
2022-01-19T11:35:40,432   Found link https://files.pythonhosted.org/packages/ba/e8/211af80a80404175bc1fd16031e19187a8f9f30bbbf83ef798b805bcbfa8/stereopy-0.1.tar.gz#sha256=618b0c895b568f307841c4b6e95448eb73cc56ad5df3b5aff48261dc8a4eb24b (from https://pypi.org/simple/stereopy/) (requires-python:>=3.6), version: 0.1
2022-01-19T11:35:40,434   Found link https://files.pythonhosted.org/packages/8f/b9/c6937d46ebf500f64995f52f08cedcb7da142757c370a71646baf6aff8d4/stereopy-0.1.9.tar.gz#sha256=bbc2f792b3615175ceb42333f8d781a4b15ec9d090980da088bbbc757d4cb154 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.6), version: 0.1.9
2022-01-19T11:35:40,436   Found link https://files.pythonhosted.org/packages/54/d5/44997684dbd629b1d1b6456fd36c6c8a469ef33fd42840b3610b3cc130ea/stereopy-0.2.0.tar.gz#sha256=17d9332696faf468d354a87d2ba78027fc3ebd023dcba9f1ebd0c9cff418e99e (from https://pypi.org/simple/stereopy/) (requires-python:>=3.6), version: 0.2.0
2022-01-19T11:35:40,437   Found link https://files.pythonhosted.org/packages/16/63/f1b3f6cc029841596d2ab044092e8f272e68fb17590c72a6acb49fd9522f/stereopy-0.2.1.tar.gz#sha256=0a085a665f59cb2580b0f89333ca29a4d8cd27e26b9f945b683e5c52bb3a04d3 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.6), version: 0.2.1
2022-01-19T11:35:40,438   Found link https://files.pythonhosted.org/packages/e4/e7/1941f9a5646ce28f1a3ca8112eb6b1c243a296e215de176a94a2e626c608/stereopy-0.2.1.1.tar.gz#sha256=c5a2e2d8cd98e0ebbd928642c4c85c8dfe223b6e26ccb85bd6675bf206353a32 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.7), version: 0.2.1.1
2022-01-19T11:35:40,440   Found link https://files.pythonhosted.org/packages/6c/76/6e35ca9b3c9d09da60e3891d6c7bcfe973d1ad9630e8ab44098440f27f2c/stereopy-0.2.2.tar.gz#sha256=607bb675a3babd9a292e25ebc8025e8e8d376d59ab935e9daed404fbff36f801 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.7), version: 0.2.2
2022-01-19T11:35:40,441   Found link https://files.pythonhosted.org/packages/fa/b5/2c2344ba53f0de81fc4a386fd8c507967fd63d3e44021535488467182c1c/stereopy-0.2.3.tar.gz#sha256=0cf8fc82e9e41f1d0257126f08145200b4111720baad700b0c16a2f07e3880c6 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.7), version: 0.2.3
2022-01-19T11:35:40,443   Found link https://files.pythonhosted.org/packages/a9/5e/02cc76bd28abf7219cc546cda064f4ec21c92b90bb519e618d16c1b2197f/stereopy-0.2.4.tar.gz#sha256=29962ff71a199b99c3516562dbb798c0ed30ff2e077d5010cbdf8b6928bd17b0 (from https://pypi.org/simple/stereopy/) (requires-python:>=3.7), version: 0.2.4
2022-01-19T11:35:40,444 Fetching project page and analyzing links: https://www.piwheels.org/simple/stereopy/
2022-01-19T11:35:40,444 Getting page https://www.piwheels.org/simple/stereopy/
2022-01-19T11:35:40,447 Found index url https://www.piwheels.org/simple
2022-01-19T11:35:40,678   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.1-py3-none-any.whl#sha256=1436faf8dcf176e53adce94e2bc87792de7d4cdaaed317c408128bc9daa5e231 (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.6)
2022-01-19T11:35:40,679   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.1.9-py3-none-any.whl#sha256=9786a21d45274a8ed729134a2a5fa7379701020aa314d693fc95f4cca2a91e75 (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.6)
2022-01-19T11:35:40,679   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.2.0-py3-none-any.whl#sha256=ae14c63aea986a54218b9fed56b879d0a97082db8a4f6fadc91a319e0ce90c8f (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.6)
2022-01-19T11:35:40,680   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.2.1-py3-none-any.whl#sha256=cf71efeac7cafa9bff7c3a22c48c80c49cdd789556030cddb0f42576b578642b (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.6)
2022-01-19T11:35:40,681   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.2.1.1-py3-none-any.whl#sha256=10f5984a2c3aa0f26dd16a87369bebc8274256dd4a44a641f50fa40e72e64d64 (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.7)
2022-01-19T11:35:40,681   Skipping link: No binaries permitted for stereopy: https://www.piwheels.org/simple/stereopy/stereopy-0.2.2-py3-none-any.whl#sha256=cf30abb8d0be555dc5a8b89f25c6cb1d9751b4020397a3eb52f8378549ae6fd9 (from https://www.piwheels.org/simple/stereopy/) (requires-python:>=3.7)
2022-01-19T11:35:40,682 Skipping link: not a file: https://www.piwheels.org/simple/stereopy/
2022-01-19T11:35:40,682 Skipping link: not a file: https://pypi.org/simple/stereopy/
2022-01-19T11:35:40,718 Given no hashes to check 1 links for project 'stereopy': discarding no candidates
2022-01-19T11:35:40,749 Collecting stereopy==0.2.4
2022-01-19T11:35:40,752   Created temporary directory: /tmp/pip-unpack-g943n91x
2022-01-19T11:35:41,734   Downloading stereopy-0.2.4.tar.gz (20.9 MB)
2022-01-19T11:35:52,047   Added stereopy==0.2.4 from https://files.pythonhosted.org/packages/a9/5e/02cc76bd28abf7219cc546cda064f4ec21c92b90bb519e618d16c1b2197f/stereopy-0.2.4.tar.gz#sha256=29962ff71a199b99c3516562dbb798c0ed30ff2e077d5010cbdf8b6928bd17b0 to build tracker '/tmp/pip-req-tracker-kbkfskj6'
2022-01-19T11:35:52,049   Running setup.py (path:/tmp/pip-wheel-8ei_dmzu/stereopy_f0799715a9394eed956a862dd73adef6/setup.py) egg_info for package stereopy
2022-01-19T11:35:52,051   Created temporary directory: /tmp/pip-pip-egg-info-x9tuhr41
2022-01-19T11:35:52,051   Preparing metadata (setup.py): started
2022-01-19T11:35:52,052   Running command python setup.py egg_info
2022-01-19T12:23:22,719   running egg_info
2022-01-19T12:23:22,724   creating /tmp/pip-pip-egg-info-x9tuhr41/stereopy.egg-info
2022-01-19T12:23:22,738   writing manifest file '/tmp/pip-pip-egg-info-x9tuhr41/stereopy.egg-info/SOURCES.txt'
2022-01-19T12:23:22,881   /usr/local/lib/python3.7/dist-packages/setuptools/installer.py:30: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer.
2022-01-19T12:23:22,881     SetuptoolsDeprecationWarning,
2022-01-19T12:23:22,882   listing git files failed - pretending there aren't any
2022-01-19T12:23:22,928   writing manifest file '/tmp/pip-pip-egg-info-x9tuhr41/stereopy.egg-info/SOURCES.txt'
2022-01-19T12:23:25,529   Defaulting to user installation because normal site-packages is not writeable
2022-01-19T12:23:26,151   Collecting git+https://github.com/yoseflab/Hotspot.git
2022-01-19T12:23:26,158     Cloning https://github.com/yoseflab/Hotspot.git to /tmp/pip-req-build-b3le_8iz
2022-01-19T12:23:26,189     Running command git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-b3le_8iz
2022-01-19T12:23:26,282     fatal: transport 'https' not allowed
2022-01-19T12:23:26,302   WARNING: Discarding git+https://github.com/yoseflab/Hotspot.git. Command errored out with exit status 128: git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-b3le_8iz Check the logs for full command output.
2022-01-19T12:23:26,304   ERROR: Command errored out with exit status 128: git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-b3le_8iz Check the logs for full command output.
2022-01-19T12:23:26,730   install hotspot from git, command: pip install git+https://github.com/yoseflab/Hotspot.git
2022-01-19T12:23:26,903   Preparing metadata (setup.py): finished with status 'done'
2022-01-19T12:23:26,912   Source in /tmp/pip-wheel-8ei_dmzu/stereopy_f0799715a9394eed956a862dd73adef6 has version 0.2.4, which satisfies requirement stereopy==0.2.4 from https://files.pythonhosted.org/packages/a9/5e/02cc76bd28abf7219cc546cda064f4ec21c92b90bb519e618d16c1b2197f/stereopy-0.2.4.tar.gz#sha256=29962ff71a199b99c3516562dbb798c0ed30ff2e077d5010cbdf8b6928bd17b0
2022-01-19T12:23:26,914   Removed stereopy==0.2.4 from https://files.pythonhosted.org/packages/a9/5e/02cc76bd28abf7219cc546cda064f4ec21c92b90bb519e618d16c1b2197f/stereopy-0.2.4.tar.gz#sha256=29962ff71a199b99c3516562dbb798c0ed30ff2e077d5010cbdf8b6928bd17b0 from build tracker '/tmp/pip-req-tracker-kbkfskj6'
2022-01-19T12:23:26,927 Created temporary directory: /tmp/pip-unpack-xwfub1qg
2022-01-19T12:23:26,928 Building wheels for collected packages: stereopy
2022-01-19T12:23:26,936   Created temporary directory: /tmp/pip-wheel-q9lkw4e3
2022-01-19T12:23:26,937   Building wheel for stereopy (setup.py): started
2022-01-19T12:23:26,937   Destination directory: /tmp/pip-wheel-q9lkw4e3
2022-01-19T12:23:26,938   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-8ei_dmzu/stereopy_f0799715a9394eed956a862dd73adef6/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-8ei_dmzu/stereopy_f0799715a9394eed956a862dd73adef6/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-q9lkw4e3
2022-01-19T12:23:28,777   /usr/local/lib/python3.7/dist-packages/setuptools/installer.py:30: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer.
2022-01-19T12:23:28,779     SetuptoolsDeprecationWarning,
2022-01-19T12:23:41,895   running bdist_wheel
2022-01-19T12:23:41,905   running build
2022-01-19T12:23:41,906   running build_py
2022-01-19T12:23:41,914   creating build
2022-01-19T12:23:41,915   creating build/lib
2022-01-19T12:23:41,916   creating build/lib/stereo
2022-01-19T12:23:41,918   copying stereo/__init__.py -> build/lib/stereo
2022-01-19T12:23:41,922   copying stereo/config.py -> build/lib/stereo
2022-01-19T12:23:41,927   copying stereo/log_manager.py -> build/lib/stereo
2022-01-19T12:23:41,933   creating build/lib/stereo/tools
2022-01-19T12:23:41,934   copying stereo/tools/find_markers.py -> build/lib/stereo/tools
2022-01-19T12:23:41,939   copying stereo/tools/__init__.py -> build/lib/stereo/tools
2022-01-19T12:23:41,943   copying stereo/tools/dim_reduce.py -> build/lib/stereo/tools
2022-01-19T12:23:41,947   copying stereo/tools/highly_variable_genes.py -> build/lib/stereo/tools
2022-01-19T12:23:41,952   copying stereo/tools/spatial_lag.py -> build/lib/stereo/tools
2022-01-19T12:23:41,956   copying stereo/tools/clustering.py -> build/lib/stereo/tools
2022-01-19T12:23:41,962   copying stereo/tools/spatial_pattern_score.py -> build/lib/stereo/tools
2022-01-19T12:23:41,966   copying stereo/tools/cell_type_anno.py -> build/lib/stereo/tools
2022-01-19T12:23:41,971   copying stereo/tools/cluster.py -> build/lib/stereo/tools
2022-01-19T12:23:41,978   creating build/lib/stereo/algorithm
2022-01-19T12:23:41,979   copying stereo/algorithm/__init__.py -> build/lib/stereo/algorithm
2022-01-19T12:23:41,983   copying stereo/algorithm/dim_reduce.py -> build/lib/stereo/algorithm
2022-01-19T12:23:41,987   copying stereo/algorithm/mannwhitneyu.py -> build/lib/stereo/algorithm
2022-01-19T12:23:41,991   copying stereo/algorithm/_louvain.py -> build/lib/stereo/algorithm
2022-01-19T12:23:41,996   copying stereo/algorithm/highly_variable_genes.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,000   copying stereo/algorithm/spatial_hotspot.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,004   copying stereo/algorithm/statistics.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,008   copying stereo/algorithm/phenograph.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,012   copying stereo/algorithm/normalization.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,016   copying stereo/algorithm/spatial_pattern_score.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,019   copying stereo/algorithm/neighbors.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,024   copying stereo/algorithm/leiden.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,027   copying stereo/algorithm/scenic.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,031   copying stereo/algorithm/umap.py -> build/lib/stereo/algorithm
2022-01-19T12:23:42,037   creating build/lib/stereo/plots
2022-01-19T12:23:42,042   copying stereo/plots/__init__.py -> build/lib/stereo/plots
2022-01-19T12:23:42,046   copying stereo/plots/marker_genes.py -> build/lib/stereo/plots
2022-01-19T12:23:42,051   copying stereo/plots/plot_collection.py -> build/lib/stereo/plots
2022-01-19T12:23:42,055   copying stereo/plots/scatter.py -> build/lib/stereo/plots
2022-01-19T12:23:42,060   copying stereo/plots/violin.py -> build/lib/stereo/plots
2022-01-19T12:23:42,065   creating build/lib/stereo/image
2022-01-19T12:23:42,066   copying stereo/image/__init__.py -> build/lib/stereo/image
2022-01-19T12:23:42,070   copying stereo/image/pyramid.py -> build/lib/stereo/image
2022-01-19T12:23:42,076   creating build/lib/stereo/utils
2022-01-19T12:23:42,077   copying stereo/utils/hvg_utils.py -> build/lib/stereo/utils
2022-01-19T12:23:42,082   copying stereo/utils/__init__.py -> build/lib/stereo/utils
2022-01-19T12:23:42,085   copying stereo/utils/correlation.py -> build/lib/stereo/utils
2022-01-19T12:23:42,089   copying stereo/utils/spmatrix_helper.py -> build/lib/stereo/utils
2022-01-19T12:23:42,093   copying stereo/utils/data_helper.py -> build/lib/stereo/utils
2022-01-19T12:23:42,098   creating build/lib/stereo/core
2022-01-19T12:23:42,099   copying stereo/core/__init__.py -> build/lib/stereo/core
2022-01-19T12:23:42,103   copying stereo/core/gene.py -> build/lib/stereo/core
2022-01-19T12:23:42,106   copying stereo/core/stereo_exp_data.py -> build/lib/stereo/core
2022-01-19T12:23:42,111   copying stereo/core/stereo_result.py -> build/lib/stereo/core
2022-01-19T12:23:42,114   copying stereo/core/st_pipeline.py -> build/lib/stereo/core
2022-01-19T12:23:42,121   copying stereo/core/tool_base.py -> build/lib/stereo/core
2022-01-19T12:23:42,125   copying stereo/core/data.py -> build/lib/stereo/core
2022-01-19T12:23:42,128   copying stereo/core/cell.py -> build/lib/stereo/core
2022-01-19T12:23:42,133   creating build/lib/stereo/io
2022-01-19T12:23:42,135   copying stereo/io/__init__.py -> build/lib/stereo/io
2022-01-19T12:23:42,138   copying stereo/io/h5ad.py -> build/lib/stereo/io
2022-01-19T12:23:42,143   copying stereo/io/writer.py -> build/lib/stereo/io
2022-01-19T12:23:42,146   copying stereo/io/reader.py -> build/lib/stereo/io
2022-01-19T12:23:42,152   copying stereo/io/gef.py -> build/lib/stereo/io
2022-01-19T12:23:42,157   creating build/lib/stereo/preprocess
2022-01-19T12:23:42,159   copying stereo/preprocess/__init__.py -> build/lib/stereo/preprocess
2022-01-19T12:23:42,163   copying stereo/preprocess/normalize.py -> build/lib/stereo/preprocess
2022-01-19T12:23:42,166   copying stereo/preprocess/sc_transform.py -> build/lib/stereo/preprocess
2022-01-19T12:23:42,169   copying stereo/preprocess/filter.py -> build/lib/stereo/preprocess
2022-01-19T12:23:42,174   copying stereo/preprocess/qc.py -> build/lib/stereo/preprocess
2022-01-19T12:23:42,179   creating build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,180   copying stereo/algorithm/pysctransform/__init__.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,184   copying stereo/algorithm/pysctransform/fit.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,188   copying stereo/algorithm/pysctransform/pysctransform.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,194   copying stereo/algorithm/pysctransform/plotting.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,198   copying stereo/algorithm/pysctransform/jax_bfgs.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,202   copying stereo/algorithm/pysctransform/r_bw.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,206   copying stereo/algorithm/pysctransform/fit_glmgp.py -> build/lib/stereo/algorithm/pysctransform
2022-01-19T12:23:42,212   creating build/lib/stereo/plots/interact_plot
2022-01-19T12:23:42,214   copying stereo/plots/interact_plot/__init__.py -> build/lib/stereo/plots/interact_plot
2022-01-19T12:23:42,218   copying stereo/plots/interact_plot/poly_selection.py -> build/lib/stereo/plots/interact_plot
2022-01-19T12:23:42,223   copying stereo/plots/interact_plot/spatial_cluster.py -> build/lib/stereo/plots/interact_plot
2022-01-19T12:23:42,227   copying stereo/plots/interact_plot/interactive_scatter.py -> build/lib/stereo/plots/interact_plot
2022-01-19T12:23:42,233   creating build/lib/stereo/plots/_plot_basic
2022-01-19T12:23:42,235   copying stereo/plots/_plot_basic/__init__.py -> build/lib/stereo/plots/_plot_basic
2022-01-19T12:23:42,239   copying stereo/plots/_plot_basic/heatmap_plt.py -> build/lib/stereo/plots/_plot_basic
2022-01-19T12:23:42,244   copying stereo/plots/_plot_basic/get_stereo_data.py -> build/lib/stereo/plots/_plot_basic
2022-01-19T12:23:42,249   creating build/lib/stereo/image/segmentation_deepcell
2022-01-19T12:23:42,251   copying stereo/image/segmentation_deepcell/__init__.py -> build/lib/stereo/image/segmentation_deepcell
2022-01-19T12:23:42,255   copying stereo/image/segmentation_deepcell/segment.py -> build/lib/stereo/image/segmentation_deepcell
2022-01-19T12:23:42,260   creating build/lib/stereo/image/segmentation
2022-01-19T12:23:42,262   copying stereo/image/segmentation/__init__.py -> build/lib/stereo/image/segmentation
2022-01-19T12:23:42,266   copying stereo/image/segmentation/segment.py -> build/lib/stereo/image/segmentation
2022-01-19T12:23:42,272   creating build/lib/stereo/image/tissue_cut
2022-01-19T12:23:42,274   copying stereo/image/tissue_cut/tissue_seg.py -> build/lib/stereo/image/tissue_cut
2022-01-19T12:23:42,278   copying stereo/image/tissue_cut/__init__.py -> build/lib/stereo/image/tissue_cut
2022-01-19T12:23:42,284   creating build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,286   copying stereo/image/segmentation_deepcell/seg_utils/tissue_seg.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,290   copying stereo/image/segmentation_deepcell/seg_utils/cell_seg_pipeline.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,294   copying stereo/image/segmentation_deepcell/seg_utils/__init__.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,297   copying stereo/image/segmentation_deepcell/seg_utils/utils.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,302   copying stereo/image/segmentation_deepcell/seg_utils/grade.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,306   copying stereo/image/segmentation_deepcell/seg_utils/cell_infer.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,311   copying stereo/image/segmentation_deepcell/seg_utils/tissue_seg_pipeline.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,315   copying stereo/image/segmentation_deepcell/seg_utils/image.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,318   copying stereo/image/segmentation_deepcell/seg_utils/find_maxima.py -> build/lib/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,324   creating build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,326   copying stereo/image/segmentation/seg_utils/cell_seg_pipeline.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,330   copying stereo/image/segmentation/seg_utils/__init__.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,333   copying stereo/image/segmentation/seg_utils/utils.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,338   copying stereo/image/segmentation/seg_utils/grade.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,342   copying stereo/image/segmentation/seg_utils/cell_infer.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,346   copying stereo/image/segmentation/seg_utils/resnet_unet.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,351   copying stereo/image/segmentation/seg_utils/image.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,354   copying stereo/image/segmentation/seg_utils/find_maxima.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,358   copying stereo/image/segmentation/seg_utils/dataset.py -> build/lib/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,363   creating build/lib/stereo/image/segmentation/seg_utils/models
2022-01-19T12:23:42,365   copying stereo/image/segmentation/seg_utils/models/epsanet.py -> build/lib/stereo/image/segmentation/seg_utils/models
2022-01-19T12:23:42,370   copying stereo/image/segmentation/seg_utils/models/__init__.py -> build/lib/stereo/image/segmentation/seg_utils/models
2022-01-19T12:23:42,374   copying stereo/image/segmentation/seg_utils/models/SE_weight_module.py -> build/lib/stereo/image/segmentation/seg_utils/models
2022-01-19T12:23:42,378   creating build/lib/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:42,380   copying stereo/image/tissue_cut/tissueCut_utils/__init__.py -> build/lib/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:42,383   copying stereo/image/tissue_cut/tissueCut_utils/tissue_seg_utils.py -> build/lib/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:42,386   copying stereo/image/tissue_cut/tissueCut_utils/tissue_seg_pipeline.py -> build/lib/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:42,391   copying stereo/image/tissue_cut/tissueCut_utils/tissue_seg_net.py -> build/lib/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:42,395   running egg_info
2022-01-19T12:23:42,495   listing git files failed - pretending there aren't any
2022-01-19T12:23:42,572   writing manifest file 'stereopy.egg-info/SOURCES.txt'
2022-01-19T12:23:42,622   /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
2022-01-19T12:23:42,622     setuptools.SetuptoolsDeprecationWarning,
2022-01-19T12:23:42,626   running install
2022-01-19T12:23:42,691   running install_lib
2022-01-19T12:23:42,698   creating build/bdist.linux-armv7l
2022-01-19T12:23:42,699   creating build/bdist.linux-armv7l/wheel
2022-01-19T12:23:42,702   creating build/bdist.linux-armv7l/wheel/stereo
2022-01-19T12:23:42,705   creating build/bdist.linux-armv7l/wheel/stereo/tools
2022-01-19T12:23:42,752   creating build/bdist.linux-armv7l/wheel/stereo/algorithm
2022-01-19T12:23:42,780   creating build/bdist.linux-armv7l/wheel/stereo/algorithm/pysctransform
2022-01-19T12:23:42,838   creating build/bdist.linux-armv7l/wheel/stereo/plots
2022-01-19T12:23:42,852   creating build/bdist.linux-armv7l/wheel/stereo/plots/interact_plot
2022-01-19T12:23:42,874   creating build/bdist.linux-armv7l/wheel/stereo/plots/_plot_basic
2022-01-19T12:23:42,893   creating build/bdist.linux-armv7l/wheel/stereo/image
2022-01-19T12:23:42,902   creating build/bdist.linux-armv7l/wheel/stereo/image/segmentation_deepcell
2022-01-19T12:23:42,911   creating build/bdist.linux-armv7l/wheel/stereo/image/segmentation_deepcell/seg_utils
2022-01-19T12:23:42,948   creating build/bdist.linux-armv7l/wheel/stereo/image/segmentation
2022-01-19T12:23:42,957   creating build/bdist.linux-armv7l/wheel/stereo/image/segmentation/seg_utils
2022-01-19T12:23:42,979   creating build/bdist.linux-armv7l/wheel/stereo/image/segmentation/seg_utils/models
2022-01-19T12:23:43,007   creating build/bdist.linux-armv7l/wheel/stereo/image/tissue_cut
2022-01-19T12:23:43,017   creating build/bdist.linux-armv7l/wheel/stereo/image/tissue_cut/tissueCut_utils
2022-01-19T12:23:43,034   creating build/bdist.linux-armv7l/wheel/stereo/utils
2022-01-19T12:23:43,054   creating build/bdist.linux-armv7l/wheel/stereo/core
2022-01-19T12:23:43,086   creating build/bdist.linux-armv7l/wheel/stereo/io
2022-01-19T12:23:43,107   creating build/bdist.linux-armv7l/wheel/stereo/preprocess
2022-01-19T12:23:43,126   running install_egg_info
2022-01-19T12:23:43,135   Copying stereopy.egg-info to build/bdist.linux-armv7l/wheel/stereopy-0.2.4-py3.7.egg-info
2022-01-19T12:23:43,156   running install_scripts
2022-01-19T12:23:43,943   install hotspot from git, command: pip install git+https://github.com/yoseflab/Hotspot.git
2022-01-19T12:23:46,575   Defaulting to user installation because normal site-packages is not writeable
2022-01-19T12:23:47,193   Collecting git+https://github.com/yoseflab/Hotspot.git
2022-01-19T12:23:47,200     Cloning https://github.com/yoseflab/Hotspot.git to /tmp/pip-req-build-gabcr_kn
2022-01-19T12:23:47,228     Running command git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-gabcr_kn
2022-01-19T12:23:47,320     fatal: transport 'https' not allowed
2022-01-19T12:23:47,341   WARNING: Discarding git+https://github.com/yoseflab/Hotspot.git. Command errored out with exit status 128: git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-gabcr_kn Check the logs for full command output.
2022-01-19T12:23:47,342   ERROR: Command errored out with exit status 128: git clone --filter=blob:none -q https://github.com/yoseflab/Hotspot.git /tmp/pip-req-build-gabcr_kn Check the logs for full command output.
2022-01-19T12:23:47,967   Building wheel for stereopy (setup.py): finished with status 'done'
2022-01-19T12:23:47,976   Created wheel for stereopy: filename=stereopy-0.2.4-py3-none-any.whl size=184886 sha256=b78386b89c5ad578686208cee978abbc50c63408f79a3e13825cbb216c1f85e2
2022-01-19T12:23:47,977   Stored in directory: /tmp/pip-ephem-wheel-cache-z914p3hu/wheels/11/35/11/c933cd4a6449b8e43d48de7931e1362c662f8ae61eb48d9258
2022-01-19T12:23:48,009 Successfully built stereopy
2022-01-19T12:23:48,031 Removed build tracker: '/tmp/pip-req-tracker-kbkfskj6'