2022-08-22T22:40:44,639 Created temporary directory: /tmp/pip-ephem-wheel-cache-2bq3d_my
2022-08-22T22:40:44,644 Created temporary directory: /tmp/pip-build-tracker-h6373r5h
2022-08-22T22:40:44,645 Initialized build tracking at /tmp/pip-build-tracker-h6373r5h
2022-08-22T22:40:44,646 Created build tracker: /tmp/pip-build-tracker-h6373r5h
2022-08-22T22:40:44,646 Entered build tracker: /tmp/pip-build-tracker-h6373r5h
2022-08-22T22:40:44,647 Created temporary directory: /tmp/pip-wheel-tz8fg4fi
2022-08-22T22:40:44,715 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-08-22T22:40:44,728 2 location(s) to search for versions of coppafish:
2022-08-22T22:40:44,728 * https://pypi.org/simple/coppafish/
2022-08-22T22:40:44,728 * https://www.piwheels.org/simple/coppafish/
2022-08-22T22:40:44,729 Fetching project page and analyzing links: https://pypi.org/simple/coppafish/
2022-08-22T22:40:44,730 Getting page https://pypi.org/simple/coppafish/
2022-08-22T22:40:44,733 Found index url https://pypi.org/simple
2022-08-22T22:40:44,856   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/e9/73/6f328b727245a7251d65164be6ee4a76d7fd1adf87a968d7e21da367e795/coppafish-0.1.0-py3-none-any.whl#sha256=8dd52d97908f16a2f6a225945de7f97f8980b2cd01a9e3fe0adfed1e60568610 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,858   Found link https://files.pythonhosted.org/packages/60/cf/5e979fb9e16482fdee00fcbfd16bcff74b90a1bcd6bbb7b5826e3a8df530/coppafish-0.1.0.tar.gz#sha256=27bdaebaf05e460d7d1fa165c57aeaaf5d6d3d5da4a3f3f440ae52b164f3da41 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.0
2022-08-22T22:40:44,859   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/fe/ba/c1f2893215fff630b6ac72f2c2b40c9c2bd872b68e1d61b3726fb5d311b3/coppafish-0.1.1-py3-none-any.whl#sha256=39ee446e654c947acb978e3b04045a77aeac95e218d670274fd7bc08ba8f5814 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,860   Found link https://files.pythonhosted.org/packages/dc/be/b22d87837f76553d41be6e74dc30c3497709aebbd07d126f82c1a0de4812/coppafish-0.1.1.tar.gz#sha256=91806207a6be51fcde3bebfa715dbb34396eeccabe19f3b915119bd391a8ee10 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.1
2022-08-22T22:40:44,861   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/e1/46/89e58b37d74fee2680b5bc776d0559fa8fdf3caa83ec7f5874c2d80713db/coppafish-0.1.2-py3-none-any.whl#sha256=13265cb18b027ab750efc4fe916b4158140e747155bad07f296338d0df3d8b84 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,862   Found link https://files.pythonhosted.org/packages/54/98/dd615cd49346eebd21228d40f7622c13f9f2d6bc1a9b3fc5099d84224a55/coppafish-0.1.2.tar.gz#sha256=676644625113060b0aa332eb73c1887da2ef71cb853e0c58e3219cf69dfb98cc (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.2
2022-08-22T22:40:44,863   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/b0/7c/306b2f6a3f5f8bb17d4466f936423fc9ab67585ab477b056c653b70d4591/coppafish-0.1.3-py3-none-any.whl#sha256=dfff0aa689d6500e372646f36e1681103661ef650a72a3f0a6b9c380a24257bb (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,864   Found link https://files.pythonhosted.org/packages/a7/58/b11739cbb358beae6fa5070ce557d85e23906d56153bedfbbd65be0a826d/coppafish-0.1.3.tar.gz#sha256=c5c9da063c019771f6ea28d45e571952b92a8cbbb0f7dfd6f4c588a366f05188 (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.3
2022-08-22T22:40:44,865   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/e8/f0/fb14f26d2df2bdf46a402aa0f80a5eed4addba1f0424b595c11e249a655c/coppafish-0.1.4-py3-none-any.whl#sha256=525fb3d8b5305cb48611e60dbd2eaab93edc8f7b7ca44e4fbeac7187ae8bc2db (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,866   Found link https://files.pythonhosted.org/packages/23/d7/53bd096212a1a4081bdf5158fc2a20eb650ede774f6d9c940f82461d5e3f/coppafish-0.1.4.tar.gz#sha256=3d66749c3947801439684e59cbac463278ff5c80f51a88f990cd56ec481d221f (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.4
2022-08-22T22:40:44,866   Skipping link: No binaries permitted for coppafish: https://files.pythonhosted.org/packages/a3/79/7ca664b2d878df40787aa10988979ea719639b2be069485721e576096301/coppafish-0.1.5-py3-none-any.whl#sha256=57bbedd11a649ce489506b0bfd09e21bf14787adf30f7535f8cfbcc6fb30592e (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:44,868   Found link https://files.pythonhosted.org/packages/d8/57/85cca3b34dbe43c9e39850bc115e1f54a6b4679a95cc4c97d53cf96fa476/coppafish-0.1.5.tar.gz#sha256=276ccb99911a9e34abf2316630fed94f130ca384c1ca464a8d483a1f33fd8d9c (from https://pypi.org/simple/coppafish/) (requires-python:>=3.8), version: 0.1.5
2022-08-22T22:40:44,869 Fetching project page and analyzing links: https://www.piwheels.org/simple/coppafish/
2022-08-22T22:40:44,869 Getting page https://www.piwheels.org/simple/coppafish/
2022-08-22T22:40:44,871 Found index url https://www.piwheels.org/simple
2022-08-22T22:40:45,111   Skipping link: No binaries permitted for coppafish: https://www.piwheels.org/simple/coppafish/coppafish-0.1.4-py3-none-any.whl#sha256=acd1cdc77a23ab61d39193990c09cc7e1ac2432de22c03e4d034f5e254dd6596 (from https://www.piwheels.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:45,111   Skipping link: No binaries permitted for coppafish: https://www.piwheels.org/simple/coppafish/coppafish-0.1.3-py3-none-any.whl#sha256=b1c0091267eb1e026c2529c9762e9ba81785c39ed742fd0629b19fe7614c911c (from https://www.piwheels.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:45,112   Skipping link: No binaries permitted for coppafish: https://www.piwheels.org/simple/coppafish/coppafish-0.1.2-py3-none-any.whl#sha256=2c1910fe7a84014c01e97dda48072a4bfb3c81ee2ef888514f6e840a4fa72e80 (from https://www.piwheels.org/simple/coppafish/) (requires-python:>=3.8)
2022-08-22T22:40:45,113 Skipping link: not a file: https://www.piwheels.org/simple/coppafish/
2022-08-22T22:40:45,113 Skipping link: not a file: https://pypi.org/simple/coppafish/
2022-08-22T22:40:45,160 Given no hashes to check 1 links for project 'coppafish': discarding no candidates
2022-08-22T22:40:45,202 Collecting coppafish==0.1.5
2022-08-22T22:40:45,206   Created temporary directory: /tmp/pip-unpack-xhsum5vb
2022-08-22T22:40:45,298   Downloading coppafish-0.1.5.tar.gz (226 kB)
2022-08-22T22:40:45,988   Added coppafish==0.1.5 from https://files.pythonhosted.org/packages/d8/57/85cca3b34dbe43c9e39850bc115e1f54a6b4679a95cc4c97d53cf96fa476/coppafish-0.1.5.tar.gz#sha256=276ccb99911a9e34abf2316630fed94f130ca384c1ca464a8d483a1f33fd8d9c to build tracker '/tmp/pip-build-tracker-h6373r5h'
2022-08-22T22:40:45,991   Running setup.py (path:/tmp/pip-wheel-tz8fg4fi/coppafish_678a4fa22a2246a5a336198454a9108e/setup.py) egg_info for package coppafish
2022-08-22T22:40:45,992   Created temporary directory: /tmp/pip-pip-egg-info-aqiaoud5
2022-08-22T22:40:45,993   Preparing metadata (setup.py): started
2022-08-22T22:40:45,995   Running command python setup.py egg_info
2022-08-22T22:40:53,096   running egg_info
2022-08-22T22:40:53,101   creating /tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info
2022-08-22T22:40:53,729   writing /tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/PKG-INFO
2022-08-22T22:40:54,288   writing dependency_links to /tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/dependency_links.txt
2022-08-22T22:40:57,078   writing requirements to /tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/requires.txt
2022-08-22T22:40:57,642   writing top-level names to /tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/top_level.txt
2022-08-22T22:40:57,645   writing manifest file '/tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/SOURCES.txt'
2022-08-22T22:40:58,471   reading manifest file '/tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/SOURCES.txt'
2022-08-22T22:40:58,475   adding license file 'LICENSE.md'
2022-08-22T22:40:58,488   writing manifest file '/tmp/pip-pip-egg-info-aqiaoud5/coppafish.egg-info/SOURCES.txt'
2022-08-22T22:40:58,694   Preparing metadata (setup.py): finished with status 'done'
2022-08-22T22:40:58,705   Source in /tmp/pip-wheel-tz8fg4fi/coppafish_678a4fa22a2246a5a336198454a9108e has version 0.1.5, which satisfies requirement coppafish==0.1.5 from https://files.pythonhosted.org/packages/d8/57/85cca3b34dbe43c9e39850bc115e1f54a6b4679a95cc4c97d53cf96fa476/coppafish-0.1.5.tar.gz#sha256=276ccb99911a9e34abf2316630fed94f130ca384c1ca464a8d483a1f33fd8d9c
2022-08-22T22:40:58,707   Removed coppafish==0.1.5 from https://files.pythonhosted.org/packages/d8/57/85cca3b34dbe43c9e39850bc115e1f54a6b4679a95cc4c97d53cf96fa476/coppafish-0.1.5.tar.gz#sha256=276ccb99911a9e34abf2316630fed94f130ca384c1ca464a8d483a1f33fd8d9c from build tracker '/tmp/pip-build-tracker-h6373r5h'
2022-08-22T22:40:58,720 Created temporary directory: /tmp/pip-unpack-2o0asx4o
2022-08-22T22:40:58,721 Building wheels for collected packages: coppafish
2022-08-22T22:40:58,730   Created temporary directory: /tmp/pip-wheel-vnbpsnr2
2022-08-22T22:40:58,731   Building wheel for coppafish (setup.py): started
2022-08-22T22:40:58,733   Destination directory: /tmp/pip-wheel-vnbpsnr2
2022-08-22T22:40:58,733   Running command python setup.py bdist_wheel
2022-08-22T22:41:05,267   running bdist_wheel
2022-08-22T22:41:06,537   running build
2022-08-22T22:41:06,538   running build_py
2022-08-22T22:41:07,169   creating build
2022-08-22T22:41:07,170   creating build/lib
2022-08-22T22:41:07,171   creating build/lib/coppafish
2022-08-22T22:41:07,173   copying coppafish/__init__.py -> build/lib/coppafish
2022-08-22T22:41:07,177   copying coppafish/_version.py -> build/lib/coppafish
2022-08-22T22:41:07,180   copying coppafish/__main__.py -> build/lib/coppafish
2022-08-22T22:41:07,185   creating build/lib/coppafish/pipeline
2022-08-22T22:41:07,187   copying coppafish/pipeline/call_reference_spots.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,192   copying coppafish/pipeline/stitch.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,196   copying coppafish/pipeline/omp.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,201   copying coppafish/pipeline/__init__.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,204   copying coppafish/pipeline/register_initial.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,208   copying coppafish/pipeline/find_spots.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,212   copying coppafish/pipeline/extract_run.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,217   copying coppafish/pipeline/register.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,221   copying coppafish/pipeline/basic_info.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,226   copying coppafish/pipeline/get_reference_spots.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,230   copying coppafish/pipeline/run.py -> build/lib/coppafish/pipeline
2022-08-22T22:41:07,236   creating build/lib/coppafish/call_spots
2022-08-22T22:41:07,238   copying coppafish/call_spots/base.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,243   copying coppafish/call_spots/qual_check_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,246   copying coppafish/call_spots/dot_product.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,250   copying coppafish/call_spots/dot_product_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,254   copying coppafish/call_spots/__init__.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,257   copying coppafish/call_spots/bleed_matrix.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,262   copying coppafish/call_spots/qual_check.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,265   copying coppafish/call_spots/background.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,269   copying coppafish/call_spots/background_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T22:41:07,274   creating build/lib/coppafish/stitch
2022-08-22T22:41:07,275   copying coppafish/stitch/starting_shifts.py -> build/lib/coppafish/stitch
2022-08-22T22:41:07,279   copying coppafish/stitch/shift.py -> build/lib/coppafish/stitch
2022-08-22T22:41:07,284   copying coppafish/stitch/__init__.py -> build/lib/coppafish/stitch
2022-08-22T22:41:07,287   copying coppafish/stitch/check_shifts.py -> build/lib/coppafish/stitch
2022-08-22T22:41:07,500   copying coppafish/stitch/tile_origin.py -> build/lib/coppafish/stitch
2022-08-22T22:41:07,504   creating build/lib/coppafish/register
2022-08-22T22:41:07,506   copying coppafish/register/base.py -> build/lib/coppafish/register
2022-08-22T22:41:07,511   copying coppafish/register/check_transforms.py -> build/lib/coppafish/register
2022-08-22T22:41:07,515   copying coppafish/register/__init__.py -> build/lib/coppafish/register
2022-08-22T22:41:07,519   creating build/lib/coppafish/find_spots
2022-08-22T22:41:07,530   copying coppafish/find_spots/base.py -> build/lib/coppafish/find_spots
2022-08-22T22:41:07,534   copying coppafish/find_spots/detect.py -> build/lib/coppafish/find_spots
2022-08-22T22:41:07,537   copying coppafish/find_spots/detect_optimised.py -> build/lib/coppafish/find_spots
2022-08-22T22:41:07,562   copying coppafish/find_spots/__init__.py -> build/lib/coppafish/find_spots
2022-08-22T22:41:07,565   copying coppafish/find_spots/check_spots.py -> build/lib/coppafish/find_spots
2022-08-22T22:41:07,571   creating build/lib/coppafish/plot
2022-08-22T22:41:07,572   copying coppafish/plot/__init__.py -> build/lib/coppafish/plot
2022-08-22T22:41:07,576   copying coppafish/plot/raw.py -> build/lib/coppafish/plot
2022-08-22T22:41:07,582   creating build/lib/coppafish/utils
2022-08-22T22:41:07,583   copying coppafish/utils/base.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,587   copying coppafish/utils/matlab.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,591   copying coppafish/utils/pciseq.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,594   copying coppafish/utils/__init__.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,597   copying coppafish/utils/nd2.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,601   copying coppafish/utils/spot_images.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,605   copying coppafish/utils/errors.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,609   copying coppafish/utils/strel.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,614   copying coppafish/utils/npy.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,618   copying coppafish/utils/raw.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,622   copying coppafish/utils/warnings.py -> build/lib/coppafish/utils
2022-08-22T22:41:07,627   creating build/lib/coppafish/setup
2022-08-22T22:41:07,629   copying coppafish/setup/config.py -> build/lib/coppafish/setup
2022-08-22T22:41:07,634   copying coppafish/setup/tile_details.py -> build/lib/coppafish/setup
2022-08-22T22:41:07,637   copying coppafish/setup/__init__.py -> build/lib/coppafish/setup
2022-08-22T22:41:07,640   copying coppafish/setup/notebook.py -> build/lib/coppafish/setup
2022-08-22T22:41:07,646   copying coppafish/setup/file_names.py -> build/lib/coppafish/setup
2022-08-22T22:41:07,651   creating build/lib/coppafish/extract
2022-08-22T22:41:07,654   copying coppafish/extract/base.py -> build/lib/coppafish/extract
2022-08-22T22:41:07,658   copying coppafish/extract/fstack.py -> build/lib/coppafish/extract
2022-08-22T22:41:07,663   copying coppafish/extract/scale.py -> build/lib/coppafish/extract
2022-08-22T22:41:07,668   copying coppafish/extract/__init__.py -> build/lib/coppafish/extract
2022-08-22T22:41:07,672   copying coppafish/extract/deconvolution.py -> build/lib/coppafish/extract
2022-08-22T22:41:07,678   creating build/lib/coppafish/omp
2022-08-22T22:41:07,680   copying coppafish/omp/base.py -> build/lib/coppafish/omp
2022-08-22T22:41:07,685   copying coppafish/omp/coefs.py -> build/lib/coppafish/omp
2022-08-22T22:41:07,690   copying coppafish/omp/__init__.py -> build/lib/coppafish/omp
2022-08-22T22:41:07,694   copying coppafish/omp/coefs_optimised.py -> build/lib/coppafish/omp
2022-08-22T22:41:07,700   copying coppafish/omp/spots.py -> build/lib/coppafish/omp
2022-08-22T22:41:07,706   creating build/lib/coppafish/spot_colors
2022-08-22T22:41:07,708   copying coppafish/spot_colors/base.py -> build/lib/coppafish/spot_colors
2022-08-22T22:41:07,712   copying coppafish/spot_colors/__init__.py -> build/lib/coppafish/spot_colors
2022-08-22T22:41:07,715   copying coppafish/spot_colors/base_optimised.py -> build/lib/coppafish/spot_colors
2022-08-22T22:41:07,721   creating build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,723   copying coppafish/plot/call_spots/weight.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,727   copying coppafish/plot/call_spots/dot_product.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,732   copying coppafish/plot/call_spots/scaled_k_means.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,736   copying coppafish/plot/call_spots/__init__.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,739   copying coppafish/plot/call_spots/bleed_matrix.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,743   copying coppafish/plot/call_spots/spot_colors.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,748   copying coppafish/plot/call_spots/score_calc.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,751   copying coppafish/plot/call_spots/gene_counts.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,755   copying coppafish/plot/call_spots/background.py -> build/lib/coppafish/plot/call_spots
2022-08-22T22:41:07,761   creating build/lib/coppafish/plot/stitch
2022-08-22T22:41:07,762   copying coppafish/plot/stitch/shift.py -> build/lib/coppafish/plot/stitch
2022-08-22T22:41:07,767   copying coppafish/plot/stitch/__init__.py -> build/lib/coppafish/plot/stitch
2022-08-22T22:41:07,770   copying coppafish/plot/stitch/point_clouds.py -> build/lib/coppafish/plot/stitch
2022-08-22T22:41:07,775   copying coppafish/plot/stitch/diagnostics.py -> build/lib/coppafish/plot/stitch
2022-08-22T22:41:07,780   creating build/lib/coppafish/plot/register
2022-08-22T22:41:07,782   copying coppafish/plot/register/shift.py -> build/lib/coppafish/plot/register
2022-08-22T22:41:07,786   copying coppafish/plot/register/icp.py -> build/lib/coppafish/plot/register
2022-08-22T22:41:07,790   copying coppafish/plot/register/__init__.py -> build/lib/coppafish/plot/register
2022-08-22T22:41:07,794   copying coppafish/plot/register/diagnostics.py -> build/lib/coppafish/plot/register
2022-08-22T22:41:07,799   creating build/lib/coppafish/plot/find_spots
2022-08-22T22:41:07,801   copying coppafish/plot/find_spots/viewer.py -> build/lib/coppafish/plot/find_spots
2022-08-22T22:41:07,806   copying coppafish/plot/find_spots/__init__.py -> build/lib/coppafish/plot/find_spots
2022-08-22T22:41:07,809   copying coppafish/plot/find_spots/n_spots.py -> build/lib/coppafish/plot/find_spots
2022-08-22T22:41:07,814   creating build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,816   copying coppafish/plot/results_viewer/base.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,821   copying coppafish/plot/results_viewer/__init__.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,824   copying coppafish/plot/results_viewer/legend.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,829   creating build/lib/coppafish/plot/extract
2022-08-22T22:41:07,831   copying coppafish/plot/extract/viewer.py -> build/lib/coppafish/plot/extract
2022-08-22T22:41:07,835   copying coppafish/plot/extract/__init__.py -> build/lib/coppafish/plot/extract
2022-08-22T22:41:07,839   copying coppafish/plot/extract/diagnostics.py -> build/lib/coppafish/plot/extract
2022-08-22T22:41:07,845   creating build/lib/coppafish/plot/omp
2022-08-22T22:41:07,846   copying coppafish/plot/omp/score_shape.py -> build/lib/coppafish/plot/omp
2022-08-22T22:41:07,851   copying coppafish/plot/omp/coefs.py -> build/lib/coppafish/plot/omp
2022-08-22T22:41:07,874   copying coppafish/plot/omp/__init__.py -> build/lib/coppafish/plot/omp
2022-08-22T22:41:07,878   copying coppafish/plot/omp/score_hist.py -> build/lib/coppafish/plot/omp
2022-08-22T22:41:07,882   copying coppafish/plot/omp/track_fit.py -> build/lib/coppafish/plot/omp
2022-08-22T22:41:07,888   creating build/lib/coppafish/utils/morphology
2022-08-22T22:41:07,889   copying coppafish/utils/morphology/base.py -> build/lib/coppafish/utils/morphology
2022-08-22T22:41:07,893   copying coppafish/utils/morphology/__init__.py -> build/lib/coppafish/utils/morphology
2022-08-22T22:41:07,896   copying coppafish/utils/morphology/filter_optimised.py -> build/lib/coppafish/utils/morphology
2022-08-22T22:41:07,900   copying coppafish/utils/morphology/filter.py -> build/lib/coppafish/utils/morphology
2022-08-22T22:41:07,910   copying coppafish/setup/settings.default.ini -> build/lib/coppafish/setup
2022-08-22T22:41:07,917   copying coppafish/setup/notebook_comments.json -> build/lib/coppafish/setup
2022-08-22T22:41:07,924   copying coppafish/setup/dye_camera_laser_raw_intensity.csv -> build/lib/coppafish/setup
2022-08-22T22:41:07,929   copying coppafish/plot/results_viewer/cell_color.csv -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,933   copying coppafish/plot/results_viewer/cellClassColors.json -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:07,937   copying coppafish/plot/results_viewer/gene_color.csv -> build/lib/coppafish/plot/results_viewer
2022-08-22T22:41:08,641   /usr/local/lib/python3.9/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
2022-08-22T22:41:08,642     warnings.warn(
2022-08-22T22:41:09,263   installing to build/bdist.linux-armv7l/wheel
2022-08-22T22:41:09,264   running install
2022-08-22T22:41:09,325   running install_lib
2022-08-22T22:41:09,947   creating build/bdist.linux-armv7l
2022-08-22T22:41:09,948   creating build/bdist.linux-armv7l/wheel
2022-08-22T22:41:09,951   creating build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T22:41:09,954   creating build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,956   copying build/lib/coppafish/pipeline/call_reference_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,961   copying build/lib/coppafish/pipeline/stitch.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,965   copying build/lib/coppafish/pipeline/omp.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,970   copying build/lib/coppafish/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,973   copying build/lib/coppafish/pipeline/register_initial.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,977   copying build/lib/coppafish/pipeline/find_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,982   copying build/lib/coppafish/pipeline/extract_run.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,987   copying build/lib/coppafish/pipeline/register.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:09,999   copying build/lib/coppafish/pipeline/basic_info.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:10,004   copying build/lib/coppafish/pipeline/get_reference_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:10,008   copying build/lib/coppafish/pipeline/run.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T22:41:10,015   creating build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,017   copying build/lib/coppafish/call_spots/base.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,022   copying build/lib/coppafish/call_spots/qual_check_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,026   copying build/lib/coppafish/call_spots/dot_product.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,031   copying build/lib/coppafish/call_spots/dot_product_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,035   copying build/lib/coppafish/call_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,039   copying build/lib/coppafish/call_spots/bleed_matrix.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,044   copying build/lib/coppafish/call_spots/qual_check.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,048   copying build/lib/coppafish/call_spots/background.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,052   copying build/lib/coppafish/call_spots/background_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T22:41:10,057   creating build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,059   copying build/lib/coppafish/stitch/starting_shifts.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,064   copying build/lib/coppafish/stitch/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,069   copying build/lib/coppafish/stitch/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,072   copying build/lib/coppafish/stitch/check_shifts.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,076   copying build/lib/coppafish/stitch/tile_origin.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T22:41:10,080   creating build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T22:41:10,082   copying build/lib/coppafish/register/base.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T22:41:10,087   copying build/lib/coppafish/register/check_transforms.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T22:41:10,091   copying build/lib/coppafish/register/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T22:41:10,096   creating build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,097   copying build/lib/coppafish/find_spots/base.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,101   copying build/lib/coppafish/find_spots/detect.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,105   copying build/lib/coppafish/find_spots/detect_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,109   copying build/lib/coppafish/find_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,112   copying build/lib/coppafish/find_spots/check_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T22:41:10,115   copying build/lib/coppafish/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T22:41:10,119   copying build/lib/coppafish/_version.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T22:41:10,123   creating build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T22:41:10,125   creating build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,127   copying build/lib/coppafish/plot/call_spots/weight.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,132   copying build/lib/coppafish/plot/call_spots/dot_product.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,137   copying build/lib/coppafish/plot/call_spots/scaled_k_means.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,141   copying build/lib/coppafish/plot/call_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,144   copying build/lib/coppafish/plot/call_spots/bleed_matrix.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,148   copying build/lib/coppafish/plot/call_spots/spot_colors.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,153   copying build/lib/coppafish/plot/call_spots/score_calc.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,157   copying build/lib/coppafish/plot/call_spots/gene_counts.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,161   copying build/lib/coppafish/plot/call_spots/background.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T22:41:10,167   creating build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T22:41:10,168   copying build/lib/coppafish/plot/stitch/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T22:41:10,174   copying build/lib/coppafish/plot/stitch/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T22:41:10,177   copying build/lib/coppafish/plot/stitch/point_clouds.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T22:41:10,182   copying build/lib/coppafish/plot/stitch/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T22:41:10,187   creating build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T22:41:10,188   copying build/lib/coppafish/plot/register/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T22:41:10,193   copying build/lib/coppafish/plot/register/icp.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T22:41:10,198   copying build/lib/coppafish/plot/register/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T22:41:10,201   copying build/lib/coppafish/plot/register/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T22:41:10,206   creating build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T22:41:10,207   copying build/lib/coppafish/plot/find_spots/viewer.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T22:41:10,213   copying build/lib/coppafish/plot/find_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T22:41:10,216   copying build/lib/coppafish/plot/find_spots/n_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T22:41:10,221   creating build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,222   copying build/lib/coppafish/plot/results_viewer/gene_color.csv -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,226   copying build/lib/coppafish/plot/results_viewer/base.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,232   copying build/lib/coppafish/plot/results_viewer/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,235   copying build/lib/coppafish/plot/results_viewer/cell_color.csv -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,238   copying build/lib/coppafish/plot/results_viewer/legend.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,243   copying build/lib/coppafish/plot/results_viewer/cellClassColors.json -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T22:41:10,247   copying build/lib/coppafish/plot/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T22:41:10,251   creating build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T22:41:10,253   copying build/lib/coppafish/plot/extract/viewer.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T22:41:10,258   copying build/lib/coppafish/plot/extract/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T22:41:10,261   copying build/lib/coppafish/plot/extract/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T22:41:10,266   creating build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,267   copying build/lib/coppafish/plot/omp/score_shape.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,272   copying build/lib/coppafish/plot/omp/coefs.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,277   copying build/lib/coppafish/plot/omp/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,280   copying build/lib/coppafish/plot/omp/score_hist.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,285   copying build/lib/coppafish/plot/omp/track_fit.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T22:41:10,289   copying build/lib/coppafish/plot/raw.py -> build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T22:41:10,317   creating build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,318   copying build/lib/coppafish/utils/base.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,323   creating build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T22:41:10,325   copying build/lib/coppafish/utils/morphology/base.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T22:41:10,329   copying build/lib/coppafish/utils/morphology/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T22:41:10,333   copying build/lib/coppafish/utils/morphology/filter_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T22:41:10,337   copying build/lib/coppafish/utils/morphology/filter.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T22:41:10,341   copying build/lib/coppafish/utils/matlab.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,345   copying build/lib/coppafish/utils/pciseq.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,348   copying build/lib/coppafish/utils/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,352   copying build/lib/coppafish/utils/nd2.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,356   copying build/lib/coppafish/utils/spot_images.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,360   copying build/lib/coppafish/utils/errors.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,365   copying build/lib/coppafish/utils/strel.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,369   copying build/lib/coppafish/utils/npy.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,374   copying build/lib/coppafish/utils/raw.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,379   copying build/lib/coppafish/utils/warnings.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T22:41:10,383   creating build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,384   copying build/lib/coppafish/setup/config.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,389   copying build/lib/coppafish/setup/tile_details.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,393   copying build/lib/coppafish/setup/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,396   copying build/lib/coppafish/setup/notebook.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,402   copying build/lib/coppafish/setup/file_names.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,407   copying build/lib/coppafish/setup/dye_camera_laser_raw_intensity.csv -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,411   copying build/lib/coppafish/setup/settings.default.ini -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,419   copying build/lib/coppafish/setup/notebook_comments.json -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T22:41:10,426   creating build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,427   copying build/lib/coppafish/extract/base.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,431   copying build/lib/coppafish/extract/fstack.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,435   copying build/lib/coppafish/extract/scale.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,440   copying build/lib/coppafish/extract/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,443   copying build/lib/coppafish/extract/deconvolution.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T22:41:10,448   creating build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,450   copying build/lib/coppafish/omp/base.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,454   copying build/lib/coppafish/omp/coefs.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,461   copying build/lib/coppafish/omp/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,465   copying build/lib/coppafish/omp/coefs_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,470   copying build/lib/coppafish/omp/spots.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T22:41:10,476   copying build/lib/coppafish/__main__.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T22:41:10,480   creating build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T22:41:10,481   copying build/lib/coppafish/spot_colors/base.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T22:41:10,486   copying build/lib/coppafish/spot_colors/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T22:41:10,489   copying build/lib/coppafish/spot_colors/base_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T22:41:10,493   running install_egg_info
2022-08-22T22:41:11,774   running egg_info
2022-08-22T22:41:12,392   writing coppafish.egg-info/PKG-INFO
2022-08-22T22:41:12,961   writing dependency_links to coppafish.egg-info/dependency_links.txt
2022-08-22T22:41:15,755   writing requirements to coppafish.egg-info/requires.txt
2022-08-22T22:41:16,311   writing top-level names to coppafish.egg-info/top_level.txt
2022-08-22T22:41:16,417   reading manifest file 'coppafish.egg-info/SOURCES.txt'
2022-08-22T22:41:16,426   adding license file 'LICENSE.md'
2022-08-22T22:41:16,443   writing manifest file 'coppafish.egg-info/SOURCES.txt'
2022-08-22T22:41:16,446   Copying coppafish.egg-info to build/bdist.linux-armv7l/wheel/coppafish-0.1.5-py3.9.egg-info
2022-08-22T22:41:16,469   running install_scripts
2022-08-22T22:41:16,683   adding license file "LICENSE.md" (matched pattern "LICEN[CS]E*")
2022-08-22T22:41:16,691   creating build/bdist.linux-armv7l/wheel/coppafish-0.1.5.dist-info/WHEEL
2022-08-22T22:41:16,696   creating '/tmp/pip-wheel-vnbpsnr2/coppafish-0.1.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2022-08-22T22:41:16,701   adding 'coppafish/__init__.py'
2022-08-22T22:41:16,704   adding 'coppafish/__main__.py'
2022-08-22T22:41:16,706   adding 'coppafish/_version.py'
2022-08-22T22:41:16,709   adding 'coppafish/call_spots/__init__.py'
2022-08-22T22:41:16,712   adding 'coppafish/call_spots/background.py'
2022-08-22T22:41:16,715   adding 'coppafish/call_spots/background_optimised.py'
2022-08-22T22:41:16,720   adding 'coppafish/call_spots/base.py'
2022-08-22T22:41:16,726   adding 'coppafish/call_spots/bleed_matrix.py'
2022-08-22T22:41:16,729   adding 'coppafish/call_spots/dot_product.py'
2022-08-22T22:41:16,731   adding 'coppafish/call_spots/dot_product_optimised.py'
2022-08-22T22:41:16,734   adding 'coppafish/call_spots/qual_check.py'
2022-08-22T22:41:16,737   adding 'coppafish/call_spots/qual_check_optimised.py'
2022-08-22T22:41:16,740   adding 'coppafish/extract/__init__.py'
2022-08-22T22:41:16,744   adding 'coppafish/extract/base.py'
2022-08-22T22:41:16,748   adding 'coppafish/extract/deconvolution.py'
2022-08-22T22:41:16,752   adding 'coppafish/extract/fstack.py'
2022-08-22T22:41:16,755   adding 'coppafish/extract/scale.py'
2022-08-22T22:41:16,759   adding 'coppafish/find_spots/__init__.py'
2022-08-22T22:41:16,762   adding 'coppafish/find_spots/base.py'
2022-08-22T22:41:16,766   adding 'coppafish/find_spots/check_spots.py'
2022-08-22T22:41:16,770   adding 'coppafish/find_spots/detect.py'
2022-08-22T22:41:16,773   adding 'coppafish/find_spots/detect_optimised.py'
2022-08-22T22:41:16,777   adding 'coppafish/omp/__init__.py'
2022-08-22T22:41:16,779   adding 'coppafish/omp/base.py'
2022-08-22T22:41:16,786   adding 'coppafish/omp/coefs.py'
2022-08-22T22:41:16,793   adding 'coppafish/omp/coefs_optimised.py'
2022-08-22T22:41:16,800   adding 'coppafish/omp/spots.py'
2022-08-22T22:41:16,804   adding 'coppafish/pipeline/__init__.py'
2022-08-22T22:41:16,808   adding 'coppafish/pipeline/basic_info.py'
2022-08-22T22:41:16,813   adding 'coppafish/pipeline/call_reference_spots.py'
2022-08-22T22:41:16,819   adding 'coppafish/pipeline/extract_run.py'
2022-08-22T22:41:16,823   adding 'coppafish/pipeline/find_spots.py'
2022-08-22T22:41:16,826   adding 'coppafish/pipeline/get_reference_spots.py'
2022-08-22T22:41:16,832   adding 'coppafish/pipeline/omp.py'
2022-08-22T22:41:16,836   adding 'coppafish/pipeline/register.py'
2022-08-22T22:41:16,839   adding 'coppafish/pipeline/register_initial.py'
2022-08-22T22:41:16,844   adding 'coppafish/pipeline/run.py'
2022-08-22T22:41:16,847   adding 'coppafish/pipeline/stitch.py'
2022-08-22T22:41:16,851   adding 'coppafish/plot/__init__.py'
2022-08-22T22:41:16,855   adding 'coppafish/plot/raw.py'
2022-08-22T22:41:16,858   adding 'coppafish/plot/call_spots/__init__.py'
2022-08-22T22:41:16,863   adding 'coppafish/plot/call_spots/background.py'
2022-08-22T22:41:16,866   adding 'coppafish/plot/call_spots/bleed_matrix.py'
2022-08-22T22:41:16,872   adding 'coppafish/plot/call_spots/dot_product.py'
2022-08-22T22:41:16,877   adding 'coppafish/plot/call_spots/gene_counts.py'
2022-08-22T22:41:16,881   adding 'coppafish/plot/call_spots/scaled_k_means.py'
2022-08-22T22:41:16,884   adding 'coppafish/plot/call_spots/score_calc.py'
2022-08-22T22:41:16,890   adding 'coppafish/plot/call_spots/spot_colors.py'
2022-08-22T22:41:16,895   adding 'coppafish/plot/call_spots/weight.py'
2022-08-22T22:41:16,898   adding 'coppafish/plot/extract/__init__.py'
2022-08-22T22:41:16,902   adding 'coppafish/plot/extract/diagnostics.py'
2022-08-22T22:41:16,906   adding 'coppafish/plot/extract/viewer.py'
2022-08-22T22:41:16,910   adding 'coppafish/plot/find_spots/__init__.py'
2022-08-22T22:41:16,912   adding 'coppafish/plot/find_spots/n_spots.py'
2022-08-22T22:41:16,917   adding 'coppafish/plot/find_spots/viewer.py'
2022-08-22T22:41:16,921   adding 'coppafish/plot/omp/__init__.py'
2022-08-22T22:41:16,926   adding 'coppafish/plot/omp/coefs.py'
2022-08-22T22:41:16,931   adding 'coppafish/plot/omp/score_hist.py'
2022-08-22T22:41:16,936   adding 'coppafish/plot/omp/score_shape.py'
2022-08-22T22:41:16,939   adding 'coppafish/plot/omp/track_fit.py'
2022-08-22T22:41:16,942   adding 'coppafish/plot/register/__init__.py'
2022-08-22T22:41:16,946   adding 'coppafish/plot/register/diagnostics.py'
2022-08-22T22:41:16,951   adding 'coppafish/plot/register/icp.py'
2022-08-22T22:41:16,955   adding 'coppafish/plot/register/shift.py'
2022-08-22T22:41:16,958   adding 'coppafish/plot/results_viewer/__init__.py'
2022-08-22T22:41:16,966   adding 'coppafish/plot/results_viewer/base.py'
2022-08-22T22:41:16,969   adding 'coppafish/plot/results_viewer/cellClassColors.json'
2022-08-22T22:41:16,971   adding 'coppafish/plot/results_viewer/cell_color.csv'
2022-08-22T22:41:16,974   adding 'coppafish/plot/results_viewer/gene_color.csv'
2022-08-22T22:41:16,977   adding 'coppafish/plot/results_viewer/legend.py'
2022-08-22T22:41:16,981   adding 'coppafish/plot/stitch/__init__.py'
2022-08-22T22:41:16,985   adding 'coppafish/plot/stitch/diagnostics.py'
2022-08-22T22:41:16,990   adding 'coppafish/plot/stitch/point_clouds.py'
2022-08-22T22:41:16,995   adding 'coppafish/plot/stitch/shift.py'
2022-08-22T22:41:16,999   adding 'coppafish/register/__init__.py'
2022-08-22T22:41:17,005   adding 'coppafish/register/base.py'
2022-08-22T22:41:17,009   adding 'coppafish/register/check_transforms.py'
2022-08-22T22:41:17,012   adding 'coppafish/setup/__init__.py'
2022-08-22T22:41:17,017   adding 'coppafish/setup/config.py'
2022-08-22T22:41:17,022   adding 'coppafish/setup/dye_camera_laser_raw_intensity.csv'
2022-08-22T22:41:17,025   adding 'coppafish/setup/file_names.py'
2022-08-22T22:41:17,038   adding 'coppafish/setup/notebook.py'
2022-08-22T22:41:17,049   adding 'coppafish/setup/notebook_comments.json'
2022-08-22T22:41:17,063   adding 'coppafish/setup/settings.default.ini'
2022-08-22T22:41:17,066   adding 'coppafish/setup/tile_details.py'
2022-08-22T22:41:17,070   adding 'coppafish/spot_colors/__init__.py'
2022-08-22T22:41:17,074   adding 'coppafish/spot_colors/base.py'
2022-08-22T22:41:17,078   adding 'coppafish/spot_colors/base_optimised.py'
2022-08-22T22:41:17,082   adding 'coppafish/stitch/__init__.py'
2022-08-22T22:41:17,085   adding 'coppafish/stitch/check_shifts.py'
2022-08-22T22:41:17,093   adding 'coppafish/stitch/shift.py'
2022-08-22T22:41:17,096   adding 'coppafish/stitch/starting_shifts.py'
2022-08-22T22:41:17,099   adding 'coppafish/stitch/tile_origin.py'
2022-08-22T22:41:17,102   adding 'coppafish/utils/__init__.py'
2022-08-22T22:41:17,105   adding 'coppafish/utils/base.py'
2022-08-22T22:41:17,108   adding 'coppafish/utils/errors.py'
2022-08-22T22:41:17,112   adding 'coppafish/utils/matlab.py'
2022-08-22T22:41:17,115   adding 'coppafish/utils/nd2.py'
2022-08-22T22:41:17,120   adding 'coppafish/utils/npy.py'
2022-08-22T22:41:17,123   adding 'coppafish/utils/pciseq.py'
2022-08-22T22:41:17,126   adding 'coppafish/utils/raw.py'
2022-08-22T22:41:17,130   adding 'coppafish/utils/spot_images.py'
2022-08-22T22:41:17,134   adding 'coppafish/utils/strel.py'
2022-08-22T22:41:17,136   adding 'coppafish/utils/warnings.py'
2022-08-22T22:41:17,139   adding 'coppafish/utils/morphology/__init__.py'
2022-08-22T22:41:17,143   adding 'coppafish/utils/morphology/base.py'
2022-08-22T22:41:17,146   adding 'coppafish/utils/morphology/filter.py'
2022-08-22T22:41:17,149   adding 'coppafish/utils/morphology/filter_optimised.py'
2022-08-22T22:41:17,153   adding 'coppafish-0.1.5.dist-info/LICENSE.md'
2022-08-22T22:41:17,156   adding 'coppafish-0.1.5.dist-info/METADATA'
2022-08-22T22:41:17,157   adding 'coppafish-0.1.5.dist-info/WHEEL'
2022-08-22T22:41:17,159   adding 'coppafish-0.1.5.dist-info/top_level.txt'
2022-08-22T22:41:17,164   adding 'coppafish-0.1.5.dist-info/RECORD'
2022-08-22T22:41:17,185   removing build/bdist.linux-armv7l/wheel
2022-08-22T22:41:17,499   Building wheel for coppafish (setup.py): finished with status 'done'
2022-08-22T22:41:17,515   Created wheel for coppafish: filename=coppafish-0.1.5-py3-none-any.whl size=280769 sha256=932503c8a5ecb01a0c1c0aaf9512a1a41e6ab739af244cc489d098b321faf139
2022-08-22T22:41:17,517   Stored in directory: /tmp/pip-ephem-wheel-cache-2bq3d_my/wheels/31/f2/2f/ea694fa2071ad4148a7eb383130b1e91366e669d150ec4b903
2022-08-22T22:41:17,548 Successfully built coppafish
2022-08-22T22:41:17,573 Removed build tracker: '/tmp/pip-build-tracker-h6373r5h'