2022-08-22T19:22:59,137 Created temporary directory: /tmp/pip-ephem-wheel-cache-ngjuc7hg
2022-08-22T19:22:59,143 Created temporary directory: /tmp/pip-build-tracker-p2vxbflm
2022-08-22T19:22:59,143 Initialized build tracking at /tmp/pip-build-tracker-p2vxbflm
2022-08-22T19:22:59,144 Created build tracker: /tmp/pip-build-tracker-p2vxbflm
2022-08-22T19:22:59,144 Entered build tracker: /tmp/pip-build-tracker-p2vxbflm
2022-08-22T19:22:59,145 Created temporary directory: /tmp/pip-wheel-ti686944
2022-08-22T19:22:59,212 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-08-22T19:22:59,220 2 location(s) to search for versions of coppafish:
2022-08-22T19:22:59,220 * https://pypi.org/simple/coppafish/
2022-08-22T19:22:59,220 * https://www.piwheels.org/simple/coppafish/
2022-08-22T19:22:59,222 Fetching project page and analyzing links: https://pypi.org/simple/coppafish/
2022-08-22T19:22:59,222 Getting page https://pypi.org/simple/coppafish/
2022-08-22T19:22:59,226 Found index url https://pypi.org/simple
2022-08-22T19:22:59,351   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)
2022-08-22T19:22:59,352   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
2022-08-22T19:22:59,353   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)
2022-08-22T19:22:59,354   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
2022-08-22T19:22:59,355   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)
2022-08-22T19:22:59,356   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
2022-08-22T19:22:59,357   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)
2022-08-22T19:22:59,358   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
2022-08-22T19:22:59,359   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)
2022-08-22T19:22:59,360   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
2022-08-22T19:22:59,361 Fetching project page and analyzing links: https://www.piwheels.org/simple/coppafish/
2022-08-22T19:22:59,362 Getting page https://www.piwheels.org/simple/coppafish/
2022-08-22T19:22:59,364 Found index url https://www.piwheels.org/simple
2022-08-22T19:22:59,654   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)
2022-08-22T19:22:59,655   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)
2022-08-22T19:22:59,656 Skipping link: not a file: https://www.piwheels.org/simple/coppafish/
2022-08-22T19:22:59,656 Skipping link: not a file: https://pypi.org/simple/coppafish/
2022-08-22T19:22:59,702 Given no hashes to check 1 links for project 'coppafish': discarding no candidates
2022-08-22T19:22:59,743 Collecting coppafish==0.1.4
2022-08-22T19:22:59,748   Created temporary directory: /tmp/pip-unpack-d8uf5mu3
2022-08-22T19:23:00,125   Downloading coppafish-0.1.4.tar.gz (257 kB)
2022-08-22T19:23:00,959   Added coppafish==0.1.4 from https://files.pythonhosted.org/packages/23/d7/53bd096212a1a4081bdf5158fc2a20eb650ede774f6d9c940f82461d5e3f/coppafish-0.1.4.tar.gz#sha256=3d66749c3947801439684e59cbac463278ff5c80f51a88f990cd56ec481d221f to build tracker '/tmp/pip-build-tracker-p2vxbflm'
2022-08-22T19:23:00,962   Running setup.py (path:/tmp/pip-wheel-ti686944/coppafish_6674038255694704818ad9a6ad7583f2/setup.py) egg_info for package coppafish
2022-08-22T19:23:00,964   Created temporary directory: /tmp/pip-pip-egg-info-lehk42f2
2022-08-22T19:23:00,964   Preparing metadata (setup.py): started
2022-08-22T19:23:00,966   Running command python setup.py egg_info
2022-08-22T19:23:08,580   running egg_info
2022-08-22T19:23:08,587   creating /tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info
2022-08-22T19:23:09,255   writing /tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/PKG-INFO
2022-08-22T19:23:09,837   writing dependency_links to /tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/dependency_links.txt
2022-08-22T19:23:12,668   writing requirements to /tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/requires.txt
2022-08-22T19:23:13,235   writing top-level names to /tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/top_level.txt
2022-08-22T19:23:13,238   writing manifest file '/tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/SOURCES.txt'
2022-08-22T19:23:14,189   reading manifest file '/tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/SOURCES.txt'
2022-08-22T19:23:14,192   adding license file 'LICENSE.md'
2022-08-22T19:23:14,208   writing manifest file '/tmp/pip-pip-egg-info-lehk42f2/coppafish.egg-info/SOURCES.txt'
2022-08-22T19:23:14,414   Preparing metadata (setup.py): finished with status 'done'
2022-08-22T19:23:14,425   Source in /tmp/pip-wheel-ti686944/coppafish_6674038255694704818ad9a6ad7583f2 has version 0.1.4, which satisfies requirement coppafish==0.1.4 from https://files.pythonhosted.org/packages/23/d7/53bd096212a1a4081bdf5158fc2a20eb650ede774f6d9c940f82461d5e3f/coppafish-0.1.4.tar.gz#sha256=3d66749c3947801439684e59cbac463278ff5c80f51a88f990cd56ec481d221f
2022-08-22T19:23:14,427   Removed coppafish==0.1.4 from https://files.pythonhosted.org/packages/23/d7/53bd096212a1a4081bdf5158fc2a20eb650ede774f6d9c940f82461d5e3f/coppafish-0.1.4.tar.gz#sha256=3d66749c3947801439684e59cbac463278ff5c80f51a88f990cd56ec481d221f from build tracker '/tmp/pip-build-tracker-p2vxbflm'
2022-08-22T19:23:14,441 Created temporary directory: /tmp/pip-unpack-9vpojm84
2022-08-22T19:23:14,442 Building wheels for collected packages: coppafish
2022-08-22T19:23:14,452   Created temporary directory: /tmp/pip-wheel-r_ulbj80
2022-08-22T19:23:14,453   Building wheel for coppafish (setup.py): started
2022-08-22T19:23:14,457   Destination directory: /tmp/pip-wheel-r_ulbj80
2022-08-22T19:23:14,458   Running command python setup.py bdist_wheel
2022-08-22T19:23:21,586   running bdist_wheel
2022-08-22T19:23:22,975   running build
2022-08-22T19:23:22,975   running build_py
2022-08-22T19:23:23,628   creating build
2022-08-22T19:23:23,629   creating build/lib
2022-08-22T19:23:23,630   creating build/lib/coppafish
2022-08-22T19:23:23,632   copying coppafish/__main__.py -> build/lib/coppafish
2022-08-22T19:23:23,636   copying coppafish/__init__.py -> build/lib/coppafish
2022-08-22T19:23:23,639   copying coppafish/_version.py -> build/lib/coppafish
2022-08-22T19:23:23,645   creating build/lib/coppafish/pipeline
2022-08-22T19:23:23,646   copying coppafish/pipeline/find_spots.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,651   copying coppafish/pipeline/register_initial.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,655   copying coppafish/pipeline/call_reference_spots.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,660   copying coppafish/pipeline/basic_info.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,664   copying coppafish/pipeline/__init__.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,668   copying coppafish/pipeline/omp.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,672   copying coppafish/pipeline/get_reference_spots.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,677   copying coppafish/pipeline/register.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,681   copying coppafish/pipeline/stitch.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,685   copying coppafish/pipeline/extract_run.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,691   copying coppafish/pipeline/run.py -> build/lib/coppafish/pipeline
2022-08-22T19:23:23,697   creating build/lib/coppafish/extract
2022-08-22T19:23:23,699   copying coppafish/extract/base.py -> build/lib/coppafish/extract
2022-08-22T19:23:23,703   copying coppafish/extract/__init__.py -> build/lib/coppafish/extract
2022-08-22T19:23:23,706   copying coppafish/extract/deconvolution.py -> build/lib/coppafish/extract
2022-08-22T19:23:23,711   copying coppafish/extract/fstack.py -> build/lib/coppafish/extract
2022-08-22T19:23:23,715   copying coppafish/extract/scale.py -> build/lib/coppafish/extract
2022-08-22T19:23:23,721   creating build/lib/coppafish/stitch
2022-08-22T19:23:23,723   copying coppafish/stitch/starting_shifts.py -> build/lib/coppafish/stitch
2022-08-22T19:23:23,727   copying coppafish/stitch/check_shifts.py -> build/lib/coppafish/stitch
2022-08-22T19:23:23,731   copying coppafish/stitch/shift.py -> build/lib/coppafish/stitch
2022-08-22T19:23:23,737   copying coppafish/stitch/__init__.py -> build/lib/coppafish/stitch
2022-08-22T19:23:23,742   copying coppafish/stitch/tile_origin.py -> build/lib/coppafish/stitch
2022-08-22T19:23:23,748   creating build/lib/coppafish/call_spots
2022-08-22T19:23:23,750   copying coppafish/call_spots/background.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,755   copying coppafish/call_spots/base.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,760   copying coppafish/call_spots/qual_check_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,764   copying coppafish/call_spots/dot_product_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,769   copying coppafish/call_spots/__init__.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,773   copying coppafish/call_spots/background_optimised.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,777   copying coppafish/call_spots/dot_product.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,783   copying coppafish/call_spots/bleed_matrix.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,789   copying coppafish/call_spots/qual_check.py -> build/lib/coppafish/call_spots
2022-08-22T19:23:23,795   creating build/lib/coppafish/plot
2022-08-22T19:23:23,797   copying coppafish/plot/raw.py -> build/lib/coppafish/plot
2022-08-22T19:23:23,802   copying coppafish/plot/__init__.py -> build/lib/coppafish/plot
2022-08-22T19:23:23,808   creating build/lib/coppafish/find_spots
2022-08-22T19:23:23,810   copying coppafish/find_spots/check_spots.py -> build/lib/coppafish/find_spots
2022-08-22T19:23:23,816   copying coppafish/find_spots/base.py -> build/lib/coppafish/find_spots
2022-08-22T19:23:23,821   copying coppafish/find_spots/detect.py -> build/lib/coppafish/find_spots
2022-08-22T19:23:23,825   copying coppafish/find_spots/__init__.py -> build/lib/coppafish/find_spots
2022-08-22T19:23:23,829   copying coppafish/find_spots/detect_optimised.py -> build/lib/coppafish/find_spots
2022-08-22T19:23:23,835   creating build/lib/coppafish/setup
2022-08-22T19:23:23,837   copying coppafish/setup/__init__.py -> build/lib/coppafish/setup
2022-08-22T19:23:23,841   copying coppafish/setup/file_names.py -> build/lib/coppafish/setup
2022-08-22T19:23:23,845   copying coppafish/setup/notebook.py -> build/lib/coppafish/setup
2022-08-22T19:23:23,850   copying coppafish/setup/tile_details.py -> build/lib/coppafish/setup
2022-08-22T19:23:23,854   copying coppafish/setup/config.py -> build/lib/coppafish/setup
2022-08-22T19:23:23,860   creating build/lib/coppafish/omp
2022-08-22T19:23:23,862   copying coppafish/omp/spots.py -> build/lib/coppafish/omp
2022-08-22T19:23:23,867   copying coppafish/omp/base.py -> build/lib/coppafish/omp
2022-08-22T19:23:23,870   copying coppafish/omp/__init__.py -> build/lib/coppafish/omp
2022-08-22T19:23:23,873   copying coppafish/omp/coefs.py -> build/lib/coppafish/omp
2022-08-22T19:23:23,879   copying coppafish/omp/coefs_optimised.py -> build/lib/coppafish/omp
2022-08-22T19:23:23,885   creating build/lib/coppafish/spot_colors
2022-08-22T19:23:23,886   copying coppafish/spot_colors/base.py -> build/lib/coppafish/spot_colors
2022-08-22T19:23:23,891   copying coppafish/spot_colors/base_optimised.py -> build/lib/coppafish/spot_colors
2022-08-22T19:23:23,895   copying coppafish/spot_colors/__init__.py -> build/lib/coppafish/spot_colors
2022-08-22T19:23:23,900   creating build/lib/coppafish/register
2022-08-22T19:23:23,901   copying coppafish/register/base.py -> build/lib/coppafish/register
2022-08-22T19:23:23,906   copying coppafish/register/__init__.py -> build/lib/coppafish/register
2022-08-22T19:23:23,910   copying coppafish/register/check_transforms.py -> build/lib/coppafish/register
2022-08-22T19:23:23,916   creating build/lib/coppafish/utils
2022-08-22T19:23:23,918   copying coppafish/utils/nd2.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,923   copying coppafish/utils/base.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,926   copying coppafish/utils/spot_images.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,930   copying coppafish/utils/strel.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,935   copying coppafish/utils/raw.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,939   copying coppafish/utils/pciseq.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,942   copying coppafish/utils/errors.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,946   copying coppafish/utils/warnings.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,949   copying coppafish/utils/__init__.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,952   copying coppafish/utils/matlab.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,956   copying coppafish/utils/npy.py -> build/lib/coppafish/utils
2022-08-22T19:23:23,962   creating build/lib/coppafish/extract/test
2022-08-22T19:23:23,964   copying coppafish/extract/test/test_fstack.py -> build/lib/coppafish/extract/test
2022-08-22T19:23:23,968   copying coppafish/extract/test/test_strip_hack.py -> build/lib/coppafish/extract/test
2022-08-22T19:23:23,971   copying coppafish/extract/test/__init__.py -> build/lib/coppafish/extract/test
2022-08-22T19:23:23,976   creating build/lib/coppafish/stitch/test
2022-08-22T19:23:23,977   copying coppafish/stitch/test/test_tile_origin.py -> build/lib/coppafish/stitch/test
2022-08-22T19:23:23,981   copying coppafish/stitch/test/__init__.py -> build/lib/coppafish/stitch/test
2022-08-22T19:23:23,984   copying coppafish/stitch/test/test_shift.py -> build/lib/coppafish/stitch/test
2022-08-22T19:23:23,990   creating build/lib/coppafish/call_spots/test
2022-08-22T19:23:23,992   copying coppafish/call_spots/test/test_bleed_matrix.py -> build/lib/coppafish/call_spots/test
2022-08-22T19:23:23,997   copying coppafish/call_spots/test/__init__.py -> build/lib/coppafish/call_spots/test
2022-08-22T19:23:24,000   copying coppafish/call_spots/test/test_optimised.py -> build/lib/coppafish/call_spots/test
2022-08-22T19:23:24,004   copying coppafish/call_spots/test/test_base.py -> build/lib/coppafish/call_spots/test
2022-08-22T19:23:24,010   creating build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,011   copying coppafish/plot/results_viewer/base.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,017   copying coppafish/plot/results_viewer/__init__.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,020   copying coppafish/plot/results_viewer/legend.py -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,025   creating build/lib/coppafish/plot/extract
2022-08-22T19:23:24,027   copying coppafish/plot/extract/viewer.py -> build/lib/coppafish/plot/extract
2022-08-22T19:23:24,032   copying coppafish/plot/extract/__init__.py -> build/lib/coppafish/plot/extract
2022-08-22T19:23:24,035   copying coppafish/plot/extract/diagnostics.py -> build/lib/coppafish/plot/extract
2022-08-22T19:23:24,041   creating build/lib/coppafish/plot/stitch
2022-08-22T19:23:24,042   copying coppafish/plot/stitch/shift.py -> build/lib/coppafish/plot/stitch
2022-08-22T19:23:24,047   copying coppafish/plot/stitch/__init__.py -> build/lib/coppafish/plot/stitch
2022-08-22T19:23:24,051   copying coppafish/plot/stitch/diagnostics.py -> build/lib/coppafish/plot/stitch
2022-08-22T19:23:24,057   copying coppafish/plot/stitch/point_clouds.py -> build/lib/coppafish/plot/stitch
2022-08-22T19:23:24,064   creating build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,066   copying coppafish/plot/call_spots/spot_colors.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,072   copying coppafish/plot/call_spots/background.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,076   copying coppafish/plot/call_spots/weight.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,081   copying coppafish/plot/call_spots/score_calc.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,084   copying coppafish/plot/call_spots/__init__.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,088   copying coppafish/plot/call_spots/dot_product.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,093   copying coppafish/plot/call_spots/bleed_matrix.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,097   copying coppafish/plot/call_spots/scaled_k_means.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,102   copying coppafish/plot/call_spots/gene_counts.py -> build/lib/coppafish/plot/call_spots
2022-08-22T19:23:24,108   creating build/lib/coppafish/plot/find_spots
2022-08-22T19:23:24,110   copying coppafish/plot/find_spots/n_spots.py -> build/lib/coppafish/plot/find_spots
2022-08-22T19:23:24,114   copying coppafish/plot/find_spots/viewer.py -> build/lib/coppafish/plot/find_spots
2022-08-22T19:23:24,119   copying coppafish/plot/find_spots/__init__.py -> build/lib/coppafish/plot/find_spots
2022-08-22T19:23:24,124   creating build/lib/coppafish/plot/omp
2022-08-22T19:23:24,125   copying coppafish/plot/omp/track_fit.py -> build/lib/coppafish/plot/omp
2022-08-22T19:23:24,130   copying coppafish/plot/omp/__init__.py -> build/lib/coppafish/plot/omp
2022-08-22T19:23:24,133   copying coppafish/plot/omp/score_shape.py -> build/lib/coppafish/plot/omp
2022-08-22T19:23:24,139   copying coppafish/plot/omp/coefs.py -> build/lib/coppafish/plot/omp
2022-08-22T19:23:24,144   copying coppafish/plot/omp/score_hist.py -> build/lib/coppafish/plot/omp
2022-08-22T19:23:24,150   creating build/lib/coppafish/plot/register
2022-08-22T19:23:24,152   copying coppafish/plot/register/icp.py -> build/lib/coppafish/plot/register
2022-08-22T19:23:24,158   copying coppafish/plot/register/shift.py -> build/lib/coppafish/plot/register
2022-08-22T19:23:24,162   copying coppafish/plot/register/__init__.py -> build/lib/coppafish/plot/register
2022-08-22T19:23:24,166   copying coppafish/plot/register/diagnostics.py -> build/lib/coppafish/plot/register
2022-08-22T19:23:24,172   creating build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,173   copying coppafish/find_spots/test/__init__.py -> build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,177   copying coppafish/find_spots/test/test_neighbour.py -> build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,182   copying coppafish/find_spots/test/test_optimised.py -> build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,186   copying coppafish/find_spots/test/test_base.py -> build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,190   copying coppafish/find_spots/test/random_spot.py -> build/lib/coppafish/find_spots/test
2022-08-22T19:23:24,194   creating build/lib/coppafish/setup/test
2022-08-22T19:23:24,196   copying coppafish/setup/test/test_notebook.py -> build/lib/coppafish/setup/test
2022-08-22T19:23:24,201   copying coppafish/setup/test/__init__.py -> build/lib/coppafish/setup/test
2022-08-22T19:23:24,204   copying coppafish/setup/test/test_tilepos.py -> build/lib/coppafish/setup/test
2022-08-22T19:23:24,208   copying coppafish/setup/test/test_config.py -> build/lib/coppafish/setup/test
2022-08-22T19:23:24,213   creating build/lib/coppafish/omp/test
2022-08-22T19:23:24,215   copying coppafish/omp/test/test_all.py -> build/lib/coppafish/omp/test
2022-08-22T19:23:24,219   copying coppafish/omp/test/__init__.py -> build/lib/coppafish/omp/test
2022-08-22T19:23:24,223   copying coppafish/omp/test/test_optimised.py -> build/lib/coppafish/omp/test
2022-08-22T19:23:24,229   creating build/lib/coppafish/spot_colors/test
2022-08-22T19:23:24,231   copying coppafish/spot_colors/test/test_spot_colors.py -> build/lib/coppafish/spot_colors/test
2022-08-22T19:23:24,235   copying coppafish/spot_colors/test/__init__.py -> build/lib/coppafish/spot_colors/test
2022-08-22T19:23:24,238   copying coppafish/spot_colors/test/data_initialise.py -> build/lib/coppafish/spot_colors/test
2022-08-22T19:23:24,243   creating build/lib/coppafish/register/test
2022-08-22T19:23:24,245   copying coppafish/register/test/__init__.py -> build/lib/coppafish/register/test
2022-08-22T19:23:24,249   copying coppafish/register/test/test_base.py -> build/lib/coppafish/register/test
2022-08-22T19:23:24,255   creating build/lib/coppafish/utils/morphology
2022-08-22T19:23:24,257   copying coppafish/utils/morphology/base.py -> build/lib/coppafish/utils/morphology
2022-08-22T19:23:24,262   copying coppafish/utils/morphology/filter_optimised.py -> build/lib/coppafish/utils/morphology
2022-08-22T19:23:24,266   copying coppafish/utils/morphology/__init__.py -> build/lib/coppafish/utils/morphology
2022-08-22T19:23:24,269   copying coppafish/utils/morphology/filter.py -> build/lib/coppafish/utils/morphology
2022-08-22T19:23:24,275   creating build/lib/coppafish/utils/test
2022-08-22T19:23:24,276   copying coppafish/utils/test/__init__.py -> build/lib/coppafish/utils/test
2022-08-22T19:23:24,280   copying coppafish/utils/test/test_optimised.py -> build/lib/coppafish/utils/test
2022-08-22T19:23:24,284   copying coppafish/utils/test/test_npy.py -> build/lib/coppafish/utils/test
2022-08-22T19:23:24,288   copying coppafish/utils/test/test_morphology.py -> build/lib/coppafish/utils/test
2022-08-22T19:23:24,300   copying coppafish/setup/settings.default.ini -> build/lib/coppafish/setup
2022-08-22T19:23:24,307   copying coppafish/setup/notebook_comments.json -> build/lib/coppafish/setup
2022-08-22T19:23:24,314   copying coppafish/setup/dye_camera_laser_raw_intensity.csv -> build/lib/coppafish/setup
2022-08-22T19:23:24,319   copying coppafish/plot/results_viewer/cell_color.csv -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,324   copying coppafish/plot/results_viewer/cellClassColors.json -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:24,329   copying coppafish/plot/results_viewer/gene_color.csv -> build/lib/coppafish/plot/results_viewer
2022-08-22T19:23:25,074   /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.
2022-08-22T19:23:25,075     warnings.warn(
2022-08-22T19:23:25,737   installing to build/bdist.linux-armv7l/wheel
2022-08-22T19:23:25,738   running install
2022-08-22T19:23:25,801   running install_lib
2022-08-22T19:23:26,465   creating build/bdist.linux-armv7l
2022-08-22T19:23:26,466   creating build/bdist.linux-armv7l/wheel
2022-08-22T19:23:26,470   creating build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T19:23:26,474   creating build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,476   copying build/lib/coppafish/pipeline/find_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,481   copying build/lib/coppafish/pipeline/register_initial.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,485   copying build/lib/coppafish/pipeline/call_reference_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,491   copying build/lib/coppafish/pipeline/basic_info.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,496   copying build/lib/coppafish/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,500   copying build/lib/coppafish/pipeline/omp.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,505   copying build/lib/coppafish/pipeline/get_reference_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,510   copying build/lib/coppafish/pipeline/register.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,514   copying build/lib/coppafish/pipeline/stitch.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,519   copying build/lib/coppafish/pipeline/extract_run.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,524   copying build/lib/coppafish/pipeline/run.py -> build/bdist.linux-armv7l/wheel/coppafish/pipeline
2022-08-22T19:23:26,531   creating build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,533   copying build/lib/coppafish/extract/base.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,538   copying build/lib/coppafish/extract/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,542   copying build/lib/coppafish/extract/deconvolution.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,547   copying build/lib/coppafish/extract/fstack.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,552   copying build/lib/coppafish/extract/scale.py -> build/bdist.linux-armv7l/wheel/coppafish/extract
2022-08-22T19:23:26,558   creating build/bdist.linux-armv7l/wheel/coppafish/extract/test
2022-08-22T19:23:26,560   copying build/lib/coppafish/extract/test/test_fstack.py -> build/bdist.linux-armv7l/wheel/coppafish/extract/test
2022-08-22T19:23:26,564   copying build/lib/coppafish/extract/test/test_strip_hack.py -> build/bdist.linux-armv7l/wheel/coppafish/extract/test
2022-08-22T19:23:26,569   copying build/lib/coppafish/extract/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/extract/test
2022-08-22T19:23:26,573   copying build/lib/coppafish/__main__.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T19:23:26,578   creating build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,580   copying build/lib/coppafish/stitch/starting_shifts.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,584   copying build/lib/coppafish/stitch/check_shifts.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,589   copying build/lib/coppafish/stitch/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,594   copying build/lib/coppafish/stitch/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,598   copying build/lib/coppafish/stitch/tile_origin.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch
2022-08-22T19:23:26,602   creating build/bdist.linux-armv7l/wheel/coppafish/stitch/test
2022-08-22T19:23:26,604   copying build/lib/coppafish/stitch/test/test_tile_origin.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch/test
2022-08-22T19:23:26,609   copying build/lib/coppafish/stitch/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch/test
2022-08-22T19:23:26,613   copying build/lib/coppafish/stitch/test/test_shift.py -> build/bdist.linux-armv7l/wheel/coppafish/stitch/test
2022-08-22T19:23:26,623   creating build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,625   copying build/lib/coppafish/call_spots/background.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,629   copying build/lib/coppafish/call_spots/base.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,633   copying build/lib/coppafish/call_spots/qual_check_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,636   copying build/lib/coppafish/call_spots/dot_product_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,640   copying build/lib/coppafish/call_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,643   copying build/lib/coppafish/call_spots/background_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,647   copying build/lib/coppafish/call_spots/dot_product.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,651   copying build/lib/coppafish/call_spots/bleed_matrix.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,655   copying build/lib/coppafish/call_spots/qual_check.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots
2022-08-22T19:23:26,661   creating build/bdist.linux-armv7l/wheel/coppafish/call_spots/test
2022-08-22T19:23:26,662   copying build/lib/coppafish/call_spots/test/test_bleed_matrix.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots/test
2022-08-22T19:23:26,667   copying build/lib/coppafish/call_spots/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots/test
2022-08-22T19:23:26,670   copying build/lib/coppafish/call_spots/test/test_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots/test
2022-08-22T19:23:26,674   copying build/lib/coppafish/call_spots/test/test_base.py -> build/bdist.linux-armv7l/wheel/coppafish/call_spots/test
2022-08-22T19:23:26,678   copying build/lib/coppafish/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T19:23:26,682   creating build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T19:23:26,685   creating build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,686   copying build/lib/coppafish/plot/results_viewer/base.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,692   copying build/lib/coppafish/plot/results_viewer/gene_color.csv -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,695   copying build/lib/coppafish/plot/results_viewer/cell_color.csv -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,699   copying build/lib/coppafish/plot/results_viewer/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,701   copying build/lib/coppafish/plot/results_viewer/cellClassColors.json -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,705   copying build/lib/coppafish/plot/results_viewer/legend.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/results_viewer
2022-08-22T19:23:26,710   creating build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T19:23:26,712   copying build/lib/coppafish/plot/extract/viewer.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T19:23:26,717   copying build/lib/coppafish/plot/extract/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T19:23:26,720   copying build/lib/coppafish/plot/extract/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/extract
2022-08-22T19:23:26,724   copying build/lib/coppafish/plot/raw.py -> build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T19:23:26,729   creating build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T19:23:26,730   copying build/lib/coppafish/plot/stitch/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T19:23:26,735   copying build/lib/coppafish/plot/stitch/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T19:23:26,739   copying build/lib/coppafish/plot/stitch/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T19:23:26,743   copying build/lib/coppafish/plot/stitch/point_clouds.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/stitch
2022-08-22T19:23:26,749   creating build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,751   copying build/lib/coppafish/plot/call_spots/spot_colors.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,756   copying build/lib/coppafish/plot/call_spots/background.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,760   copying build/lib/coppafish/plot/call_spots/weight.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,765   copying build/lib/coppafish/plot/call_spots/score_calc.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,768   copying build/lib/coppafish/plot/call_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,771   copying build/lib/coppafish/plot/call_spots/dot_product.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,776   copying build/lib/coppafish/plot/call_spots/bleed_matrix.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,780   copying build/lib/coppafish/plot/call_spots/scaled_k_means.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,784   copying build/lib/coppafish/plot/call_spots/gene_counts.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/call_spots
2022-08-22T19:23:26,789   copying build/lib/coppafish/plot/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot
2022-08-22T19:23:26,793   creating build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T19:23:26,794   copying build/lib/coppafish/plot/find_spots/n_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T19:23:26,798   copying build/lib/coppafish/plot/find_spots/viewer.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T19:23:26,802   copying build/lib/coppafish/plot/find_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/find_spots
2022-08-22T19:23:26,807   creating build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,808   copying build/lib/coppafish/plot/omp/track_fit.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,812   copying build/lib/coppafish/plot/omp/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,815   copying build/lib/coppafish/plot/omp/score_shape.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,820   copying build/lib/coppafish/plot/omp/coefs.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,824   copying build/lib/coppafish/plot/omp/score_hist.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/omp
2022-08-22T19:23:26,830   creating build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T19:23:26,832   copying build/lib/coppafish/plot/register/icp.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T19:23:26,837   copying build/lib/coppafish/plot/register/shift.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T19:23:26,841   copying build/lib/coppafish/plot/register/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T19:23:26,844   copying build/lib/coppafish/plot/register/diagnostics.py -> build/bdist.linux-armv7l/wheel/coppafish/plot/register
2022-08-22T19:23:26,850   creating build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,851   copying build/lib/coppafish/find_spots/check_spots.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,855   copying build/lib/coppafish/find_spots/base.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,860   copying build/lib/coppafish/find_spots/detect.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,863   copying build/lib/coppafish/find_spots/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,867   copying build/lib/coppafish/find_spots/detect_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots
2022-08-22T19:23:26,873   creating build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,875   copying build/lib/coppafish/find_spots/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,879   copying build/lib/coppafish/find_spots/test/test_neighbour.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,884   copying build/lib/coppafish/find_spots/test/test_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,889   copying build/lib/coppafish/find_spots/test/test_base.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,893   copying build/lib/coppafish/find_spots/test/random_spot.py -> build/bdist.linux-armv7l/wheel/coppafish/find_spots/test
2022-08-22T19:23:26,898   creating build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,900   copying build/lib/coppafish/setup/notebook_comments.json -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,907   copying build/lib/coppafish/setup/dye_camera_laser_raw_intensity.csv -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,911   copying build/lib/coppafish/setup/settings.default.ini -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,917   copying build/lib/coppafish/setup/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,920   copying build/lib/coppafish/setup/file_names.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,924   copying build/lib/coppafish/setup/notebook.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,930   copying build/lib/coppafish/setup/tile_details.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,933   copying build/lib/coppafish/setup/config.py -> build/bdist.linux-armv7l/wheel/coppafish/setup
2022-08-22T19:23:26,939   creating build/bdist.linux-armv7l/wheel/coppafish/setup/test
2022-08-22T19:23:26,940   copying build/lib/coppafish/setup/test/test_notebook.py -> build/bdist.linux-armv7l/wheel/coppafish/setup/test
2022-08-22T19:23:26,945   copying build/lib/coppafish/setup/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/setup/test
2022-08-22T19:23:26,948   copying build/lib/coppafish/setup/test/test_tilepos.py -> build/bdist.linux-armv7l/wheel/coppafish/setup/test
2022-08-22T19:23:26,951   copying build/lib/coppafish/setup/test/test_config.py -> build/bdist.linux-armv7l/wheel/coppafish/setup/test
2022-08-22T19:23:26,956   creating build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,958   copying build/lib/coppafish/omp/spots.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,963   copying build/lib/coppafish/omp/base.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,966   copying build/lib/coppafish/omp/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,969   copying build/lib/coppafish/omp/coefs.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,974   copying build/lib/coppafish/omp/coefs_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/omp
2022-08-22T19:23:26,981   creating build/bdist.linux-armv7l/wheel/coppafish/omp/test
2022-08-22T19:23:26,982   copying build/lib/coppafish/omp/test/test_all.py -> build/bdist.linux-armv7l/wheel/coppafish/omp/test
2022-08-22T19:23:26,987   copying build/lib/coppafish/omp/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/omp/test
2022-08-22T19:23:26,990   copying build/lib/coppafish/omp/test/test_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/omp/test
2022-08-22T19:23:26,995   creating build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T19:23:26,997   copying build/lib/coppafish/spot_colors/base.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T19:23:27,001   copying build/lib/coppafish/spot_colors/base_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T19:23:27,006   copying build/lib/coppafish/spot_colors/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors
2022-08-22T19:23:27,010   creating build/bdist.linux-armv7l/wheel/coppafish/spot_colors/test
2022-08-22T19:23:27,011   copying build/lib/coppafish/spot_colors/test/test_spot_colors.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors/test
2022-08-22T19:23:27,016   copying build/lib/coppafish/spot_colors/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors/test
2022-08-22T19:23:27,019   copying build/lib/coppafish/spot_colors/test/data_initialise.py -> build/bdist.linux-armv7l/wheel/coppafish/spot_colors/test
2022-08-22T19:23:27,023   copying build/lib/coppafish/_version.py -> build/bdist.linux-armv7l/wheel/coppafish
2022-08-22T19:23:27,028   creating build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T19:23:27,029   copying build/lib/coppafish/register/base.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T19:23:27,035   copying build/lib/coppafish/register/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T19:23:27,038   copying build/lib/coppafish/register/check_transforms.py -> build/bdist.linux-armv7l/wheel/coppafish/register
2022-08-22T19:23:27,043   creating build/bdist.linux-armv7l/wheel/coppafish/register/test
2022-08-22T19:23:27,044   copying build/lib/coppafish/register/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/register/test
2022-08-22T19:23:27,048   copying build/lib/coppafish/register/test/test_base.py -> build/bdist.linux-armv7l/wheel/coppafish/register/test
2022-08-22T19:23:27,054   creating build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,056   copying build/lib/coppafish/utils/nd2.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,060   copying build/lib/coppafish/utils/base.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,063   copying build/lib/coppafish/utils/spot_images.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,068   copying build/lib/coppafish/utils/strel.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,072   copying build/lib/coppafish/utils/raw.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,076   copying build/lib/coppafish/utils/pciseq.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,079   copying build/lib/coppafish/utils/errors.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,083   copying build/lib/coppafish/utils/warnings.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,087   copying build/lib/coppafish/utils/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,090   copying build/lib/coppafish/utils/matlab.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,094   copying build/lib/coppafish/utils/npy.py -> build/bdist.linux-armv7l/wheel/coppafish/utils
2022-08-22T19:23:27,100   creating build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T19:23:27,102   copying build/lib/coppafish/utils/morphology/base.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T19:23:27,106   copying build/lib/coppafish/utils/morphology/filter_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T19:23:27,110   copying build/lib/coppafish/utils/morphology/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T19:23:27,113   copying build/lib/coppafish/utils/morphology/filter.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/morphology
2022-08-22T19:23:27,118   creating build/bdist.linux-armv7l/wheel/coppafish/utils/test
2022-08-22T19:23:27,120   copying build/lib/coppafish/utils/test/__init__.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/test
2022-08-22T19:23:27,123   copying build/lib/coppafish/utils/test/test_optimised.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/test
2022-08-22T19:23:27,126   copying build/lib/coppafish/utils/test/test_npy.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/test
2022-08-22T19:23:27,130   copying build/lib/coppafish/utils/test/test_morphology.py -> build/bdist.linux-armv7l/wheel/coppafish/utils/test
2022-08-22T19:23:27,134   running install_egg_info
2022-08-22T19:23:28,489   running egg_info
2022-08-22T19:23:29,145   writing coppafish.egg-info/PKG-INFO
2022-08-22T19:23:29,702   writing dependency_links to coppafish.egg-info/dependency_links.txt
2022-08-22T19:23:32,479   writing requirements to coppafish.egg-info/requires.txt
2022-08-22T19:23:33,034   writing top-level names to coppafish.egg-info/top_level.txt
2022-08-22T19:23:33,185   reading manifest file 'coppafish.egg-info/SOURCES.txt'
2022-08-22T19:23:33,196   adding license file 'LICENSE.md'
2022-08-22T19:23:33,216   writing manifest file 'coppafish.egg-info/SOURCES.txt'
2022-08-22T19:23:33,220   Copying coppafish.egg-info to build/bdist.linux-armv7l/wheel/coppafish-0.1.4-py3.9.egg-info
2022-08-22T19:23:33,244   running install_scripts
2022-08-22T19:23:33,456   adding license file "LICENSE.md" (matched pattern "LICEN[CS]E*")
2022-08-22T19:23:33,465   creating build/bdist.linux-armv7l/wheel/coppafish-0.1.4.dist-info/WHEEL
2022-08-22T19:23:33,470   creating '/tmp/pip-wheel-r_ulbj80/coppafish-0.1.4-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2022-08-22T19:23:33,475   adding 'coppafish/__init__.py'
2022-08-22T19:23:33,477   adding 'coppafish/__main__.py'
2022-08-22T19:23:33,479   adding 'coppafish/_version.py'
2022-08-22T19:23:33,483   adding 'coppafish/call_spots/__init__.py'
2022-08-22T19:23:33,485   adding 'coppafish/call_spots/background.py'
2022-08-22T19:23:33,488   adding 'coppafish/call_spots/background_optimised.py'
2022-08-22T19:23:33,493   adding 'coppafish/call_spots/base.py'
2022-08-22T19:23:33,498   adding 'coppafish/call_spots/bleed_matrix.py'
2022-08-22T19:23:33,501   adding 'coppafish/call_spots/dot_product.py'
2022-08-22T19:23:33,504   adding 'coppafish/call_spots/dot_product_optimised.py'
2022-08-22T19:23:33,507   adding 'coppafish/call_spots/qual_check.py'
2022-08-22T19:23:33,509   adding 'coppafish/call_spots/qual_check_optimised.py'
2022-08-22T19:23:33,512   adding 'coppafish/call_spots/test/__init__.py'
2022-08-22T19:23:33,515   adding 'coppafish/call_spots/test/test_base.py'
2022-08-22T19:23:33,518   adding 'coppafish/call_spots/test/test_bleed_matrix.py'
2022-08-22T19:23:33,521   adding 'coppafish/call_spots/test/test_optimised.py'
2022-08-22T19:23:33,525   adding 'coppafish/extract/__init__.py'
2022-08-22T19:23:33,528   adding 'coppafish/extract/base.py'
2022-08-22T19:23:33,532   adding 'coppafish/extract/deconvolution.py'
2022-08-22T19:23:33,535   adding 'coppafish/extract/fstack.py'
2022-08-22T19:23:33,541   adding 'coppafish/extract/scale.py'
2022-08-22T19:23:33,544   adding 'coppafish/extract/test/__init__.py'
2022-08-22T19:23:33,547   adding 'coppafish/extract/test/test_fstack.py'
2022-08-22T19:23:33,549   adding 'coppafish/extract/test/test_strip_hack.py'
2022-08-22T19:23:33,553   adding 'coppafish/find_spots/__init__.py'
2022-08-22T19:23:33,555   adding 'coppafish/find_spots/base.py'
2022-08-22T19:23:33,559   adding 'coppafish/find_spots/check_spots.py'
2022-08-22T19:23:33,562   adding 'coppafish/find_spots/detect.py'
2022-08-22T19:23:33,565   adding 'coppafish/find_spots/detect_optimised.py'
2022-08-22T19:23:33,568   adding 'coppafish/find_spots/test/__init__.py'
2022-08-22T19:23:33,571   adding 'coppafish/find_spots/test/random_spot.py'
2022-08-22T19:23:33,573   adding 'coppafish/find_spots/test/test_base.py'
2022-08-22T19:23:33,576   adding 'coppafish/find_spots/test/test_neighbour.py'
2022-08-22T19:23:33,579   adding 'coppafish/find_spots/test/test_optimised.py'
2022-08-22T19:23:33,582   adding 'coppafish/omp/__init__.py'
2022-08-22T19:23:33,584   adding 'coppafish/omp/base.py'
2022-08-22T19:23:33,591   adding 'coppafish/omp/coefs.py'
2022-08-22T19:23:33,598   adding 'coppafish/omp/coefs_optimised.py'
2022-08-22T19:23:33,604   adding 'coppafish/omp/spots.py'
2022-08-22T19:23:33,608   adding 'coppafish/omp/test/__init__.py'
2022-08-22T19:23:33,611   adding 'coppafish/omp/test/test_all.py'
2022-08-22T19:23:33,615   adding 'coppafish/omp/test/test_optimised.py'
2022-08-22T19:23:33,619   adding 'coppafish/pipeline/__init__.py'
2022-08-22T19:23:33,623   adding 'coppafish/pipeline/basic_info.py'
2022-08-22T19:23:33,628   adding 'coppafish/pipeline/call_reference_spots.py'
2022-08-22T19:23:33,634   adding 'coppafish/pipeline/extract_run.py'
2022-08-22T19:23:33,638   adding 'coppafish/pipeline/find_spots.py'
2022-08-22T19:23:33,641   adding 'coppafish/pipeline/get_reference_spots.py'
2022-08-22T19:23:33,647   adding 'coppafish/pipeline/omp.py'
2022-08-22T19:23:33,651   adding 'coppafish/pipeline/register.py'
2022-08-22T19:23:33,656   adding 'coppafish/pipeline/register_initial.py'
2022-08-22T19:23:33,661   adding 'coppafish/pipeline/run.py'
2022-08-22T19:23:33,665   adding 'coppafish/pipeline/stitch.py'
2022-08-22T19:23:33,668   adding 'coppafish/plot/__init__.py'
2022-08-22T19:23:33,671   adding 'coppafish/plot/raw.py'
2022-08-22T19:23:33,675   adding 'coppafish/plot/call_spots/__init__.py'
2022-08-22T19:23:33,679   adding 'coppafish/plot/call_spots/background.py'
2022-08-22T19:23:33,683   adding 'coppafish/plot/call_spots/bleed_matrix.py'
2022-08-22T19:23:33,688   adding 'coppafish/plot/call_spots/dot_product.py'
2022-08-22T19:23:33,694   adding 'coppafish/plot/call_spots/gene_counts.py'
2022-08-22T19:23:33,699   adding 'coppafish/plot/call_spots/scaled_k_means.py'
2022-08-22T19:23:33,703   adding 'coppafish/plot/call_spots/score_calc.py'
2022-08-22T19:23:33,710   adding 'coppafish/plot/call_spots/spot_colors.py'
2022-08-22T19:23:33,715   adding 'coppafish/plot/call_spots/weight.py'
2022-08-22T19:23:33,719   adding 'coppafish/plot/extract/__init__.py'
2022-08-22T19:23:33,722   adding 'coppafish/plot/extract/diagnostics.py'
2022-08-22T19:23:33,727   adding 'coppafish/plot/extract/viewer.py'
2022-08-22T19:23:33,730   adding 'coppafish/plot/find_spots/__init__.py'
2022-08-22T19:23:33,733   adding 'coppafish/plot/find_spots/n_spots.py'
2022-08-22T19:23:33,739   adding 'coppafish/plot/find_spots/viewer.py'
2022-08-22T19:23:33,744   adding 'coppafish/plot/omp/__init__.py'
2022-08-22T19:23:33,750   adding 'coppafish/plot/omp/coefs.py'
2022-08-22T19:23:33,756   adding 'coppafish/plot/omp/score_hist.py'
2022-08-22T19:23:33,760   adding 'coppafish/plot/omp/score_shape.py'
2022-08-22T19:23:33,763   adding 'coppafish/plot/omp/track_fit.py'
2022-08-22T19:23:33,767   adding 'coppafish/plot/register/__init__.py'
2022-08-22T19:23:33,770   adding 'coppafish/plot/register/diagnostics.py'
2022-08-22T19:23:33,776   adding 'coppafish/plot/register/icp.py'
2022-08-22T19:23:33,780   adding 'coppafish/plot/register/shift.py'
2022-08-22T19:23:33,783   adding 'coppafish/plot/results_viewer/__init__.py'
2022-08-22T19:23:33,790   adding 'coppafish/plot/results_viewer/base.py'
2022-08-22T19:23:33,794   adding 'coppafish/plot/results_viewer/cellClassColors.json'
2022-08-22T19:23:33,796   adding 'coppafish/plot/results_viewer/cell_color.csv'
2022-08-22T19:23:33,799   adding 'coppafish/plot/results_viewer/gene_color.csv'
2022-08-22T19:23:33,802   adding 'coppafish/plot/results_viewer/legend.py'
2022-08-22T19:23:33,806   adding 'coppafish/plot/stitch/__init__.py'
2022-08-22T19:23:33,810   adding 'coppafish/plot/stitch/diagnostics.py'
2022-08-22T19:23:33,815   adding 'coppafish/plot/stitch/point_clouds.py'
2022-08-22T19:23:33,820   adding 'coppafish/plot/stitch/shift.py'
2022-08-22T19:23:33,824   adding 'coppafish/register/__init__.py'
2022-08-22T19:23:33,830   adding 'coppafish/register/base.py'
2022-08-22T19:23:33,834   adding 'coppafish/register/check_transforms.py'
2022-08-22T19:23:33,837   adding 'coppafish/register/test/__init__.py'
2022-08-22T19:23:33,841   adding 'coppafish/register/test/test_base.py'
2022-08-22T19:23:33,845   adding 'coppafish/setup/__init__.py'
2022-08-22T19:23:33,849   adding 'coppafish/setup/config.py'
2022-08-22T19:23:33,855   adding 'coppafish/setup/dye_camera_laser_raw_intensity.csv'
2022-08-22T19:23:33,858   adding 'coppafish/setup/file_names.py'
2022-08-22T19:23:33,871   adding 'coppafish/setup/notebook.py'
2022-08-22T19:23:33,882   adding 'coppafish/setup/notebook_comments.json'
2022-08-22T19:23:33,895   adding 'coppafish/setup/settings.default.ini'
2022-08-22T19:23:33,899   adding 'coppafish/setup/tile_details.py'
2022-08-22T19:23:33,902   adding 'coppafish/setup/test/__init__.py'
2022-08-22T19:23:33,905   adding 'coppafish/setup/test/test_config.py'
2022-08-22T19:23:33,909   adding 'coppafish/setup/test/test_notebook.py'
2022-08-22T19:23:33,911   adding 'coppafish/setup/test/test_tilepos.py'
2022-08-22T19:23:33,915   adding 'coppafish/spot_colors/__init__.py'
2022-08-22T19:23:33,919   adding 'coppafish/spot_colors/base.py'
2022-08-22T19:23:33,923   adding 'coppafish/spot_colors/base_optimised.py'
2022-08-22T19:23:33,927   adding 'coppafish/spot_colors/test/__init__.py'
2022-08-22T19:23:33,930   adding 'coppafish/spot_colors/test/data_initialise.py'
2022-08-22T19:23:33,933   adding 'coppafish/spot_colors/test/test_spot_colors.py'
2022-08-22T19:23:33,937   adding 'coppafish/stitch/__init__.py'
2022-08-22T19:23:33,940   adding 'coppafish/stitch/check_shifts.py'
2022-08-22T19:23:33,948   adding 'coppafish/stitch/shift.py'
2022-08-22T19:23:33,951   adding 'coppafish/stitch/starting_shifts.py'
2022-08-22T19:23:33,954   adding 'coppafish/stitch/tile_origin.py'
2022-08-22T19:23:33,957   adding 'coppafish/stitch/test/__init__.py'
2022-08-22T19:23:33,961   adding 'coppafish/stitch/test/test_shift.py'
2022-08-22T19:23:33,964   adding 'coppafish/stitch/test/test_tile_origin.py'
2022-08-22T19:23:33,967   adding 'coppafish/utils/__init__.py'
2022-08-22T19:23:33,970   adding 'coppafish/utils/base.py'
2022-08-22T19:23:33,973   adding 'coppafish/utils/errors.py'
2022-08-22T19:23:33,977   adding 'coppafish/utils/matlab.py'
2022-08-22T19:23:33,980   adding 'coppafish/utils/nd2.py'
2022-08-22T19:23:33,985   adding 'coppafish/utils/npy.py'
2022-08-22T19:23:33,988   adding 'coppafish/utils/pciseq.py'
2022-08-22T19:23:33,991   adding 'coppafish/utils/raw.py'
2022-08-22T19:23:33,995   adding 'coppafish/utils/spot_images.py'
2022-08-22T19:23:33,999   adding 'coppafish/utils/strel.py'
2022-08-22T19:23:34,002   adding 'coppafish/utils/warnings.py'
2022-08-22T19:23:34,005   adding 'coppafish/utils/morphology/__init__.py'
2022-08-22T19:23:34,008   adding 'coppafish/utils/morphology/base.py'
2022-08-22T19:23:34,011   adding 'coppafish/utils/morphology/filter.py'
2022-08-22T19:23:34,014   adding 'coppafish/utils/morphology/filter_optimised.py'
2022-08-22T19:23:34,018   adding 'coppafish/utils/test/__init__.py'
2022-08-22T19:23:34,021   adding 'coppafish/utils/test/test_morphology.py'
2022-08-22T19:23:34,025   adding 'coppafish/utils/test/test_npy.py'
2022-08-22T19:23:34,028   adding 'coppafish/utils/test/test_optimised.py'
2022-08-22T19:23:34,032   adding 'coppafish-0.1.4.dist-info/LICENSE.md'
2022-08-22T19:23:34,034   adding 'coppafish-0.1.4.dist-info/METADATA'
2022-08-22T19:23:34,036   adding 'coppafish-0.1.4.dist-info/WHEEL'
2022-08-22T19:23:34,038   adding 'coppafish-0.1.4.dist-info/top_level.txt'
2022-08-22T19:23:34,044   adding 'coppafish-0.1.4.dist-info/RECORD'
2022-08-22T19:23:34,063   removing build/bdist.linux-armv7l/wheel
2022-08-22T19:23:34,406   Building wheel for coppafish (setup.py): finished with status 'done'
2022-08-22T19:23:34,422   Created wheel for coppafish: filename=coppafish-0.1.4-py3-none-any.whl size=322736 sha256=acd1cdc77a23ab61d39193990c09cc7e1ac2432de22c03e4d034f5e254dd6596
2022-08-22T19:23:34,425   Stored in directory: /tmp/pip-ephem-wheel-cache-ngjuc7hg/wheels/1b/92/79/abca486f42e8d187e774f2dc53dd02c9c85bfaea237da4b4db
2022-08-22T19:23:34,459 Successfully built coppafish
2022-08-22T19:23:34,490 Removed build tracker: '/tmp/pip-build-tracker-p2vxbflm'