2022-10-24T18:27:17,784 Created temporary directory: /tmp/pip-ephem-wheel-cache-2l4fcu9m 2022-10-24T18:27:17,789 Created temporary directory: /tmp/pip-build-tracker-7t8ykkhc 2022-10-24T18:27:17,790 Initialized build tracking at /tmp/pip-build-tracker-7t8ykkhc 2022-10-24T18:27:17,791 Created build tracker: /tmp/pip-build-tracker-7t8ykkhc 2022-10-24T18:27:17,791 Entered build tracker: /tmp/pip-build-tracker-7t8ykkhc 2022-10-24T18:27:17,792 Created temporary directory: /tmp/pip-wheel-2myyq9dq 2022-10-24T18:27:17,855 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-10-24T18:27:17,864 2 location(s) to search for versions of celltk2: 2022-10-24T18:27:17,864 * https://pypi.org/simple/celltk2/ 2022-10-24T18:27:17,864 * https://www.piwheels.org/simple/celltk2/ 2022-10-24T18:27:17,865 Fetching project page and analyzing links: https://pypi.org/simple/celltk2/ 2022-10-24T18:27:17,866 Getting page https://pypi.org/simple/celltk2/ 2022-10-24T18:27:17,869 Found index url https://pypi.org/simple 2022-10-24T18:27:17,992 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/ed/83/9f4882e169f9e3a0e94cb3b113f9d45d7b2c22ae3448fa5906093366a3a1/celltk2-0.4.0a0-py3-none-any.whl#sha256=14f4c7b1341a365e9feab2850c96e13d2b1ea5d8d17a0f17e52077baa126b9fd (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:17,994 Found link https://files.pythonhosted.org/packages/81/99/f32cd7145396be309d76b0159c57e5bf42424efa7c7309920823ce9d07fa/celltk2-0.4.0a0.tar.gz#sha256=74dc00488a8d8fc455b36f8fd84bdfe44600b9909dde8f6f3da0b21e82716222 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8), version: 0.4.0a0 2022-10-24T18:27:17,995 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/96/ef/2fa5812a59f2c7c6f4acb9f3ed5c532dc6b323a51ac15c9365f0fbf5ff5f/celltk2-0.4.0-py3-none-any.whl#sha256=389b63524bfb3902401aef3812e02a8598ebf60b565adc714808642299e002a6 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:17,996 Found link https://files.pythonhosted.org/packages/22/f4/c83a2ae22ab7676b54df22729ffb2f87896ad3350cceb6c21fcee1393af1/celltk2-0.4.0.tar.gz#sha256=1d18823e382d6c0cfb793feb2ed2275ac0dcf7ba793a105d5af907792dae6aed (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8), version: 0.4.0 2022-10-24T18:27:17,997 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/e2/30/0b53d24c5b9ad695b0b7b0725be4de60dd67419bfddd5f6ce3a708b20f02/celltk2-0.4.1-py3-none-any.whl#sha256=15c64413b8007cfa60a531ebe2667db893f578676fd7ebfc51696089a4008b0e (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:17,998 Found link https://files.pythonhosted.org/packages/78/c7/350c706f5ba707f2b59a1325ee39c108bc3811b971fdab623255ccaa052a/celltk2-0.4.1.tar.gz#sha256=c53797329df322c75af3dbdaf3d34dd6e879ee27a485fd4e45390f2790ed312c (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8), version: 0.4.1 2022-10-24T18:27:17,999 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/2c/40/3bb1c0cad1d671567680ac52f4ae01fb685ff632e524e1cb5d4ff168e1a6/celltk2-0.4.2-py3-none-any.whl#sha256=7ae070ee4f640e61aa872749020d283c5cb176fd736424f1cf8cab4b028e77e1 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,000 Found link https://files.pythonhosted.org/packages/e9/f9/04707142add1a66b233fa06478e81e649d8fac5dc0a01cb9ab8f0df8ba98/celltk2-0.4.2.tar.gz#sha256=440e29eb94cff30aa946c95b2d8deccdfdb880926754880cfb66cecb94597581 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8), version: 0.4.2 2022-10-24T18:27:18,001 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/00/11/d6df285a0e4bda814f9f76127e0000d25bd221baaf8e3b281f5f4f502d1a/celltk2-0.4.3b0-py3-none-any.whl#sha256=f062e6f08a98015d54bf352698de5c2d015f5c82302056ce0faa7d554465a951 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,002 Found link https://files.pythonhosted.org/packages/83/74/e615088a297ac7b9a7fdcdb15b1955e20b76e6207b11d1064425d4da49ee/celltk2-0.4.3b0.tar.gz#sha256=5b8c3933702e371f6cb89db8234ca67306827919c9796f66c73efe6d9a46d1a7 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.8), version: 0.4.3b0 2022-10-24T18:27:18,003 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/30/98/b823b0e81c337f4973421f95d145f13ede1bb6eb5a1a140867877c70d7e8/celltk2-0.4.3b1-py3-none-any.whl#sha256=c7a9a99cb411e8727c789ea685c118239f44e10b28f54741f792fbab06504601 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9) 2022-10-24T18:27:18,004 Found link https://files.pythonhosted.org/packages/36/16/cc08bd3e28e8081f15227b436e5c24d909256b238587fbb57655a49e4073/celltk2-0.4.3b1.tar.gz#sha256=4727382c029fed5ed3ed1db836c42707b707eab3e598a49bf2ee9ac1c5a7bf78 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9), version: 0.4.3b1 2022-10-24T18:27:18,005 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/3e/a1/c1457a1f209a590d5dd0ff16e531ade85f40df2471512c682867ad4a8785/celltk2-0.4.3b2-py3-none-any.whl#sha256=cf216f108e9dc2cd877780ff94a936f85dac95df3daaff35db91d09bc806bae0 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9) 2022-10-24T18:27:18,006 Found link https://files.pythonhosted.org/packages/09/8e/a790b1c0834a6d296ebf6ab8d81eaebcbe87100baf16f1bea99ef5c45bfa/celltk2-0.4.3b2.tar.gz#sha256=69b2a1d772d39459ecbd93d67c8ec08d3194fef552c72c5491e7828d57fe495f (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9), version: 0.4.3b2 2022-10-24T18:27:18,007 Skipping link: No binaries permitted for celltk2: https://files.pythonhosted.org/packages/e1/eb/9b74e9a303a21606053a180425d2087957548913513bb89f65941e916f22/celltk2-0.4.3b3-py3-none-any.whl#sha256=4cdee944a45960a98171ba0858e15d172cb02d928c654f5120751f470f6769e3 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9) 2022-10-24T18:27:18,008 Found link https://files.pythonhosted.org/packages/74/a9/a0584fcd6af8eb2c644aacd1cd097de4ae59ffd1b12bfdf4e6d27e097449/celltk2-0.4.3b3.tar.gz#sha256=109061065590017a1a3b8e083289164cdfe71a4323f311d876b3bc222a7d4f48 (from https://pypi.org/simple/celltk2/) (requires-python:>=3.9), version: 0.4.3b3 2022-10-24T18:27:18,009 Fetching project page and analyzing links: https://www.piwheels.org/simple/celltk2/ 2022-10-24T18:27:18,010 Getting page https://www.piwheels.org/simple/celltk2/ 2022-10-24T18:27:18,012 Found index url https://www.piwheels.org/simple 2022-10-24T18:27:18,270 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.3b2-py3-none-any.whl#sha256=f05a0f769130cd5e656e517c4afefcea6c0756f919874ebc09372fc77825b1bc (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.9) 2022-10-24T18:27:18,270 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.3b1-py3-none-any.whl#sha256=ffb12aab0fe9139f35de206b128929c86cc316f8a2953d2cc0a2eeccece6737c (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.9) 2022-10-24T18:27:18,271 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.3b0-py3-none-any.whl#sha256=e18728024f1e2e27ab04b432baec2c5bcf0a508ed2048f192b4383a3268f1d58 (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,271 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.2-py3-none-any.whl#sha256=c173997bd830fa0a97b9e2d2a20c3bc1f072e02a770565b72939c8926a307d8c (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,272 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.1-py3-none-any.whl#sha256=fa6b7fd862d4d4b473c7808dd0d80d8ac5096586ad0acfbe989d38f6b0ad0e66 (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,272 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.0-py3-none-any.whl#sha256=91b6c76a817162ea6e7f1a80f8a0079d51ac517258120c8e819a35ff3646dc4c (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,273 Skipping link: No binaries permitted for celltk2: https://www.piwheels.org/simple/celltk2/celltk2-0.4.0a0-py3-none-any.whl#sha256=103ddfed3505ea4150aded5a67adb295d476eba6c0f924fcc85f91dd98bd53bf (from https://www.piwheels.org/simple/celltk2/) (requires-python:>=3.8) 2022-10-24T18:27:18,273 Skipping link: not a file: https://www.piwheels.org/simple/celltk2/ 2022-10-24T18:27:18,274 Skipping link: not a file: https://pypi.org/simple/celltk2/ 2022-10-24T18:27:18,321 Given no hashes to check 1 links for project 'celltk2': discarding no candidates 2022-10-24T18:27:18,363 Collecting celltk2==0.4.3b3 2022-10-24T18:27:18,367 Created temporary directory: /tmp/pip-unpack-ejtsjhjx 2022-10-24T18:27:18,736 Downloading celltk2-0.4.3b3.tar.gz (7.0 MB) 2022-10-24T18:27:21,207 Added celltk2==0.4.3b3 from https://files.pythonhosted.org/packages/74/a9/a0584fcd6af8eb2c644aacd1cd097de4ae59ffd1b12bfdf4e6d27e097449/celltk2-0.4.3b3.tar.gz#sha256=109061065590017a1a3b8e083289164cdfe71a4323f311d876b3bc222a7d4f48 to build tracker '/tmp/pip-build-tracker-7t8ykkhc' 2022-10-24T18:27:21,216 Created temporary directory: /tmp/pip-build-env-53ifecgx 2022-10-24T18:27:21,237 Created temporary directory: /tmp/pip-standalone-pip-jl0c_vvf 2022-10-24T18:27:23,582 Installing build dependencies: started 2022-10-24T18:27:23,584 Running command pip subprocess to install build dependencies 2022-10-24T18:27:35,191 Using pip 22.1.2 from /tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip (python 3.9) 2022-10-24T18:27:37,282 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-10-24T18:27:41,431 Collecting setuptools>=42 2022-10-24T18:27:41,717 Using cached https://www.piwheels.org/simple/setuptools/setuptools-65.5.0-py3-none-any.whl (1.2 MB) 2022-10-24T18:27:53,365 Installing collected packages: setuptools 2022-10-24T18:27:58,984 Successfully installed setuptools-65.5.0 2022-10-24T18:27:59,192 --- Logging error --- 2022-10-24T18:27:59,208 Traceback (most recent call last): 2022-10-24T18:27:59,208 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/utils/logging.py", line 177, in emit 2022-10-24T18:27:59,209 self.console.print(renderable, overflow="ignore", crop=False, style=style) 2022-10-24T18:27:59,209 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_vendor/rich/console.py", line 1752, in print 2022-10-24T18:27:59,210 extend(render(renderable, render_options)) 2022-10-24T18:27:59,210 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_vendor/rich/console.py", line 1390, in render 2022-10-24T18:27:59,210 for render_output in iter_render: 2022-10-24T18:27:59,211 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/utils/logging.py", line 134, in __rich_console__ 2022-10-24T18:27:59,211 for line in lines: 2022-10-24T18:27:59,211 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_vendor/rich/segment.py", line 245, in split_lines 2022-10-24T18:27:59,211 for segment in segments: 2022-10-24T18:27:59,212 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_vendor/rich/console.py", line 1368, in render 2022-10-24T18:27:59,212 renderable = rich_cast(renderable) 2022-10-24T18:27:59,212 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_vendor/rich/protocol.py", line 36, in rich_cast 2022-10-24T18:27:59,213 renderable = cast_method() 2022-10-24T18:27:59,213 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 130, in __rich__ 2022-10-24T18:27:59,213 pip_cmd = get_best_invocation_for_this_pip() 2022-10-24T18:27:59,214 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/utils/entrypoints.py", line 58, in get_best_invocation_for_this_pip 2022-10-24T18:27:59,214 if found_executable and os.path.samefile( 2022-10-24T18:27:59,215 File "/usr/lib/python3.9/genericpath.py", line 101, in samefile 2022-10-24T18:27:59,215 s2 = os.stat(f2) 2022-10-24T18:27:59,215 FileNotFoundError: [Errno 2] No such file or directory: '/usr/bin/pip3.9' 2022-10-24T18:27:59,216 Call stack: 2022-10-24T18:27:59,219 File "/usr/lib/python3.9/runpy.py", line 197, in _run_module_as_main 2022-10-24T18:27:59,219 return _run_code(code, main_globals, None, 2022-10-24T18:27:59,219 File "/usr/lib/python3.9/runpy.py", line 87, in _run_code 2022-10-24T18:27:59,220 exec(code, run_globals) 2022-10-24T18:27:59,220 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/__main__.py", line 31, in 2022-10-24T18:27:59,220 sys.exit(_main()) 2022-10-24T18:27:59,221 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/cli/main.py", line 70, in main 2022-10-24T18:27:59,221 return command.main(cmd_args) 2022-10-24T18:27:59,221 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/cli/base_command.py", line 101, in main 2022-10-24T18:27:59,222 return self._main(args) 2022-10-24T18:27:59,222 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/cli/base_command.py", line 223, in _main 2022-10-24T18:27:59,222 self.handle_pip_version_check(options) 2022-10-24T18:27:59,223 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/cli/req_command.py", line 148, in handle_pip_version_check 2022-10-24T18:27:59,223 pip_self_version_check(session, options) 2022-10-24T18:27:59,223 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 237, in pip_self_version_check 2022-10-24T18:27:59,224 logger.info("[present-rich] %s", upgrade_prompt) 2022-10-24T18:27:59,224 File "/usr/lib/python3.9/logging/__init__.py", line 1442, in info 2022-10-24T18:27:59,224 self._log(INFO, msg, args, **kwargs) 2022-10-24T18:27:59,225 File "/usr/lib/python3.9/logging/__init__.py", line 1585, in _log 2022-10-24T18:27:59,225 self.handle(record) 2022-10-24T18:27:59,225 File "/usr/lib/python3.9/logging/__init__.py", line 1595, in handle 2022-10-24T18:27:59,226 self.callHandlers(record) 2022-10-24T18:27:59,226 File "/usr/lib/python3.9/logging/__init__.py", line 1657, in callHandlers 2022-10-24T18:27:59,226 hdlr.handle(record) 2022-10-24T18:27:59,226 File "/usr/lib/python3.9/logging/__init__.py", line 948, in handle 2022-10-24T18:27:59,227 self.emit(record) 2022-10-24T18:27:59,227 File "/tmp/pip-standalone-pip-jl0c_vvf/__env_pip__.zip/pip/_internal/utils/logging.py", line 179, in emit 2022-10-24T18:27:59,227 self.handleError(record) 2022-10-24T18:27:59,228 Message: '[present-rich] %s' 2022-10-24T18:27:59,228 Arguments: (UpgradePrompt(old='22.1.2', new='22.3'),) 2022-10-24T18:27:59,768 Installing build dependencies: finished with status 'done' 2022-10-24T18:27:59,796 Getting requirements to build wheel: started 2022-10-24T18:27:59,798 Running command Getting requirements to build wheel 2022-10-24T18:28:06,359 /usr/local/lib/python3.9/dist-packages/setuptools/config/pyprojecttoml.py:102: _ExperimentalProjectMetadata: Support for project metadata in `pyproject.toml` is still experimental and may be removed (or change) in future releases. 2022-10-24T18:28:06,361 warnings.warn(msg, _ExperimentalProjectMetadata) 2022-10-24T18:28:06,682 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:28:06,683 ########################################################################## 2022-10-24T18:28:06,684 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:28:06,684 ########################################################################## 2022-10-24T18:28:06,685 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:28:06,685 `dependencies = ['setuptools>=41.2.0', 'tensorflow>=2.7.0,<2.10.0 ; platform_machine != "arm64"', 'tensorflow-macos>=2.7.0,<2.10.0 ; platform_machine == "arm64"', 'numpy>=1.20,<1.23', 'scipy>=1.6.3', 'scikit_learn>=1.0.1', 'scikit_image>=0.19.1', 'matplotlib>=3.4.1', 'plotly>=5.6.0', 'pandas>=1.3.1', 'h5py>=3.6.0', 'imageio>=2.13.0', 'mahotas>=1.4.5,<1.4.13', 'PyYAML>=6.0', 'SimpleITK>=2.1.1', 'tifffile>=2021.11.2', 'colorcet~=3.0.0', 'seaborn~=0.11.2']` 2022-10-24T18:28:06,686 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:28:06,686 consider this value unless 'dependencies' is listed as `dynamic`. 2022-10-24T18:28:06,687 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:28:06,688 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:28:06,688 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:28:06,688 follow strictly the standard. 2022-10-24T18:28:06,689 To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively 2022-10-24T18:28:06,690 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:28:06,690 configuration. 2022-10-24T18:28:06,691 !! 2022-10-24T18:28:06,691 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:28:06,692 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:28:06,693 ########################################################################## 2022-10-24T18:28:06,693 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:28:06,693 ########################################################################## 2022-10-24T18:28:06,694 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:28:06,695 `optional-dependencies = {'test': ['pytest>=7.0', 'ipdb>=0.13'], 'btrack': ['btrack==0.4.2'], 'kit': ['gurobipy>=9.5.0', 'kvxopt~=1.3.0.2']}` 2022-10-24T18:28:06,695 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:28:06,696 consider this value unless 'optional-dependencies' is listed as `dynamic`. 2022-10-24T18:28:06,696 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:28:06,698 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:28:06,698 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:28:06,698 follow strictly the standard. 2022-10-24T18:28:06,699 To prevent this warning, you can list 'optional-dependencies' under `dynamic` or alternatively 2022-10-24T18:28:06,700 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:28:06,700 configuration. 2022-10-24T18:28:06,701 !! 2022-10-24T18:28:06,702 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:28:08,331 running egg_info 2022-10-24T18:28:08,917 writing celltk2.egg-info/PKG-INFO 2022-10-24T18:28:09,530 writing dependency_links to celltk2.egg-info/dependency_links.txt 2022-10-24T18:28:12,286 writing requirements to celltk2.egg-info/requires.txt 2022-10-24T18:28:12,840 writing top-level names to celltk2.egg-info/top_level.txt 2022-10-24T18:28:13,467 package init file 'celltk/core/__init__.py' not found (or not a regular file) 2022-10-24T18:28:13,525 reading manifest file 'celltk2.egg-info/SOURCES.txt' 2022-10-24T18:28:13,531 adding license file 'LICENSE' 2022-10-24T18:28:13,541 writing manifest file 'celltk2.egg-info/SOURCES.txt' 2022-10-24T18:28:13,840 Getting requirements to build wheel: finished with status 'done' 2022-10-24T18:28:13,868 Created temporary directory: /tmp/pip-standalone-pip-lc3iiff_ 2022-10-24T18:28:16,090 Installing backend dependencies: started 2022-10-24T18:28:16,092 Running command pip subprocess to install backend dependencies 2022-10-24T18:28:27,394 Using pip 22.1.2 from /tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip (python 3.9) 2022-10-24T18:28:29,485 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-10-24T18:28:30,371 Collecting wheel 2022-10-24T18:28:30,405 Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB) 2022-10-24T18:28:41,356 Installing collected packages: wheel 2022-10-24T18:28:41,650 Creating /tmp/pip-build-env-53ifecgx/normal/bin 2022-10-24T18:28:41,655 changing mode of /tmp/pip-build-env-53ifecgx/normal/bin/wheel to 755 2022-10-24T18:28:41,682 Successfully installed wheel-0.37.1 2022-10-24T18:28:41,892 --- Logging error --- 2022-10-24T18:28:41,908 Traceback (most recent call last): 2022-10-24T18:28:41,909 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/utils/logging.py", line 177, in emit 2022-10-24T18:28:41,909 self.console.print(renderable, overflow="ignore", crop=False, style=style) 2022-10-24T18:28:41,910 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_vendor/rich/console.py", line 1752, in print 2022-10-24T18:28:41,910 extend(render(renderable, render_options)) 2022-10-24T18:28:41,911 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_vendor/rich/console.py", line 1390, in render 2022-10-24T18:28:41,911 for render_output in iter_render: 2022-10-24T18:28:41,911 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/utils/logging.py", line 134, in __rich_console__ 2022-10-24T18:28:41,912 for line in lines: 2022-10-24T18:28:41,912 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_vendor/rich/segment.py", line 245, in split_lines 2022-10-24T18:28:41,912 for segment in segments: 2022-10-24T18:28:41,913 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_vendor/rich/console.py", line 1368, in render 2022-10-24T18:28:41,913 renderable = rich_cast(renderable) 2022-10-24T18:28:41,914 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_vendor/rich/protocol.py", line 36, in rich_cast 2022-10-24T18:28:41,914 renderable = cast_method() 2022-10-24T18:28:41,914 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 130, in __rich__ 2022-10-24T18:28:41,915 pip_cmd = get_best_invocation_for_this_pip() 2022-10-24T18:28:41,915 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/utils/entrypoints.py", line 58, in get_best_invocation_for_this_pip 2022-10-24T18:28:41,915 if found_executable and os.path.samefile( 2022-10-24T18:28:41,917 File "/usr/lib/python3.9/genericpath.py", line 101, in samefile 2022-10-24T18:28:41,917 s2 = os.stat(f2) 2022-10-24T18:28:41,918 FileNotFoundError: [Errno 2] No such file or directory: '/usr/bin/pip3.9' 2022-10-24T18:28:41,918 Call stack: 2022-10-24T18:28:41,927 File "/usr/lib/python3.9/runpy.py", line 197, in _run_module_as_main 2022-10-24T18:28:41,928 return _run_code(code, main_globals, None, 2022-10-24T18:28:41,928 File "/usr/lib/python3.9/runpy.py", line 87, in _run_code 2022-10-24T18:28:41,929 exec(code, run_globals) 2022-10-24T18:28:41,929 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/__main__.py", line 31, in 2022-10-24T18:28:41,929 sys.exit(_main()) 2022-10-24T18:28:41,930 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/cli/main.py", line 70, in main 2022-10-24T18:28:41,930 return command.main(cmd_args) 2022-10-24T18:28:41,930 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/cli/base_command.py", line 101, in main 2022-10-24T18:28:41,930 return self._main(args) 2022-10-24T18:28:41,931 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/cli/base_command.py", line 223, in _main 2022-10-24T18:28:41,931 self.handle_pip_version_check(options) 2022-10-24T18:28:41,931 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/cli/req_command.py", line 148, in handle_pip_version_check 2022-10-24T18:28:41,932 pip_self_version_check(session, options) 2022-10-24T18:28:41,932 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/self_outdated_check.py", line 237, in pip_self_version_check 2022-10-24T18:28:41,932 logger.info("[present-rich] %s", upgrade_prompt) 2022-10-24T18:28:41,933 File "/usr/lib/python3.9/logging/__init__.py", line 1442, in info 2022-10-24T18:28:41,933 self._log(INFO, msg, args, **kwargs) 2022-10-24T18:28:41,933 File "/usr/lib/python3.9/logging/__init__.py", line 1585, in _log 2022-10-24T18:28:41,933 self.handle(record) 2022-10-24T18:28:41,934 File "/usr/lib/python3.9/logging/__init__.py", line 1595, in handle 2022-10-24T18:28:41,934 self.callHandlers(record) 2022-10-24T18:28:41,934 File "/usr/lib/python3.9/logging/__init__.py", line 1657, in callHandlers 2022-10-24T18:28:41,935 hdlr.handle(record) 2022-10-24T18:28:41,935 File "/usr/lib/python3.9/logging/__init__.py", line 948, in handle 2022-10-24T18:28:41,935 self.emit(record) 2022-10-24T18:28:41,935 File "/tmp/pip-standalone-pip-lc3iiff_/__env_pip__.zip/pip/_internal/utils/logging.py", line 179, in emit 2022-10-24T18:28:41,936 self.handleError(record) 2022-10-24T18:28:41,936 Message: '[present-rich] %s' 2022-10-24T18:28:41,936 Arguments: (UpgradePrompt(old='22.1.2', new='22.3'),) 2022-10-24T18:28:42,411 Installing backend dependencies: finished with status 'done' 2022-10-24T18:28:42,434 Created temporary directory: /tmp/pip-modern-metadata-46jv0912 2022-10-24T18:28:42,440 Preparing metadata (pyproject.toml): started 2022-10-24T18:28:42,442 Running command Preparing metadata (pyproject.toml) 2022-10-24T18:28:48,979 /usr/local/lib/python3.9/dist-packages/setuptools/config/pyprojecttoml.py:102: _ExperimentalProjectMetadata: Support for project metadata in `pyproject.toml` is still experimental and may be removed (or change) in future releases. 2022-10-24T18:28:48,980 warnings.warn(msg, _ExperimentalProjectMetadata) 2022-10-24T18:28:49,294 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:28:49,295 ########################################################################## 2022-10-24T18:28:49,296 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:28:49,296 ########################################################################## 2022-10-24T18:28:49,296 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:28:49,297 `dependencies = ['setuptools>=41.2.0', 'tensorflow>=2.7.0,<2.10.0 ; platform_machine != "arm64"', 'tensorflow-macos>=2.7.0,<2.10.0 ; platform_machine == "arm64"', 'numpy>=1.20,<1.23', 'scipy>=1.6.3', 'scikit_learn>=1.0.1', 'scikit_image>=0.19.1', 'matplotlib>=3.4.1', 'plotly>=5.6.0', 'pandas>=1.3.1', 'h5py>=3.6.0', 'imageio>=2.13.0', 'mahotas>=1.4.5,<1.4.13', 'PyYAML>=6.0', 'SimpleITK>=2.1.1', 'tifffile>=2021.11.2', 'colorcet~=3.0.0', 'seaborn~=0.11.2']` 2022-10-24T18:28:49,298 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:28:49,298 consider this value unless 'dependencies' is listed as `dynamic`. 2022-10-24T18:28:49,299 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:28:49,299 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:28:49,300 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:28:49,300 follow strictly the standard. 2022-10-24T18:28:49,301 To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively 2022-10-24T18:28:49,301 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:28:49,301 configuration. 2022-10-24T18:28:49,302 !! 2022-10-24T18:28:49,303 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:28:49,303 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:28:49,304 ########################################################################## 2022-10-24T18:28:49,304 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:28:49,305 ########################################################################## 2022-10-24T18:28:49,305 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:28:49,306 `optional-dependencies = {'test': ['pytest>=7.0', 'ipdb>=0.13'], 'btrack': ['btrack==0.4.2'], 'kit': ['gurobipy>=9.5.0', 'kvxopt~=1.3.0.2']}` 2022-10-24T18:28:49,307 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:28:49,307 consider this value unless 'optional-dependencies' is listed as `dynamic`. 2022-10-24T18:28:49,307 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:28:49,308 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:28:49,308 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:28:49,309 follow strictly the standard. 2022-10-24T18:28:49,309 To prevent this warning, you can list 'optional-dependencies' under `dynamic` or alternatively 2022-10-24T18:28:49,310 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:28:49,310 configuration. 2022-10-24T18:28:49,311 !! 2022-10-24T18:28:49,311 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:28:51,017 running dist_info 2022-10-24T18:28:51,614 creating /tmp/pip-modern-metadata-46jv0912/celltk2.egg-info 2022-10-24T18:28:52,256 writing /tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/PKG-INFO 2022-10-24T18:28:52,815 writing dependency_links to /tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/dependency_links.txt 2022-10-24T18:28:55,586 writing requirements to /tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/requires.txt 2022-10-24T18:28:56,148 writing top-level names to /tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/top_level.txt 2022-10-24T18:28:56,151 writing manifest file '/tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/SOURCES.txt' 2022-10-24T18:28:56,787 package init file 'celltk/core/__init__.py' not found (or not a regular file) 2022-10-24T18:28:56,836 reading manifest file '/tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/SOURCES.txt' 2022-10-24T18:28:56,839 adding license file 'LICENSE' 2022-10-24T18:28:56,847 writing manifest file '/tmp/pip-modern-metadata-46jv0912/celltk2.egg-info/SOURCES.txt' 2022-10-24T18:28:56,849 creating '/tmp/pip-modern-metadata-46jv0912/celltk2-0.4.3b3.dist-info' 2022-10-24T18:28:57,056 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2022-10-24T18:28:57,375 Preparing metadata (pyproject.toml): finished with status 'done' 2022-10-24T18:28:57,390 Source in /tmp/pip-wheel-2myyq9dq/celltk2_d8414ceccdd54b148ffce22d347597f8 has version 0.4.3b3, which satisfies requirement celltk2==0.4.3b3 from https://files.pythonhosted.org/packages/74/a9/a0584fcd6af8eb2c644aacd1cd097de4ae59ffd1b12bfdf4e6d27e097449/celltk2-0.4.3b3.tar.gz#sha256=109061065590017a1a3b8e083289164cdfe71a4323f311d876b3bc222a7d4f48 2022-10-24T18:28:57,392 Removed celltk2==0.4.3b3 from https://files.pythonhosted.org/packages/74/a9/a0584fcd6af8eb2c644aacd1cd097de4ae59ffd1b12bfdf4e6d27e097449/celltk2-0.4.3b3.tar.gz#sha256=109061065590017a1a3b8e083289164cdfe71a4323f311d876b3bc222a7d4f48 from build tracker '/tmp/pip-build-tracker-7t8ykkhc' 2022-10-24T18:28:57,406 Created temporary directory: /tmp/pip-unpack-1vbkdab9 2022-10-24T18:28:57,407 Building wheels for collected packages: celltk2 2022-10-24T18:28:57,416 Created temporary directory: /tmp/pip-wheel-ckcx03ij 2022-10-24T18:28:57,417 Destination directory: /tmp/pip-wheel-ckcx03ij 2022-10-24T18:28:57,422 Building wheel for celltk2 (pyproject.toml): started 2022-10-24T18:28:57,424 Running command Building wheel for celltk2 (pyproject.toml) 2022-10-24T18:29:04,230 /usr/local/lib/python3.9/dist-packages/setuptools/config/pyprojecttoml.py:102: _ExperimentalProjectMetadata: Support for project metadata in `pyproject.toml` is still experimental and may be removed (or change) in future releases. 2022-10-24T18:29:04,232 warnings.warn(msg, _ExperimentalProjectMetadata) 2022-10-24T18:29:04,546 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:29:04,547 ########################################################################## 2022-10-24T18:29:04,548 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:29:04,548 ########################################################################## 2022-10-24T18:29:04,549 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:29:04,550 `dependencies = ['setuptools>=41.2.0', 'tensorflow>=2.7.0,<2.10.0 ; platform_machine != "arm64"', 'tensorflow-macos>=2.7.0,<2.10.0 ; platform_machine == "arm64"', 'numpy>=1.20,<1.23', 'scipy>=1.6.3', 'scikit_learn>=1.0.1', 'scikit_image>=0.19.1', 'matplotlib>=3.4.1', 'plotly>=5.6.0', 'pandas>=1.3.1', 'h5py>=3.6.0', 'imageio>=2.13.0', 'mahotas>=1.4.5,<1.4.13', 'PyYAML>=6.0', 'SimpleITK>=2.1.1', 'tifffile>=2021.11.2', 'colorcet~=3.0.0', 'seaborn~=0.11.2']` 2022-10-24T18:29:04,550 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:29:04,551 consider this value unless 'dependencies' is listed as `dynamic`. 2022-10-24T18:29:04,551 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:29:04,552 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:29:04,552 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:29:04,552 follow strictly the standard. 2022-10-24T18:29:04,553 To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively 2022-10-24T18:29:04,553 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:29:04,554 configuration. 2022-10-24T18:29:04,554 !! 2022-10-24T18:29:04,555 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:29:04,555 /usr/local/lib/python3.9/dist-packages/setuptools/config/_apply_pyprojecttoml.py:101: _WouldIgnoreField: !! 2022-10-24T18:29:04,556 ########################################################################## 2022-10-24T18:29:04,557 # configuration would be ignored/result in error due to `pyproject.toml` # 2022-10-24T18:29:04,557 ########################################################################## 2022-10-24T18:29:04,558 The following seems to be defined outside of `pyproject.toml`: 2022-10-24T18:29:04,558 `optional-dependencies = {'test': ['pytest>=7.0', 'ipdb>=0.13'], 'btrack': ['btrack==0.4.2'], 'kit': ['gurobipy>=9.5.0', 'kvxopt~=1.3.0.2']}` 2022-10-24T18:29:04,559 According to the spec (see the link bellow), however, setuptools CANNOT 2022-10-24T18:29:04,559 consider this value unless 'optional-dependencies' is listed as `dynamic`. 2022-10-24T18:29:04,560 https://packaging.python.org/en/latest/specifications/declaring-project-metadata/ 2022-10-24T18:29:04,560 For the time being, `setuptools` will still consider the given value (as a 2022-10-24T18:29:04,561 **transitional** measure), but please note that future releases of setuptools will 2022-10-24T18:29:04,561 follow strictly the standard. 2022-10-24T18:29:04,562 To prevent this warning, you can list 'optional-dependencies' under `dynamic` or alternatively 2022-10-24T18:29:04,562 remove the `[project]` table from your file and rely entirely on other means of 2022-10-24T18:29:04,562 configuration. 2022-10-24T18:29:04,563 !! 2022-10-24T18:29:04,564 warnings.warn(msg, _WouldIgnoreField) 2022-10-24T18:29:05,747 running bdist_wheel 2022-10-24T18:29:06,418 running build 2022-10-24T18:29:06,418 running build_py 2022-10-24T18:29:07,008 creating build 2022-10-24T18:29:07,009 creating build/lib 2022-10-24T18:29:07,010 creating build/lib/celltk 2022-10-24T18:29:07,011 creating build/lib/celltk/external 2022-10-24T18:29:07,013 creating build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,015 copying celltk/external/kit_sch_ge/run_tracking.py -> build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,018 copying celltk/external/kit_sch_ge/config.py -> build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,022 copying celltk/external/kit_sch_ge/create_synth_segm_data.py -> build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,027 copying celltk/external/kit_sch_ge/__init__.py -> build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,030 copying celltk/external/kit_sch_ge/setup.py -> build/lib/celltk/external/kit_sch_ge 2022-10-24T18:29:07,033 package init file 'celltk/core/__init__.py' not found (or not a regular file) 2022-10-24T18:29:07,035 creating build/lib/celltk/core 2022-10-24T18:29:07,037 copying celltk/core/operation.py -> build/lib/celltk/core 2022-10-24T18:29:07,043 copying celltk/core/pipeline.py -> build/lib/celltk/core 2022-10-24T18:29:07,049 copying celltk/core/orchestrator.py -> build/lib/celltk/core 2022-10-24T18:29:07,055 copying celltk/core/arrays.py -> build/lib/celltk/core 2022-10-24T18:29:07,065 creating build/lib/celltk/utils 2022-10-24T18:29:07,067 copying celltk/utils/operation_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,074 copying celltk/utils/process_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,077 copying celltk/utils/_types.py -> build/lib/celltk/utils 2022-10-24T18:29:07,081 copying celltk/utils/filter_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,086 copying celltk/utils/peak_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,091 copying celltk/utils/bayes_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,095 copying celltk/utils/plot_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,104 copying celltk/utils/kit_sch_ge_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,109 copying celltk/utils/slurm_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,115 copying celltk/utils/estimator_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,119 copying celltk/utils/__init__.py -> build/lib/celltk/utils 2022-10-24T18:29:07,122 copying celltk/utils/_fastkde.py -> build/lib/celltk/utils 2022-10-24T18:29:07,126 copying celltk/utils/cli_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,130 copying celltk/utils/unet_model.py -> build/lib/celltk/utils 2022-10-24T18:29:07,135 copying celltk/utils/log_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,138 copying celltk/utils/metric_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,142 copying celltk/utils/file_utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,145 copying celltk/utils/utils.py -> build/lib/celltk/utils 2022-10-24T18:29:07,151 copying celltk/track.py -> build/lib/celltk 2022-10-24T18:29:07,156 copying celltk/extract.py -> build/lib/celltk 2022-10-24T18:29:07,160 copying celltk/segment.py -> build/lib/celltk 2022-10-24T18:29:07,166 copying celltk/evaluate.py -> build/lib/celltk 2022-10-24T18:29:07,169 copying celltk/__init__.py -> build/lib/celltk 2022-10-24T18:29:07,172 copying celltk/process.py -> build/lib/celltk 2022-10-24T18:29:07,179 creating build/lib/celltk/external/misic 2022-10-24T18:29:07,180 copying celltk/external/misic/__init__.py -> build/lib/celltk/external/misic 2022-10-24T18:29:07,183 copying celltk/external/misic/misic.py -> build/lib/celltk/external/misic 2022-10-24T18:29:07,186 copying celltk/external/misic/extras.py -> build/lib/celltk/external/misic 2022-10-24T18:29:07,189 copying celltk/external/misic/utils.py -> build/lib/celltk/external/misic 2022-10-24T18:29:07,195 creating build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,196 copying celltk/external/kit_sch_ge/tracker/export.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,201 copying celltk/external/kit_sch_ge/tracker/graph.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,208 copying celltk/external/kit_sch_ge/tracker/tracking.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,213 copying celltk/external/kit_sch_ge/tracker/__init__.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,215 copying celltk/external/kit_sch_ge/tracker/postprocessing.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,221 copying celltk/external/kit_sch_ge/tracker/extract_data.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,225 copying celltk/external/kit_sch_ge/tracker/flow.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,228 copying celltk/external/kit_sch_ge/tracker/split_objects.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,232 copying celltk/external/kit_sch_ge/tracker/utils.py -> build/lib/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:07,235 running egg_info 2022-10-24T18:29:08,449 writing celltk2.egg-info/PKG-INFO 2022-10-24T18:29:08,999 writing dependency_links to celltk2.egg-info/dependency_links.txt 2022-10-24T18:29:11,749 writing requirements to celltk2.egg-info/requires.txt 2022-10-24T18:29:12,296 writing top-level names to celltk2.egg-info/top_level.txt 2022-10-24T18:29:12,351 reading manifest file 'celltk2.egg-info/SOURCES.txt' 2022-10-24T18:29:12,357 adding license file 'LICENSE' 2022-10-24T18:29:12,366 writing manifest file 'celltk2.egg-info/SOURCES.txt' 2022-10-24T18:29:12,372 copying celltk/external/misic/MiSiCv2.h5 -> build/lib/celltk/external/misic 2022-10-24T18:29:13,911 installing to build/bdist.linux-armv7l/wheel 2022-10-24T18:29:13,911 running install 2022-10-24T18:29:13,972 running install_lib 2022-10-24T18:29:14,557 creating build/bdist.linux-armv7l 2022-10-24T18:29:14,557 creating build/bdist.linux-armv7l/wheel 2022-10-24T18:29:14,561 creating build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:14,563 copying build/lib/celltk/track.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:14,570 creating build/bdist.linux-armv7l/wheel/celltk/external 2022-10-24T18:29:14,572 creating build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,574 copying build/lib/celltk/external/kit_sch_ge/run_tracking.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,579 copying build/lib/celltk/external/kit_sch_ge/config.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,582 copying build/lib/celltk/external/kit_sch_ge/create_synth_segm_data.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,588 copying build/lib/celltk/external/kit_sch_ge/__init__.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,592 creating build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,594 copying build/lib/celltk/external/kit_sch_ge/tracker/export.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,598 copying build/lib/celltk/external/kit_sch_ge/tracker/graph.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,604 copying build/lib/celltk/external/kit_sch_ge/tracker/tracking.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,609 copying build/lib/celltk/external/kit_sch_ge/tracker/__init__.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,612 copying build/lib/celltk/external/kit_sch_ge/tracker/postprocessing.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,618 copying build/lib/celltk/external/kit_sch_ge/tracker/extract_data.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,621 copying build/lib/celltk/external/kit_sch_ge/tracker/flow.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,624 copying build/lib/celltk/external/kit_sch_ge/tracker/split_objects.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,629 copying build/lib/celltk/external/kit_sch_ge/tracker/utils.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge/tracker 2022-10-24T18:29:14,632 copying build/lib/celltk/external/kit_sch_ge/setup.py -> build/bdist.linux-armv7l/wheel/celltk/external/kit_sch_ge 2022-10-24T18:29:14,637 creating build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,638 copying build/lib/celltk/external/misic/MiSiCv2.h5 -> build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,973 copying build/lib/celltk/external/misic/__init__.py -> build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,976 copying build/lib/celltk/external/misic/misic.py -> build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,980 copying build/lib/celltk/external/misic/extras.py -> build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,983 copying build/lib/celltk/external/misic/utils.py -> build/bdist.linux-armv7l/wheel/celltk/external/misic 2022-10-24T18:29:14,987 copying build/lib/celltk/extract.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:14,992 copying build/lib/celltk/segment.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:14,998 copying build/lib/celltk/evaluate.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:15,001 copying build/lib/celltk/__init__.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:15,005 creating build/bdist.linux-armv7l/wheel/celltk/core 2022-10-24T18:29:15,006 copying build/lib/celltk/core/operation.py -> build/bdist.linux-armv7l/wheel/celltk/core 2022-10-24T18:29:15,014 copying build/lib/celltk/core/pipeline.py -> build/bdist.linux-armv7l/wheel/celltk/core 2022-10-24T18:29:15,021 copying build/lib/celltk/core/orchestrator.py -> build/bdist.linux-armv7l/wheel/celltk/core 2022-10-24T18:29:15,025 copying build/lib/celltk/core/arrays.py -> build/bdist.linux-armv7l/wheel/celltk/core 2022-10-24T18:29:15,032 copying build/lib/celltk/process.py -> build/bdist.linux-armv7l/wheel/celltk 2022-10-24T18:29:15,039 creating build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,040 copying build/lib/celltk/utils/operation_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,045 copying build/lib/celltk/utils/process_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,049 copying build/lib/celltk/utils/_types.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,052 copying build/lib/celltk/utils/filter_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,056 copying build/lib/celltk/utils/peak_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,061 copying build/lib/celltk/utils/bayes_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,064 copying build/lib/celltk/utils/plot_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,073 copying build/lib/celltk/utils/kit_sch_ge_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,077 copying build/lib/celltk/utils/slurm_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,082 copying build/lib/celltk/utils/estimator_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,086 copying build/lib/celltk/utils/__init__.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,089 copying build/lib/celltk/utils/_fastkde.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,092 copying build/lib/celltk/utils/cli_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,096 copying build/lib/celltk/utils/unet_model.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,102 copying build/lib/celltk/utils/log_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,105 copying build/lib/celltk/utils/metric_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,109 copying build/lib/celltk/utils/file_utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,113 copying build/lib/celltk/utils/utils.py -> build/bdist.linux-armv7l/wheel/celltk/utils 2022-10-24T18:29:15,117 running install_egg_info 2022-10-24T18:29:15,695 Copying celltk2.egg-info to build/bdist.linux-armv7l/wheel/celltk2-0.4.3b3-py3.9.egg-info 2022-10-24T18:29:15,717 running install_scripts 2022-10-24T18:29:15,827 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2022-10-24T18:29:15,837 creating build/bdist.linux-armv7l/wheel/celltk2-0.4.3b3.dist-info/WHEEL 2022-10-24T18:29:15,842 creating '/tmp/pip-wheel-ckcx03ij/tmp5ixhcmyv/celltk2-0.4.3b3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-10-24T18:29:15,847 adding 'celltk/__init__.py' 2022-10-24T18:29:15,850 adding 'celltk/evaluate.py' 2022-10-24T18:29:15,856 adding 'celltk/extract.py' 2022-10-24T18:29:15,864 adding 'celltk/process.py' 2022-10-24T18:29:15,876 adding 'celltk/segment.py' 2022-10-24T18:29:15,884 adding 'celltk/track.py' 2022-10-24T18:29:15,903 adding 'celltk/core/arrays.py' 2022-10-24T18:29:15,917 adding 'celltk/core/operation.py' 2022-10-24T18:29:15,925 adding 'celltk/core/orchestrator.py' 2022-10-24T18:29:15,935 adding 'celltk/core/pipeline.py' 2022-10-24T18:29:15,940 adding 'celltk/external/kit_sch_ge/__init__.py' 2022-10-24T18:29:15,942 adding 'celltk/external/kit_sch_ge/config.py' 2022-10-24T18:29:15,950 adding 'celltk/external/kit_sch_ge/create_synth_segm_data.py' 2022-10-24T18:29:15,953 adding 'celltk/external/kit_sch_ge/run_tracking.py' 2022-10-24T18:29:15,955 adding 'celltk/external/kit_sch_ge/setup.py' 2022-10-24T18:29:15,959 adding 'celltk/external/kit_sch_ge/tracker/__init__.py' 2022-10-24T18:29:15,963 adding 'celltk/external/kit_sch_ge/tracker/export.py' 2022-10-24T18:29:15,965 adding 'celltk/external/kit_sch_ge/tracker/extract_data.py' 2022-10-24T18:29:15,968 adding 'celltk/external/kit_sch_ge/tracker/flow.py' 2022-10-24T18:29:15,981 adding 'celltk/external/kit_sch_ge/tracker/graph.py' 2022-10-24T18:29:15,992 adding 'celltk/external/kit_sch_ge/tracker/postprocessing.py' 2022-10-24T18:29:15,996 adding 'celltk/external/kit_sch_ge/tracker/split_objects.py' 2022-10-24T18:29:16,002 adding 'celltk/external/kit_sch_ge/tracker/tracking.py' 2022-10-24T18:29:16,005 adding 'celltk/external/kit_sch_ge/tracker/utils.py' 2022-10-24T18:29:18,786 adding 'celltk/external/misic/MiSiCv2.h5' 2022-10-24T18:29:18,936 adding 'celltk/external/misic/__init__.py' 2022-10-24T18:29:18,939 adding 'celltk/external/misic/extras.py' 2022-10-24T18:29:18,941 adding 'celltk/external/misic/misic.py' 2022-10-24T18:29:18,945 adding 'celltk/external/misic/utils.py' 2022-10-24T18:29:18,949 adding 'celltk/utils/__init__.py' 2022-10-24T18:29:18,952 adding 'celltk/utils/_fastkde.py' 2022-10-24T18:29:18,955 adding 'celltk/utils/_types.py' 2022-10-24T18:29:18,957 adding 'celltk/utils/bayes_utils.py' 2022-10-24T18:29:18,960 adding 'celltk/utils/cli_utils.py' 2022-10-24T18:29:18,963 adding 'celltk/utils/estimator_utils.py' 2022-10-24T18:29:18,966 adding 'celltk/utils/file_utils.py' 2022-10-24T18:29:18,969 adding 'celltk/utils/filter_utils.py' 2022-10-24T18:29:18,972 adding 'celltk/utils/kit_sch_ge_utils.py' 2022-10-24T18:29:18,975 adding 'celltk/utils/log_utils.py' 2022-10-24T18:29:18,978 adding 'celltk/utils/metric_utils.py' 2022-10-24T18:29:18,988 adding 'celltk/utils/operation_utils.py' 2022-10-24T18:29:18,994 adding 'celltk/utils/peak_utils.py' 2022-10-24T18:29:19,016 adding 'celltk/utils/plot_utils.py' 2022-10-24T18:29:19,020 adding 'celltk/utils/process_utils.py' 2022-10-24T18:29:19,028 adding 'celltk/utils/slurm_utils.py' 2022-10-24T18:29:19,036 adding 'celltk/utils/unet_model.py' 2022-10-24T18:29:19,042 adding 'celltk/utils/utils.py' 2022-10-24T18:29:19,047 adding 'celltk2-0.4.3b3.dist-info/LICENSE' 2022-10-24T18:29:19,049 adding 'celltk2-0.4.3b3.dist-info/METADATA' 2022-10-24T18:29:19,051 adding 'celltk2-0.4.3b3.dist-info/WHEEL' 2022-10-24T18:29:19,053 adding 'celltk2-0.4.3b3.dist-info/top_level.txt' 2022-10-24T18:29:19,055 adding 'celltk2-0.4.3b3.dist-info/RECORD' 2022-10-24T18:29:19,319 removing build/bdist.linux-armv7l/wheel 2022-10-24T18:29:19,666 Building wheel for celltk2 (pyproject.toml): finished with status 'done' 2022-10-24T18:29:20,086 Created wheel for celltk2: filename=celltk2-0.4.3b3-py3-none-any.whl size=6967340 sha256=ee318114552e9f9af444fdd450eaddeaa99316981617e9f2ddc744d440bf55fe 2022-10-24T18:29:20,088 Stored in directory: /tmp/pip-ephem-wheel-cache-2l4fcu9m/wheels/97/14/3c/30d29c59caeff576e6017e7f3de0f6dbb0d8b4a2d2856091ca 2022-10-24T18:29:20,122 Successfully built celltk2 2022-10-24T18:29:20,575 Removed build tracker: '/tmp/pip-build-tracker-7t8ykkhc'