2023-01-11T23:50:22,774 Created temporary directory: /tmp/pip-ephem-wheel-cache-05bi1pdy
2023-01-11T23:50:22,776 Created temporary directory: /tmp/pip-build-tracker-p_5t9wda
2023-01-11T23:50:22,776 Initialized build tracking at /tmp/pip-build-tracker-p_5t9wda
2023-01-11T23:50:22,776 Created build tracker: /tmp/pip-build-tracker-p_5t9wda
2023-01-11T23:50:22,776 Entered build tracker: /tmp/pip-build-tracker-p_5t9wda
2023-01-11T23:50:22,777 Created temporary directory: /tmp/pip-wheel-wttund9s
2023-01-11T23:50:22,780 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2023-01-11T23:50:22,782 Created temporary directory: /tmp/pip-ephem-wheel-cache-sdiov32s
2023-01-11T23:50:22,809 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-01-11T23:50:22,812 2 location(s) to search for versions of patato:
2023-01-11T23:50:22,812 * https://pypi.org/simple/patato/
2023-01-11T23:50:22,812 * https://www.piwheels.org/simple/patato/
2023-01-11T23:50:22,812 Fetching project page and analyzing links: https://pypi.org/simple/patato/
2023-01-11T23:50:22,813 Getting page https://pypi.org/simple/patato/
2023-01-11T23:50:22,814 Found index url https://pypi.org/simple
2023-01-11T23:50:22,865 Fetched page https://pypi.org/simple/patato/ as application/vnd.pypi.simple.v1+json
2023-01-11T23:50:22,866   Skipping link: No binaries permitted for patato: https://files.pythonhosted.org/packages/69/30/7d14f41c143d685841ad0c0788c30e0892e776853e1c9020c9f7fea4aef7/patato-0.0.1-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/patato/) (requires-python:>=3.9)
2023-01-11T23:50:22,867   Found link https://files.pythonhosted.org/packages/9b/4b/7ffa180db6c465df6e974b4be1f547b0553c0182ed054fec2cd2042067c4/patato-0.0.1.tar.gz (from https://pypi.org/simple/patato/) (requires-python:>=3.9), version: 0.0.1
2023-01-11T23:50:22,868 Fetching project page and analyzing links: https://www.piwheels.org/simple/patato/
2023-01-11T23:50:22,868 Getting page https://www.piwheels.org/simple/patato/
2023-01-11T23:50:22,869 Found index url https://www.piwheels.org/simple
2023-01-11T23:50:23,054 Fetched page https://www.piwheels.org/simple/patato/ as text/html
2023-01-11T23:50:23,055 Skipping link: not a file: https://www.piwheels.org/simple/patato/
2023-01-11T23:50:23,055 Skipping link: not a file: https://pypi.org/simple/patato/
2023-01-11T23:50:23,073 Given no hashes to check 1 links for project 'patato': discarding no candidates
2023-01-11T23:50:23,090 Collecting patato==0.0.1
2023-01-11T23:50:23,092   Created temporary directory: /tmp/pip-unpack-1sg_e9w3
2023-01-11T23:50:23,315   Downloading patato-0.0.1.tar.gz (108 kB)
2023-01-11T23:50:23,647   Added patato==0.0.1 from https://files.pythonhosted.org/packages/9b/4b/7ffa180db6c465df6e974b4be1f547b0553c0182ed054fec2cd2042067c4/patato-0.0.1.tar.gz to build tracker '/tmp/pip-build-tracker-p_5t9wda'
2023-01-11T23:50:23,652   Created temporary directory: /tmp/pip-build-env-4fmch5hs
2023-01-11T23:50:23,660   Installing build dependencies: started
2023-01-11T23:50:23,661   Running command pip subprocess to install build dependencies
2023-01-11T23:50:24,865   Using pip 22.3 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9)
2023-01-11T23:50:25,262   DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2023-01-11T23:50:25,287   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-01-11T23:50:26,976   Collecting setuptools
2023-01-11T23:50:27,089     Using cached https://www.piwheels.org/simple/setuptools/setuptools-65.7.0-py3-none-any.whl (1.2 MB)
2023-01-11T23:50:27,423   Collecting wheel
2023-01-11T23:50:27,441     Using cached https://www.piwheels.org/simple/wheel/wheel-0.38.4-py3-none-any.whl (36 kB)
2023-01-11T23:50:28,745   Collecting cython
2023-01-11T23:50:29,368     Using cached https://www.piwheels.org/simple/cython/Cython-0.29.33-cp39-cp39-linux_armv7l.whl (5.0 MB)
2023-01-11T23:50:29,800   Collecting pybind11
2023-01-11T23:50:29,842     Using cached https://www.piwheels.org/simple/pybind11/pybind11-2.10.3-py3-none-any.whl (222 kB)
2023-01-11T23:50:31,874   Installing collected packages: wheel, setuptools, pybind11, cython
2023-01-11T23:50:32,076     Creating /tmp/pip-build-env-4fmch5hs/overlay/bin
2023-01-11T23:50:32,079     changing mode of /tmp/pip-build-env-4fmch5hs/overlay/bin/wheel to 755
2023-01-11T23:50:34,784     changing mode of /tmp/pip-build-env-4fmch5hs/overlay/bin/pybind11-config to 755
2023-01-11T23:50:37,593     changing mode of /tmp/pip-build-env-4fmch5hs/overlay/bin/cygdb to 755
2023-01-11T23:50:37,596     changing mode of /tmp/pip-build-env-4fmch5hs/overlay/bin/cython to 755
2023-01-11T23:50:37,598     changing mode of /tmp/pip-build-env-4fmch5hs/overlay/bin/cythonize to 755
2023-01-11T23:50:37,624   Successfully installed cython-0.29.33 pybind11-2.10.3 setuptools-65.7.0 wheel-0.38.4

2023-01-11T23:50:37,639   [notice] A new release of pip available: 22.3 -> 22.3.1
2023-01-11T23:50:37,639   [notice] To update, run: python3 -m pip install --upgrade pip
2023-01-11T23:50:37,960   Installing build dependencies: finished with status 'done'
2023-01-11T23:50:37,966   Getting requirements to build wheel: started
2023-01-11T23:50:37,967   Running command Getting requirements to build wheel
2023-01-11T23:50:38,868   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'entry-points' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:38,868       !!


2023-01-11T23:50:38,869       ##########################################################################
2023-01-11T23:50:38,869       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:38,869       ##########################################################################

2023-01-11T23:50:38,870       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:38,870       `entry-points = {'console_scripts': ['msot-import-ithera = patato.convenience_scripts.convert_binary_to_hdf5:main', 'msot-draw-roi = patato.convenience_scripts.draw_roi:main', 'msot-set-speed-of-sound = patato.convenience_scripts.tune_speed_of_sound:main', 'msot-copy-roi = patato.convenience_scripts.copy_rois:main', 'msot-generate-masks = patato.convenience_scripts.generate_masks:main', 'msot-import-clinical = patato.convenience_scripts.import_clinical_data:main', 'msot-import-ithera-recons = patato.convenience_scripts.import_ithera_recons:main', 'msot-print-speeds = patato.convenience_scripts.print_speeds:main', 'msot-rename-scans = patato.convenience_scripts.rename_scan:main', 'msot-scan-status = patato.convenience_scripts.scan_status:main', 'msot-unmix = patato.convenience_scripts.unmix:main', 'msot-view = patato.convenience_scripts.view:main', 'msot-reconstruct = patato.convenience_scripts.process_msot:main', 'msot-analyse-dce = patato.convenience_scripts.data_analysis.analyse_dce:main', 'msot-analyse-gc = patato.convenience_scripts.data_analysis.analyse_gas_challenge:main', 'msot-split-rois = patato.convenience_scripts.split_rois:main', 'msot-generate-core = patato.convenience_scripts.generate_core:main', 'msot-convert-simpa = patato.convenience_scripts.convert_simpa:main']}`

2023-01-11T23:50:38,870       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:38,870       consider this value unless 'entry-points' is listed as `dynamic`.

2023-01-11T23:50:38,871       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:38,871       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:38,871       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:38,871       follow strictly the standard.

2023-01-11T23:50:38,871       To prevent this warning, you can list 'entry-points' under `dynamic` or alternatively
2023-01-11T23:50:38,872       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:38,872       configuration.


2023-01-11T23:50:38,872   !!

2023-01-11T23:50:38,872     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:38,873   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'dependencies' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:38,873       !!


2023-01-11T23:50:38,873       ##########################################################################
2023-01-11T23:50:38,873       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:38,873       ##########################################################################

2023-01-11T23:50:38,874       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:38,874       `dependencies = ['requests', 'cython', 'shapely', 'pylops', 'h5py', 'typing_extensions', 'seaborn', 'pandas', 'scikit-learn', 'scikit-fda', 'xarray', 'numpy', 'scipy', 'tabulate', 'matplotlib', 'pyopencl', 'matplotlib_scalebar', 'dask', 'pybind11', 'pydata-sphinx-theme', 'jax', 'simpa']`

2023-01-11T23:50:38,874       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:38,874       consider this value unless 'dependencies' is listed as `dynamic`.

2023-01-11T23:50:38,874       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:38,875       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:38,875       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:38,875       follow strictly the standard.

2023-01-11T23:50:38,875       To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively
2023-01-11T23:50:38,875       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:38,876       configuration.


2023-01-11T23:50:38,876   !!

2023-01-11T23:50:38,876     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:39,351   running egg_info
2023-01-11T23:50:39,358   writing patato.egg-info/PKG-INFO
2023-01-11T23:50:39,360   writing dependency_links to patato.egg-info/dependency_links.txt
2023-01-11T23:50:39,363   writing entry points to patato.egg-info/entry_points.txt
2023-01-11T23:50:39,365   writing requirements to patato.egg-info/requires.txt
2023-01-11T23:50:39,366   writing top-level names to patato.egg-info/top_level.txt
2023-01-11T23:50:39,411   reading manifest file 'patato.egg-info/SOURCES.txt'
2023-01-11T23:50:39,416   adding license file 'LICENSE.md'
2023-01-11T23:50:39,423   writing manifest file 'patato.egg-info/SOURCES.txt'
2023-01-11T23:50:39,574   Getting requirements to build wheel: finished with status 'done'
2023-01-11T23:50:39,586   Created temporary directory: /tmp/pip-modern-metadata-uj8mzxcn
2023-01-11T23:50:39,588   Preparing metadata (pyproject.toml): started
2023-01-11T23:50:39,589   Running command Preparing metadata (pyproject.toml)
2023-01-11T23:50:40,433   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'entry-points' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:40,434       !!


2023-01-11T23:50:40,434       ##########################################################################
2023-01-11T23:50:40,434       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:40,435       ##########################################################################

2023-01-11T23:50:40,435       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:40,435       `entry-points = {'console_scripts': ['msot-import-ithera = patato.convenience_scripts.convert_binary_to_hdf5:main', 'msot-draw-roi = patato.convenience_scripts.draw_roi:main', 'msot-set-speed-of-sound = patato.convenience_scripts.tune_speed_of_sound:main', 'msot-copy-roi = patato.convenience_scripts.copy_rois:main', 'msot-generate-masks = patato.convenience_scripts.generate_masks:main', 'msot-import-clinical = patato.convenience_scripts.import_clinical_data:main', 'msot-import-ithera-recons = patato.convenience_scripts.import_ithera_recons:main', 'msot-print-speeds = patato.convenience_scripts.print_speeds:main', 'msot-rename-scans = patato.convenience_scripts.rename_scan:main', 'msot-scan-status = patato.convenience_scripts.scan_status:main', 'msot-unmix = patato.convenience_scripts.unmix:main', 'msot-view = patato.convenience_scripts.view:main', 'msot-reconstruct = patato.convenience_scripts.process_msot:main', 'msot-analyse-dce = patato.convenience_scripts.data_analysis.analyse_dce:main', 'msot-analyse-gc = patato.convenience_scripts.data_analysis.analyse_gas_challenge:main', 'msot-split-rois = patato.convenience_scripts.split_rois:main', 'msot-generate-core = patato.convenience_scripts.generate_core:main', 'msot-convert-simpa = patato.convenience_scripts.convert_simpa:main']}`

2023-01-11T23:50:40,435       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:40,435       consider this value unless 'entry-points' is listed as `dynamic`.

2023-01-11T23:50:40,436       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:40,436       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:40,436       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:40,436       follow strictly the standard.

2023-01-11T23:50:40,437       To prevent this warning, you can list 'entry-points' under `dynamic` or alternatively
2023-01-11T23:50:40,437       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:40,437       configuration.


2023-01-11T23:50:40,437   !!

2023-01-11T23:50:40,438     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:40,438   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'dependencies' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:40,438       !!


2023-01-11T23:50:40,438       ##########################################################################
2023-01-11T23:50:40,438       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:40,439       ##########################################################################

2023-01-11T23:50:40,439       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:40,439       `dependencies = ['requests', 'cython', 'shapely', 'pylops', 'h5py', 'typing_extensions', 'seaborn', 'pandas', 'scikit-learn', 'scikit-fda', 'xarray', 'numpy', 'scipy', 'tabulate', 'matplotlib', 'pyopencl', 'matplotlib_scalebar', 'dask', 'pybind11', 'pydata-sphinx-theme', 'jax', 'simpa']`

2023-01-11T23:50:40,439       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:40,439       consider this value unless 'dependencies' is listed as `dynamic`.

2023-01-11T23:50:40,440       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:40,440       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:40,440       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:40,440       follow strictly the standard.

2023-01-11T23:50:40,440       To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively
2023-01-11T23:50:40,440       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:40,441       configuration.


2023-01-11T23:50:40,441   !!

2023-01-11T23:50:40,441     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:40,894   running dist_info
2023-01-11T23:50:40,901   creating /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info
2023-01-11T23:50:40,907   writing /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/PKG-INFO
2023-01-11T23:50:40,909   writing dependency_links to /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/dependency_links.txt
2023-01-11T23:50:40,912   writing entry points to /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/entry_points.txt
2023-01-11T23:50:40,914   writing requirements to /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/requires.txt
2023-01-11T23:50:40,915   writing top-level names to /tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/top_level.txt
2023-01-11T23:50:40,917   writing manifest file '/tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/SOURCES.txt'
2023-01-11T23:50:40,958   reading manifest file '/tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/SOURCES.txt'
2023-01-11T23:50:40,962   adding license file 'LICENSE.md'
2023-01-11T23:50:40,968   writing manifest file '/tmp/pip-modern-metadata-uj8mzxcn/patato.egg-info/SOURCES.txt'
2023-01-11T23:50:40,969   creating '/tmp/pip-modern-metadata-uj8mzxcn/patato-0.0.1.dist-info'
2023-01-11T23:50:41,177   Preparing metadata (pyproject.toml): finished with status 'done'
2023-01-11T23:50:41,184   Source in /tmp/pip-wheel-wttund9s/patato_932222e6b3514d89a6d246d9e38adf83 has version 0.0.1, which satisfies requirement patato==0.0.1 from https://files.pythonhosted.org/packages/9b/4b/7ffa180db6c465df6e974b4be1f547b0553c0182ed054fec2cd2042067c4/patato-0.0.1.tar.gz
2023-01-11T23:50:41,185   Removed patato==0.0.1 from https://files.pythonhosted.org/packages/9b/4b/7ffa180db6c465df6e974b4be1f547b0553c0182ed054fec2cd2042067c4/patato-0.0.1.tar.gz from build tracker '/tmp/pip-build-tracker-p_5t9wda'
2023-01-11T23:50:41,191 Created temporary directory: /tmp/pip-unpack-gzclspnc
2023-01-11T23:50:41,192 Building wheels for collected packages: patato
2023-01-11T23:50:41,197   Created temporary directory: /tmp/pip-wheel-eu2jbijg
2023-01-11T23:50:41,197   Destination directory: /tmp/pip-wheel-eu2jbijg
2023-01-11T23:50:41,200   Building wheel for patato (pyproject.toml): started
2023-01-11T23:50:41,201   Running command Building wheel for patato (pyproject.toml)
2023-01-11T23:50:41,999   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'entry-points' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:42,000       !!


2023-01-11T23:50:42,000       ##########################################################################
2023-01-11T23:50:42,000       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:42,000       ##########################################################################

2023-01-11T23:50:42,001       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:42,001       `entry-points = {'console_scripts': ['msot-import-ithera = patato.convenience_scripts.convert_binary_to_hdf5:main', 'msot-draw-roi = patato.convenience_scripts.draw_roi:main', 'msot-set-speed-of-sound = patato.convenience_scripts.tune_speed_of_sound:main', 'msot-copy-roi = patato.convenience_scripts.copy_rois:main', 'msot-generate-masks = patato.convenience_scripts.generate_masks:main', 'msot-import-clinical = patato.convenience_scripts.import_clinical_data:main', 'msot-import-ithera-recons = patato.convenience_scripts.import_ithera_recons:main', 'msot-print-speeds = patato.convenience_scripts.print_speeds:main', 'msot-rename-scans = patato.convenience_scripts.rename_scan:main', 'msot-scan-status = patato.convenience_scripts.scan_status:main', 'msot-unmix = patato.convenience_scripts.unmix:main', 'msot-view = patato.convenience_scripts.view:main', 'msot-reconstruct = patato.convenience_scripts.process_msot:main', 'msot-analyse-dce = patato.convenience_scripts.data_analysis.analyse_dce:main', 'msot-analyse-gc = patato.convenience_scripts.data_analysis.analyse_gas_challenge:main', 'msot-split-rois = patato.convenience_scripts.split_rois:main', 'msot-generate-core = patato.convenience_scripts.generate_core:main', 'msot-convert-simpa = patato.convenience_scripts.convert_simpa:main']}`

2023-01-11T23:50:42,001       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:42,001       consider this value unless 'entry-points' is listed as `dynamic`.

2023-01-11T23:50:42,002       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:42,002       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:42,002       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:42,002       follow strictly the standard.

2023-01-11T23:50:42,003       To prevent this warning, you can list 'entry-points' under `dynamic` or alternatively
2023-01-11T23:50:42,003       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:42,003       configuration.


2023-01-11T23:50:42,003   !!

2023-01-11T23:50:42,004     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:42,004   /tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:103: _WouldIgnoreField: 'dependencies' defined outside of `pyproject.toml` would be ignored.
2023-01-11T23:50:42,004       !!


2023-01-11T23:50:42,004       ##########################################################################
2023-01-11T23:50:42,004       # configuration would be ignored/result in error due to `pyproject.toml` #
2023-01-11T23:50:42,004       ##########################################################################

2023-01-11T23:50:42,005       The following seems to be defined outside of `pyproject.toml`:

2023-01-11T23:50:42,005       `dependencies = ['requests', 'cython', 'shapely', 'pylops', 'h5py', 'typing_extensions', 'seaborn', 'pandas', 'scikit-learn', 'scikit-fda', 'xarray', 'numpy', 'scipy', 'tabulate', 'matplotlib', 'pyopencl', 'matplotlib_scalebar', 'dask', 'pybind11', 'pydata-sphinx-theme', 'jax', 'simpa']`

2023-01-11T23:50:42,005       According to the spec (see the link below), however, setuptools CANNOT
2023-01-11T23:50:42,005       consider this value unless 'dependencies' is listed as `dynamic`.

2023-01-11T23:50:42,006       https://packaging.python.org/en/latest/specifications/declaring-project-metadata/

2023-01-11T23:50:42,006       For the time being, `setuptools` will still consider the given value (as a
2023-01-11T23:50:42,006       **transitional** measure), but please note that future releases of setuptools will
2023-01-11T23:50:42,006       follow strictly the standard.

2023-01-11T23:50:42,006       To prevent this warning, you can list 'dependencies' under `dynamic` or alternatively
2023-01-11T23:50:42,006       remove the `[project]` table from your file and rely entirely on other means of
2023-01-11T23:50:42,007       configuration.


2023-01-11T23:50:42,007   !!

2023-01-11T23:50:42,007     warnings.warn(msg, _WouldIgnoreField)
2023-01-11T23:50:42,446   running bdist_wheel
2023-01-11T23:50:42,464   running build
2023-01-11T23:50:42,465   running build_py
2023-01-11T23:50:42,470   creating build
2023-01-11T23:50:42,471   creating build/lib.linux-armv7l-cpython-39
2023-01-11T23:50:42,472   creating build/lib.linux-armv7l-cpython-39/patato
2023-01-11T23:50:42,473   copying patato/__init__.py -> build/lib.linux-armv7l-cpython-39/patato
2023-01-11T23:50:42,476   creating build/lib.linux-armv7l-cpython-39/patato/unmixing
2023-01-11T23:50:42,477   copying patato/unmixing/unmixer.py -> build/lib.linux-armv7l-cpython-39/patato/unmixing
2023-01-11T23:50:42,479   copying patato/unmixing/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/unmixing
2023-01-11T23:50:42,482   creating build/lib.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,483   copying patato/recon/backprojection_opencl.py -> build/lib.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,485   copying patato/recon/reconstruction_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,488   copying patato/recon/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,490   copying patato/recon/backprojection_reference.py -> build/lib.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,492   creating build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,493   copying patato/processing/processing_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,495   copying patato/processing/preprocessing_types.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,497   copying patato/processing/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,499   copying patato/processing/jax_preprocessing_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,501   copying patato/processing/preprocessing_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,504   copying patato/processing/gpu_preprocessing_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/processing
2023-01-11T23:50:42,508   creating build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,509   copying patato/convenience_scripts/import_ithera_recons.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,511   copying patato/convenience_scripts/print_speeds.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,513   copying patato/convenience_scripts/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,515   copying patato/convenience_scripts/convert_simpa.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,517   copying patato/convenience_scripts/convert_binary_to_hdf5.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,519   copying patato/convenience_scripts/copy_rois.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,521   copying patato/convenience_scripts/tune_speed_of_sound.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,524   copying patato/convenience_scripts/unmix.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,526   copying patato/convenience_scripts/split_rois.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,528   copying patato/convenience_scripts/generate_masks.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,530   copying patato/convenience_scripts/import_clinical_data.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,532   copying patato/convenience_scripts/process_msot.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,534   copying patato/convenience_scripts/scan_status.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,536   copying patato/convenience_scripts/draw_roi.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,539   copying patato/convenience_scripts/generate_core.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,541   copying patato/convenience_scripts/view.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,543   copying patato/convenience_scripts/rename_scan.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts
2023-01-11T23:50:42,546   creating build/lib.linux-armv7l-cpython-39/patato/core
2023-01-11T23:50:42,547   copying patato/core/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/core
2023-01-11T23:50:42,549   copying patato/core/data_array.py -> build/lib.linux-armv7l-cpython-39/patato/core
2023-01-11T23:50:42,552   creating build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,553   copying patato/utils/plotting.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,555   copying patato/utils/run_pipeline.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,557   copying patato/utils/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,559   copying patato/utils/process_study.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,561   copying patato/utils/roi_operations.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,563   copying patato/utils/mask_operations.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,565   copying patato/utils/time_series_analysis.py -> build/lib.linux-armv7l-cpython-39/patato/utils
2023-01-11T23:50:42,568   creating build/lib.linux-armv7l-cpython-39/patato/io
2023-01-11T23:50:42,569   copying patato/io/msot_data.py -> build/lib.linux-armv7l-cpython-39/patato/io
2023-01-11T23:50:42,572   copying patato/io/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io
2023-01-11T23:50:42,574   copying patato/io/attribute_tags.py -> build/lib.linux-armv7l-cpython-39/patato/io
2023-01-11T23:50:42,576   copying patato/io/hdf5_converter.py -> build/lib.linux-armv7l-cpython-39/patato/io
2023-01-11T23:50:42,579   creating build/lib.linux-armv7l-cpython-39/patato/bohndieklab_utilities
2023-01-11T23:50:42,579   copying patato/bohndieklab_utilities/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/bohndieklab_utilities
2023-01-11T23:50:42,582   creating build/lib.linux-armv7l-cpython-39/patato/data
2023-01-11T23:50:42,583   copying patato/data/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/data
2023-01-11T23:50:42,586   creating build/lib.linux-armv7l-cpython-39/patato/unmixing/tests
2023-01-11T23:50:42,587   copying patato/unmixing/tests/unmixing_test.py -> build/lib.linux-armv7l-cpython-39/patato/unmixing/tests
2023-01-11T23:50:42,590   copying patato/unmixing/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/unmixing/tests
2023-01-11T23:50:42,592   creating build/lib.linux-armv7l-cpython-39/patato/recon/tests
2023-01-11T23:50:42,593   copying patato/recon/tests/backprojection_test.py -> build/lib.linux-armv7l-cpython-39/patato/recon/tests
2023-01-11T23:50:42,595   copying patato/recon/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/recon/tests
2023-01-11T23:50:42,597   copying patato/recon/tests/model_based_test.py -> build/lib.linux-armv7l-cpython-39/patato/recon/tests
2023-01-11T23:50:42,599   creating build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_implementation
2023-01-11T23:50:42,600   copying patato/recon/backprojection_implementation/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_implementation
2023-01-11T23:50:42,602   copying patato/recon/backprojection_implementation/jax_implementation.py -> build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_implementation
2023-01-11T23:50:42,605   creating build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,606   copying patato/recon/model_based/cuda_implementation_refraction.py -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,608   copying patato/recon/model_based/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,610   copying patato/recon/model_based/cuda_implementation.py -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,612   copying patato/recon/model_based/numpy_implementation.py -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,615   copying patato/recon/model_based/model_based.py -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,618   creating build/lib.linux-armv7l-cpython-39/patato/processing/tests
2023-01-11T23:50:42,619   copying patato/processing/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/processing/tests
2023-01-11T23:50:42,621   copying patato/processing/tests/preprocessing_algorithm.py -> build/lib.linux-armv7l-cpython-39/patato/processing/tests
2023-01-11T23:50:42,623   creating build/lib.linux-armv7l-cpython-39/patato/processing/spectra
2023-01-11T23:50:42,624   copying patato/processing/spectra/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra
2023-01-11T23:50:42,628   creating build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,629   copying patato/convenience_scripts/data_analysis/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,631   copying patato/convenience_scripts/data_analysis/analyse_dce_old.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,633   copying patato/convenience_scripts/data_analysis/analyse_dce.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,635   copying patato/convenience_scripts/data_analysis/analyse_gas_challenge.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,637   copying patato/convenience_scripts/data_analysis/functional_analysis.py -> build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis
2023-01-11T23:50:42,641   creating build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,642   copying patato/core/image_structures/single_parameter_data.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,644   copying patato/core/image_structures/pa_fourier_data.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,646   copying patato/core/image_structures/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,647   copying patato/core/image_structures/unmixed_image.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,649   copying patato/core/image_structures/reconstruction_image.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,651   copying patato/core/image_structures/pa_raw_data.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,653   copying patato/core/image_structures/image_structure_types.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,655   copying patato/core/image_structures/image_sequence.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,658   copying patato/core/image_structures/pa_time_data.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,660   copying patato/core/image_structures/single_image.py -> build/lib.linux-armv7l-cpython-39/patato/core/image_structures
2023-01-11T23:50:42,662   creating build/lib.linux-armv7l-cpython-39/patato/utils/tests
2023-01-11T23:50:42,663   copying patato/utils/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/utils/tests
2023-01-11T23:50:42,665   copying patato/utils/tests/pipline_tests.py -> build/lib.linux-armv7l-cpython-39/patato/utils/tests
2023-01-11T23:50:42,668   creating build/lib.linux-armv7l-cpython-39/patato/utils/rois
2023-01-11T23:50:42,669   copying patato/utils/rois/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/utils/rois
2023-01-11T23:50:42,671   copying patato/utils/rois/roi_type.py -> build/lib.linux-armv7l-cpython-39/patato/utils/rois
2023-01-11T23:50:42,673   creating build/lib.linux-armv7l-cpython-39/patato/io/ipasc
2023-01-11T23:50:42,674   copying patato/io/ipasc/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/ipasc
2023-01-11T23:50:42,676   copying patato/io/ipasc/ipasc_export.py -> build/lib.linux-armv7l-cpython-39/patato/io/ipasc
2023-01-11T23:50:42,679   creating build/lib.linux-armv7l-cpython-39/patato/io/tests
2023-01-11T23:50:42,680   copying patato/io/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/tests
2023-01-11T23:50:42,682   copying patato/io/tests/test_msot_data.py -> build/lib.linux-armv7l-cpython-39/patato/io/tests
2023-01-11T23:50:42,684   creating build/lib.linux-armv7l-cpython-39/patato/io/ithera
2023-01-11T23:50:42,685   copying patato/io/ithera/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/ithera
2023-01-11T23:50:42,687   copying patato/io/ithera/read_ithera.py -> build/lib.linux-armv7l-cpython-39/patato/io/ithera
2023-01-11T23:50:42,690   creating build/lib.linux-armv7l-cpython-39/patato/io/json
2023-01-11T23:50:42,691   copying patato/io/json/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/json
2023-01-11T23:50:42,693   copying patato/io/json/json_reading.py -> build/lib.linux-armv7l-cpython-39/patato/io/json
2023-01-11T23:50:42,696   creating build/lib.linux-armv7l-cpython-39/patato/io/hdf
2023-01-11T23:50:42,697   copying patato/io/hdf/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/hdf
2023-01-11T23:50:42,699   copying patato/io/hdf/fileimporter.py -> build/lib.linux-armv7l-cpython-39/patato/io/hdf
2023-01-11T23:50:42,701   copying patato/io/hdf/hdf5_interface.py -> build/lib.linux-armv7l-cpython-39/patato/io/hdf
2023-01-11T23:50:42,704   creating build/lib.linux-armv7l-cpython-39/patato/io/simpa
2023-01-11T23:50:42,705   copying patato/io/simpa/read_simpa.py -> build/lib.linux-armv7l-cpython-39/patato/io/simpa
2023-01-11T23:50:42,708   copying patato/io/simpa/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/simpa
2023-01-11T23:50:42,710   creating build/lib.linux-armv7l-cpython-39/patato/io/ithera/tests
2023-01-11T23:50:42,711   copying patato/io/ithera/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/ithera/tests
2023-01-11T23:50:42,713   copying patato/io/ithera/tests/ithera_tests.py -> build/lib.linux-armv7l-cpython-39/patato/io/ithera/tests
2023-01-11T23:50:42,716   creating build/lib.linux-armv7l-cpython-39/patato/io/json/tests
2023-01-11T23:50:42,717   copying patato/io/json/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/json/tests
2023-01-11T23:50:42,719   copying patato/io/json/tests/test_reconstruction_reading.py -> build/lib.linux-armv7l-cpython-39/patato/io/json/tests
2023-01-11T23:50:42,721   creating build/lib.linux-armv7l-cpython-39/patato/io/hdf/tests
2023-01-11T23:50:42,722   copying patato/io/hdf/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/patato/io/hdf/tests
2023-01-11T23:50:42,724   copying patato/io/hdf/tests/test_ithera_import_clinical_new.py -> build/lib.linux-armv7l-cpython-39/patato/io/hdf/tests
2023-01-11T23:50:42,726   running egg_info
2023-01-11T23:50:42,737   writing patato.egg-info/PKG-INFO
2023-01-11T23:50:42,738   writing dependency_links to patato.egg-info/dependency_links.txt
2023-01-11T23:50:42,741   writing entry points to patato.egg-info/entry_points.txt
2023-01-11T23:50:42,742   writing requirements to patato.egg-info/requires.txt
2023-01-11T23:50:42,743   writing top-level names to patato.egg-info/top_level.txt
2023-01-11T23:50:42,770   reading manifest file 'patato.egg-info/SOURCES.txt'
2023-01-11T23:50:42,775   adding license file 'LICENSE.md'
2023-01-11T23:50:42,782   writing manifest file 'patato.egg-info/SOURCES.txt'
2023-01-11T23:50:42,790   copying patato/recon/model_based/generate_model.cpp -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,792   copying patato/recon/model_based/generate_model_refraction.cpp -> build/lib.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,795   creating build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,796   copying patato/processing/spectra/spectra_files/ICG.csv -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,799   copying patato/processing/spectra/spectra_files/Melanin.csv -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,802   copying patato/processing/spectra/spectra_files/lipids.txt -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,805   copying patato/processing/spectra/spectra_files/prahl.txt -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,807   copying patato/processing/spectra/spectra_files/water.txt -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,810   copying patato/processing/spectra/spectra_files/water_long.txt -> build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files
2023-01-11T23:50:42,827   running build_ext
2023-01-11T23:50:42,832   building 'patato.recon.model_based.generate_model_refraction' extension
2023-01-11T23:50:42,832   creating build/temp.linux-armv7l-cpython-39
2023-01-11T23:50:42,833   creating build/temp.linux-armv7l-cpython-39/patato
2023-01-11T23:50:42,834   creating build/temp.linux-armv7l-cpython-39/patato/recon
2023-01-11T23:50:42,834   creating build/temp.linux-armv7l-cpython-39/patato/recon/model_based
2023-01-11T23:50:42,835   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/pybind11/include -I/usr/include/python3.9 -c patato/recon/model_based/generate_model_refraction.cpp -o build/temp.linux-armv7l-cpython-39/patato/recon/model_based/generate_model_refraction.o -std=c++11
2023-01-11T23:50:47,202   patato/recon/model_based/generate_model_refraction.cpp: In function ‘double get_refraction_point(double, double, double, double, double)’:
2023-01-11T23:50:47,202   patato/recon/model_based/generate_model_refraction.cpp:26:9: warning: variable ‘diverging’ set but not used [-Wunused-but-set-variable]
2023-01-11T23:50:47,203      26 |     int diverging = 0;
2023-01-11T23:50:47,203         |         ^~~~~~~~~
2023-01-11T23:51:06,559   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/patato/recon/model_based/generate_model_refraction.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model_refraction.cpython-39-arm-linux-gnueabihf.so
2023-01-11T23:51:07,045   building 'patato.recon.model_based.generate_model' extension
2023-01-11T23:51:07,046   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-4fmch5hs/overlay/lib/python3.9/site-packages/pybind11/include -I/usr/include/python3.9 -c patato/recon/model_based/generate_model.cpp -o build/temp.linux-armv7l-cpython-39/patato/recon/model_based/generate_model.o -std=c++11
2023-01-11T23:51:30,194   arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/patato/recon/model_based/generate_model.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model.cpython-39-arm-linux-gnueabihf.so
2023-01-11T23:51:30,682   installing to build/bdist.linux-armv7l/wheel
2023-01-11T23:51:30,683   running install
2023-01-11T23:51:30,709   running install_lib
2023-01-11T23:51:30,716   creating build/bdist.linux-armv7l
2023-01-11T23:51:30,716   creating build/bdist.linux-armv7l/wheel
2023-01-11T23:51:30,718   creating build/bdist.linux-armv7l/wheel/patato
2023-01-11T23:51:30,750   creating build/bdist.linux-armv7l/wheel/patato/unmixing
2023-01-11T23:51:30,751   copying build/lib.linux-armv7l-cpython-39/patato/unmixing/unmixer.py -> build/bdist.linux-armv7l/wheel/patato/unmixing
2023-01-11T23:51:30,755   creating build/bdist.linux-armv7l/wheel/patato/unmixing/tests
2023-01-11T23:51:30,758   copying build/lib.linux-armv7l-cpython-39/patato/unmixing/tests/unmixing_test.py -> build/bdist.linux-armv7l/wheel/patato/unmixing/tests
2023-01-11T23:51:30,760   copying build/lib.linux-armv7l-cpython-39/patato/unmixing/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/unmixing/tests
2023-01-11T23:51:30,762   copying build/lib.linux-armv7l-cpython-39/patato/unmixing/__init__.py -> build/bdist.linux-armv7l/wheel/patato/unmixing
2023-01-11T23:51:30,765   creating build/bdist.linux-armv7l/wheel/patato/recon
2023-01-11T23:51:30,766   copying build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_opencl.py -> build/bdist.linux-armv7l/wheel/patato/recon
2023-01-11T23:51:30,769   creating build/bdist.linux-armv7l/wheel/patato/recon/tests
2023-01-11T23:51:30,770   copying build/lib.linux-armv7l-cpython-39/patato/recon/tests/backprojection_test.py -> build/bdist.linux-armv7l/wheel/patato/recon/tests
2023-01-11T23:51:30,772   copying build/lib.linux-armv7l-cpython-39/patato/recon/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/recon/tests
2023-01-11T23:51:30,774   copying build/lib.linux-armv7l-cpython-39/patato/recon/tests/model_based_test.py -> build/bdist.linux-armv7l/wheel/patato/recon/tests
2023-01-11T23:51:30,777   copying build/lib.linux-armv7l-cpython-39/patato/recon/reconstruction_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/recon
2023-01-11T23:51:30,780   creating build/bdist.linux-armv7l/wheel/patato/recon/backprojection_implementation
2023-01-11T23:51:30,781   copying build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_implementation/__init__.py -> build/bdist.linux-armv7l/wheel/patato/recon/backprojection_implementation
2023-01-11T23:51:30,783   copying build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_implementation/jax_implementation.py -> build/bdist.linux-armv7l/wheel/patato/recon/backprojection_implementation
2023-01-11T23:51:30,785   copying build/lib.linux-armv7l-cpython-39/patato/recon/__init__.py -> build/bdist.linux-armv7l/wheel/patato/recon
2023-01-11T23:51:30,787   copying build/lib.linux-armv7l-cpython-39/patato/recon/backprojection_reference.py -> build/bdist.linux-armv7l/wheel/patato/recon
2023-01-11T23:51:30,796   creating build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,797   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model.cpp -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,800   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/cuda_implementation_refraction.py -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,802   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model_refraction.cpp -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,805   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/__init__.py -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,807   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model_refraction.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,861   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/cuda_implementation.py -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,863   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/numpy_implementation.py -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,865   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/generate_model.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,919   copying build/lib.linux-armv7l-cpython-39/patato/recon/model_based/model_based.py -> build/bdist.linux-armv7l/wheel/patato/recon/model_based
2023-01-11T23:51:30,922   creating build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,923   creating build/bdist.linux-armv7l/wheel/patato/processing/tests
2023-01-11T23:51:30,924   copying build/lib.linux-armv7l-cpython-39/patato/processing/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/processing/tests
2023-01-11T23:51:30,927   copying build/lib.linux-armv7l-cpython-39/patato/processing/tests/preprocessing_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/processing/tests
2023-01-11T23:51:30,929   copying build/lib.linux-armv7l-cpython-39/patato/processing/processing_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,931   copying build/lib.linux-armv7l-cpython-39/patato/processing/preprocessing_types.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,933   copying build/lib.linux-armv7l-cpython-39/patato/processing/__init__.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,935   copying build/lib.linux-armv7l-cpython-39/patato/processing/jax_preprocessing_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,938   copying build/lib.linux-armv7l-cpython-39/patato/processing/preprocessing_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,941   creating build/bdist.linux-armv7l/wheel/patato/processing/spectra
2023-01-11T23:51:30,942   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/__init__.py -> build/bdist.linux-armv7l/wheel/patato/processing/spectra
2023-01-11T23:51:30,945   creating build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,946   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/prahl.txt -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,949   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/Melanin.csv -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,952   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/water_long.txt -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,955   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/lipids.txt -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,958   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/water.txt -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,960   copying build/lib.linux-armv7l-cpython-39/patato/processing/spectra/spectra_files/ICG.csv -> build/bdist.linux-armv7l/wheel/patato/processing/spectra/spectra_files
2023-01-11T23:51:30,962   copying build/lib.linux-armv7l-cpython-39/patato/processing/gpu_preprocessing_algorithm.py -> build/bdist.linux-armv7l/wheel/patato/processing
2023-01-11T23:51:30,966   creating build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,967   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/import_ithera_recons.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,969   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/print_speeds.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,971   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/__init__.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,973   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/convert_simpa.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,975   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/convert_binary_to_hdf5.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,977   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/copy_rois.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,980   creating build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,981   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis/__init__.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,983   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis/analyse_dce_old.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,986   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis/analyse_dce.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,988   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis/analyse_gas_challenge.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,990   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/data_analysis/functional_analysis.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts/data_analysis
2023-01-11T23:51:30,993   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/tune_speed_of_sound.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,996   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/unmix.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:30,999   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/split_rois.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,001   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/generate_masks.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,003   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/import_clinical_data.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,005   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/process_msot.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,007   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/scan_status.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,010   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/draw_roi.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,012   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/generate_core.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,015   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/view.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,017   copying build/lib.linux-armv7l-cpython-39/patato/convenience_scripts/rename_scan.py -> build/bdist.linux-armv7l/wheel/patato/convenience_scripts
2023-01-11T23:51:31,020   creating build/bdist.linux-armv7l/wheel/patato/core
2023-01-11T23:51:31,021   copying build/lib.linux-armv7l-cpython-39/patato/core/__init__.py -> build/bdist.linux-armv7l/wheel/patato/core
2023-01-11T23:51:31,024   creating build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,025   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/single_parameter_data.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,027   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/pa_fourier_data.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,029   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/__init__.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,031   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/unmixed_image.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,033   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/reconstruction_image.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,035   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/pa_raw_data.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,037   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/image_structure_types.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,039   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/image_sequence.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,042   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/pa_time_data.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,044   copying build/lib.linux-armv7l-cpython-39/patato/core/image_structures/single_image.py -> build/bdist.linux-armv7l/wheel/patato/core/image_structures
2023-01-11T23:51:31,046   copying build/lib.linux-armv7l-cpython-39/patato/core/data_array.py -> build/bdist.linux-armv7l/wheel/patato/core
2023-01-11T23:51:31,048   copying build/lib.linux-armv7l-cpython-39/patato/__init__.py -> build/bdist.linux-armv7l/wheel/patato
2023-01-11T23:51:31,051   creating build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,053   creating build/bdist.linux-armv7l/wheel/patato/utils/tests
2023-01-11T23:51:31,054   copying build/lib.linux-armv7l-cpython-39/patato/utils/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/utils/tests
2023-01-11T23:51:31,056   copying build/lib.linux-armv7l-cpython-39/patato/utils/tests/pipline_tests.py -> build/bdist.linux-armv7l/wheel/patato/utils/tests
2023-01-11T23:51:31,058   copying build/lib.linux-armv7l-cpython-39/patato/utils/plotting.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,060   copying build/lib.linux-armv7l-cpython-39/patato/utils/run_pipeline.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,062   copying build/lib.linux-armv7l-cpython-39/patato/utils/__init__.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,064   copying build/lib.linux-armv7l-cpython-39/patato/utils/process_study.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,066   copying build/lib.linux-armv7l-cpython-39/patato/utils/roi_operations.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,068   copying build/lib.linux-armv7l-cpython-39/patato/utils/mask_operations.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,071   creating build/bdist.linux-armv7l/wheel/patato/utils/rois
2023-01-11T23:51:31,072   copying build/lib.linux-armv7l-cpython-39/patato/utils/rois/__init__.py -> build/bdist.linux-armv7l/wheel/patato/utils/rois
2023-01-11T23:51:31,074   copying build/lib.linux-armv7l-cpython-39/patato/utils/rois/roi_type.py -> build/bdist.linux-armv7l/wheel/patato/utils/rois
2023-01-11T23:51:31,076   copying build/lib.linux-armv7l-cpython-39/patato/utils/time_series_analysis.py -> build/bdist.linux-armv7l/wheel/patato/utils
2023-01-11T23:51:31,079   creating build/bdist.linux-armv7l/wheel/patato/io
2023-01-11T23:51:31,080   copying build/lib.linux-armv7l-cpython-39/patato/io/msot_data.py -> build/bdist.linux-armv7l/wheel/patato/io
2023-01-11T23:51:31,084   creating build/bdist.linux-armv7l/wheel/patato/io/ipasc
2023-01-11T23:51:31,085   copying build/lib.linux-armv7l-cpython-39/patato/io/ipasc/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/ipasc
2023-01-11T23:51:31,087   copying build/lib.linux-armv7l-cpython-39/patato/io/ipasc/ipasc_export.py -> build/bdist.linux-armv7l/wheel/patato/io/ipasc
2023-01-11T23:51:31,090   creating build/bdist.linux-armv7l/wheel/patato/io/tests
2023-01-11T23:51:31,091   copying build/lib.linux-armv7l-cpython-39/patato/io/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/tests
2023-01-11T23:51:31,093   copying build/lib.linux-armv7l-cpython-39/patato/io/tests/test_msot_data.py -> build/bdist.linux-armv7l/wheel/patato/io/tests
2023-01-11T23:51:31,095   copying build/lib.linux-armv7l-cpython-39/patato/io/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io
2023-01-11T23:51:31,097   copying build/lib.linux-armv7l-cpython-39/patato/io/attribute_tags.py -> build/bdist.linux-armv7l/wheel/patato/io
2023-01-11T23:51:31,100   creating build/bdist.linux-armv7l/wheel/patato/io/ithera
2023-01-11T23:51:31,101   creating build/bdist.linux-armv7l/wheel/patato/io/ithera/tests
2023-01-11T23:51:31,102   copying build/lib.linux-armv7l-cpython-39/patato/io/ithera/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/ithera/tests
2023-01-11T23:51:31,105   copying build/lib.linux-armv7l-cpython-39/patato/io/ithera/tests/ithera_tests.py -> build/bdist.linux-armv7l/wheel/patato/io/ithera/tests
2023-01-11T23:51:31,107   copying build/lib.linux-armv7l-cpython-39/patato/io/ithera/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/ithera
2023-01-11T23:51:31,109   copying build/lib.linux-armv7l-cpython-39/patato/io/ithera/read_ithera.py -> build/bdist.linux-armv7l/wheel/patato/io/ithera
2023-01-11T23:51:31,111   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf5_converter.py -> build/bdist.linux-armv7l/wheel/patato/io
2023-01-11T23:51:31,114   creating build/bdist.linux-armv7l/wheel/patato/io/json
2023-01-11T23:51:31,116   creating build/bdist.linux-armv7l/wheel/patato/io/json/tests
2023-01-11T23:51:31,117   copying build/lib.linux-armv7l-cpython-39/patato/io/json/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/json/tests
2023-01-11T23:51:31,119   copying build/lib.linux-armv7l-cpython-39/patato/io/json/tests/test_reconstruction_reading.py -> build/bdist.linux-armv7l/wheel/patato/io/json/tests
2023-01-11T23:51:31,121   copying build/lib.linux-armv7l-cpython-39/patato/io/json/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/json
2023-01-11T23:51:31,123   copying build/lib.linux-armv7l-cpython-39/patato/io/json/json_reading.py -> build/bdist.linux-armv7l/wheel/patato/io/json
2023-01-11T23:51:31,127   creating build/bdist.linux-armv7l/wheel/patato/io/hdf
2023-01-11T23:51:31,128   creating build/bdist.linux-armv7l/wheel/patato/io/hdf/tests
2023-01-11T23:51:31,130   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf/tests/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/hdf/tests
2023-01-11T23:51:31,132   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf/tests/test_ithera_import_clinical_new.py -> build/bdist.linux-armv7l/wheel/patato/io/hdf/tests
2023-01-11T23:51:31,134   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/hdf
2023-01-11T23:51:31,136   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf/fileimporter.py -> build/bdist.linux-armv7l/wheel/patato/io/hdf
2023-01-11T23:51:31,139   copying build/lib.linux-armv7l-cpython-39/patato/io/hdf/hdf5_interface.py -> build/bdist.linux-armv7l/wheel/patato/io/hdf
2023-01-11T23:51:31,143   creating build/bdist.linux-armv7l/wheel/patato/io/simpa
2023-01-11T23:51:31,144   copying build/lib.linux-armv7l-cpython-39/patato/io/simpa/read_simpa.py -> build/bdist.linux-armv7l/wheel/patato/io/simpa
2023-01-11T23:51:31,147   copying build/lib.linux-armv7l-cpython-39/patato/io/simpa/__init__.py -> build/bdist.linux-armv7l/wheel/patato/io/simpa
2023-01-11T23:51:31,149   creating build/bdist.linux-armv7l/wheel/patato/bohndieklab_utilities
2023-01-11T23:51:31,150   copying build/lib.linux-armv7l-cpython-39/patato/bohndieklab_utilities/__init__.py -> build/bdist.linux-armv7l/wheel/patato/bohndieklab_utilities
2023-01-11T23:51:31,153   creating build/bdist.linux-armv7l/wheel/patato/data
2023-01-11T23:51:31,155   copying build/lib.linux-armv7l-cpython-39/patato/data/__init__.py -> build/bdist.linux-armv7l/wheel/patato/data
2023-01-11T23:51:31,157   running install_egg_info
2023-01-11T23:51:31,163   Copying patato.egg-info to build/bdist.linux-armv7l/wheel/patato-0.0.1-py3.9.egg-info
2023-01-11T23:51:31,178   running install_scripts
2023-01-11T23:51:31,248   creating build/bdist.linux-armv7l/wheel/patato-0.0.1.dist-info/WHEEL
2023-01-11T23:51:31,252   creating '/tmp/pip-wheel-eu2jbijg/.tmp-7_9unx5m/patato-0.0.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-01-11T23:51:31,255   adding 'patato/__init__.py'
2023-01-11T23:51:31,257   adding 'patato/bohndieklab_utilities/__init__.py'
2023-01-11T23:51:31,259   adding 'patato/convenience_scripts/__init__.py'
2023-01-11T23:51:31,261   adding 'patato/convenience_scripts/convert_binary_to_hdf5.py'
2023-01-11T23:51:31,262   adding 'patato/convenience_scripts/convert_simpa.py'
2023-01-11T23:51:31,264   adding 'patato/convenience_scripts/copy_rois.py'
2023-01-11T23:51:31,267   adding 'patato/convenience_scripts/draw_roi.py'
2023-01-11T23:51:31,268   adding 'patato/convenience_scripts/generate_core.py'
2023-01-11T23:51:31,270   adding 'patato/convenience_scripts/generate_masks.py'
2023-01-11T23:51:31,271   adding 'patato/convenience_scripts/import_clinical_data.py'
2023-01-11T23:51:31,273   adding 'patato/convenience_scripts/import_ithera_recons.py'
2023-01-11T23:51:31,274   adding 'patato/convenience_scripts/print_speeds.py'
2023-01-11T23:51:31,276   adding 'patato/convenience_scripts/process_msot.py'
2023-01-11T23:51:31,277   adding 'patato/convenience_scripts/rename_scan.py'
2023-01-11T23:51:31,278   adding 'patato/convenience_scripts/scan_status.py'
2023-01-11T23:51:31,280   adding 'patato/convenience_scripts/split_rois.py'
2023-01-11T23:51:31,281   adding 'patato/convenience_scripts/tune_speed_of_sound.py'
2023-01-11T23:51:31,283   adding 'patato/convenience_scripts/unmix.py'
2023-01-11T23:51:31,285   adding 'patato/convenience_scripts/view.py'
2023-01-11T23:51:31,287   adding 'patato/convenience_scripts/data_analysis/__init__.py'
2023-01-11T23:51:31,288   adding 'patato/convenience_scripts/data_analysis/analyse_dce.py'
2023-01-11T23:51:31,290   adding 'patato/convenience_scripts/data_analysis/analyse_dce_old.py'
2023-01-11T23:51:31,291   adding 'patato/convenience_scripts/data_analysis/analyse_gas_challenge.py'
2023-01-11T23:51:31,293   adding 'patato/convenience_scripts/data_analysis/functional_analysis.py'
2023-01-11T23:51:31,296   adding 'patato/core/__init__.py'
2023-01-11T23:51:31,297   adding 'patato/core/data_array.py'
2023-01-11T23:51:31,299   adding 'patato/core/image_structures/__init__.py'
2023-01-11T23:51:31,301   adding 'patato/core/image_structures/image_sequence.py'
2023-01-11T23:51:31,302   adding 'patato/core/image_structures/image_structure_types.py'
2023-01-11T23:51:31,303   adding 'patato/core/image_structures/pa_fourier_data.py'
2023-01-11T23:51:31,305   adding 'patato/core/image_structures/pa_raw_data.py'
2023-01-11T23:51:31,306   adding 'patato/core/image_structures/pa_time_data.py'
2023-01-11T23:51:31,308   adding 'patato/core/image_structures/reconstruction_image.py'
2023-01-11T23:51:31,309   adding 'patato/core/image_structures/single_image.py'
2023-01-11T23:51:31,311   adding 'patato/core/image_structures/single_parameter_data.py'
2023-01-11T23:51:31,312   adding 'patato/core/image_structures/unmixed_image.py'
2023-01-11T23:51:31,314   adding 'patato/data/__init__.py'
2023-01-11T23:51:31,316   adding 'patato/io/__init__.py'
2023-01-11T23:51:31,317   adding 'patato/io/attribute_tags.py'
2023-01-11T23:51:31,319   adding 'patato/io/hdf5_converter.py'
2023-01-11T23:51:31,322   adding 'patato/io/msot_data.py'
2023-01-11T23:51:31,324   adding 'patato/io/hdf/__init__.py'
2023-01-11T23:51:31,326   adding 'patato/io/hdf/fileimporter.py'
2023-01-11T23:51:31,328   adding 'patato/io/hdf/hdf5_interface.py'
2023-01-11T23:51:31,330   adding 'patato/io/hdf/tests/__init__.py'
2023-01-11T23:51:31,331   adding 'patato/io/hdf/tests/test_ithera_import_clinical_new.py'
2023-01-11T23:51:31,333   adding 'patato/io/ipasc/__init__.py'
2023-01-11T23:51:31,335   adding 'patato/io/ipasc/ipasc_export.py'
2023-01-11T23:51:31,337   adding 'patato/io/ithera/__init__.py'
2023-01-11T23:51:31,339   adding 'patato/io/ithera/read_ithera.py'
2023-01-11T23:51:31,340   adding 'patato/io/ithera/tests/__init__.py'
2023-01-11T23:51:31,342   adding 'patato/io/ithera/tests/ithera_tests.py'
2023-01-11T23:51:31,344   adding 'patato/io/json/__init__.py'
2023-01-11T23:51:31,345   adding 'patato/io/json/json_reading.py'
2023-01-11T23:51:31,347   adding 'patato/io/json/tests/__init__.py'
2023-01-11T23:51:31,349   adding 'patato/io/json/tests/test_reconstruction_reading.py'
2023-01-11T23:51:31,350   adding 'patato/io/simpa/__init__.py'
2023-01-11T23:51:31,352   adding 'patato/io/simpa/read_simpa.py'
2023-01-11T23:51:31,354   adding 'patato/io/tests/__init__.py'
2023-01-11T23:51:31,355   adding 'patato/io/tests/test_msot_data.py'
2023-01-11T23:51:31,357   adding 'patato/processing/__init__.py'
2023-01-11T23:51:31,359   adding 'patato/processing/gpu_preprocessing_algorithm.py'
2023-01-11T23:51:31,361   adding 'patato/processing/jax_preprocessing_algorithm.py'
2023-01-11T23:51:31,363   adding 'patato/processing/preprocessing_algorithm.py'
2023-01-11T23:51:31,364   adding 'patato/processing/preprocessing_types.py'
2023-01-11T23:51:31,366   adding 'patato/processing/processing_algorithm.py'
2023-01-11T23:51:31,368   adding 'patato/processing/spectra/__init__.py'
2023-01-11T23:51:31,370   adding 'patato/processing/spectra/spectra_files/ICG.csv'
2023-01-11T23:51:31,374   adding 'patato/processing/spectra/spectra_files/Melanin.csv'
2023-01-11T23:51:31,376   adding 'patato/processing/spectra/spectra_files/lipids.txt'
2023-01-11T23:51:31,378   adding 'patato/processing/spectra/spectra_files/prahl.txt'
2023-01-11T23:51:31,380   adding 'patato/processing/spectra/spectra_files/water.txt'
2023-01-11T23:51:31,382   adding 'patato/processing/spectra/spectra_files/water_long.txt'
2023-01-11T23:51:31,384   adding 'patato/processing/tests/__init__.py'
2023-01-11T23:51:31,386   adding 'patato/processing/tests/preprocessing_algorithm.py'
2023-01-11T23:51:31,388   adding 'patato/recon/__init__.py'
2023-01-11T23:51:31,389   adding 'patato/recon/backprojection_opencl.py'
2023-01-11T23:51:31,391   adding 'patato/recon/backprojection_reference.py'
2023-01-11T23:51:31,392   adding 'patato/recon/reconstruction_algorithm.py'
2023-01-11T23:51:31,394   adding 'patato/recon/backprojection_implementation/__init__.py'
2023-01-11T23:51:31,395   adding 'patato/recon/backprojection_implementation/jax_implementation.py'
2023-01-11T23:51:31,397   adding 'patato/recon/model_based/__init__.py'
2023-01-11T23:51:31,399   adding 'patato/recon/model_based/cuda_implementation.py'
2023-01-11T23:51:31,400   adding 'patato/recon/model_based/cuda_implementation_refraction.py'
2023-01-11T23:51:31,402   adding 'patato/recon/model_based/generate_model.cpp'
2023-01-11T23:51:31,788   adding 'patato/recon/model_based/generate_model.cpython-39-arm-linux-gnueabihf.so'
2023-01-11T23:51:31,806   adding 'patato/recon/model_based/generate_model_refraction.cpp'
2023-01-11T23:51:32,191   adding 'patato/recon/model_based/generate_model_refraction.cpython-39-arm-linux-gnueabihf.so'
2023-01-11T23:51:32,210   adding 'patato/recon/model_based/model_based.py'
2023-01-11T23:51:32,211   adding 'patato/recon/model_based/numpy_implementation.py'
2023-01-11T23:51:32,213   adding 'patato/recon/tests/__init__.py'
2023-01-11T23:51:32,214   adding 'patato/recon/tests/backprojection_test.py'
2023-01-11T23:51:32,215   adding 'patato/recon/tests/model_based_test.py'
2023-01-11T23:51:32,217   adding 'patato/unmixing/__init__.py'
2023-01-11T23:51:32,219   adding 'patato/unmixing/unmixer.py'
2023-01-11T23:51:32,221   adding 'patato/unmixing/tests/__init__.py'
2023-01-11T23:51:32,222   adding 'patato/unmixing/tests/unmixing_test.py'
2023-01-11T23:51:32,224   adding 'patato/utils/__init__.py'
2023-01-11T23:51:32,226   adding 'patato/utils/mask_operations.py'
2023-01-11T23:51:32,227   adding 'patato/utils/plotting.py'
2023-01-11T23:51:32,228   adding 'patato/utils/process_study.py'
2023-01-11T23:51:32,230   adding 'patato/utils/roi_operations.py'
2023-01-11T23:51:32,231   adding 'patato/utils/run_pipeline.py'
2023-01-11T23:51:32,233   adding 'patato/utils/time_series_analysis.py'
2023-01-11T23:51:32,234   adding 'patato/utils/rois/__init__.py'
2023-01-11T23:51:32,236   adding 'patato/utils/rois/roi_type.py'
2023-01-11T23:51:32,238   adding 'patato/utils/tests/__init__.py'
2023-01-11T23:51:32,239   adding 'patato/utils/tests/pipline_tests.py'
2023-01-11T23:51:32,241   adding 'patato-0.0.1.dist-info/LICENSE.md'
2023-01-11T23:51:32,242   adding 'patato-0.0.1.dist-info/METADATA'
2023-01-11T23:51:32,243   adding 'patato-0.0.1.dist-info/WHEEL'
2023-01-11T23:51:32,245   adding 'patato-0.0.1.dist-info/entry_points.txt'
2023-01-11T23:51:32,246   adding 'patato-0.0.1.dist-info/top_level.txt'
2023-01-11T23:51:32,248   adding 'patato-0.0.1.dist-info/RECORD'
2023-01-11T23:51:32,276   removing build/bdist.linux-armv7l/wheel
2023-01-11T23:51:32,484   Building wheel for patato (pyproject.toml): finished with status 'done'
2023-01-11T23:51:32,533   Created wheel for patato: filename=patato-0.0.1-cp39-cp39-linux_armv7l.whl size=1676435 sha256=afd6059446303b0dca43d2662b7615190ae416a88587059b59bd5ec9496bc137
2023-01-11T23:51:32,534   Stored in directory: /tmp/pip-ephem-wheel-cache-sdiov32s/wheels/df/71/ae/11cbdc7afe1b652609c44bd76cd7871106e15f84fbdfc9e93c
2023-01-11T23:51:32,551 Successfully built patato
2023-01-11T23:51:32,607 Removed build tracker: '/tmp/pip-build-tracker-p_5t9wda'