2024-01-04T07:23:51,818 Created temporary directory: /tmp/pip-build-tracker-wexzgdkw
2024-01-04T07:23:51,819 Initialized build tracking at /tmp/pip-build-tracker-wexzgdkw
2024-01-04T07:23:51,819 Created build tracker: /tmp/pip-build-tracker-wexzgdkw
2024-01-04T07:23:51,820 Entered build tracker: /tmp/pip-build-tracker-wexzgdkw
2024-01-04T07:23:51,821 Created temporary directory: /tmp/pip-wheel-p7aas_7q
2024-01-04T07:23:51,824 Created temporary directory: /tmp/pip-ephem-wheel-cache-lx1t_24s
2024-01-04T07:23:51,847 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-01-04T07:23:51,850 2 location(s) to search for versions of satmut-utils:
2024-01-04T07:23:51,850 * https://pypi.org/simple/satmut-utils/
2024-01-04T07:23:51,850 * https://www.piwheels.org/simple/satmut-utils/
2024-01-04T07:23:51,851 Fetching project page and analyzing links: https://pypi.org/simple/satmut-utils/
2024-01-04T07:23:51,852 Getting page https://pypi.org/simple/satmut-utils/
2024-01-04T07:23:51,853 Found index url https://pypi.org/simple/
2024-01-04T07:23:52,072 Fetched page https://pypi.org/simple/satmut-utils/ as application/vnd.pypi.simple.v1+json
2024-01-04T07:23:52,076   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/9d/7d/aa6a904965242a0c56c1ecc510cf3f4840936f6087b6f0203a9a718743c1/satmut_utils-1.0.0-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,077   Found link https://files.pythonhosted.org/packages/a8/1b/4fc621a1dc7184b5ebb199d33f4792ce7755b61281fdf2313793423adfb9/satmut_utils-1.0.0.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.0.0
2024-01-04T07:23:52,077   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/c1/c3/5c2d910cb9364b7f3a8ef7bea6aef6914c374cc1cfe7b7a217f4329fb167/satmut_utils-1.0.1-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,078   Found link https://files.pythonhosted.org/packages/3c/cb/1f7123f703b841687553195526b0253c632b3b13f17dbeefd1f24bfa7e9e/satmut_utils-1.0.1.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.0.1
2024-01-04T07:23:52,079   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/66/c0/576dbee34d884808eac267f6726c217d0bb366d6aa0d0d24fea1f1103def/satmut_utils-1.0.2-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,080   Found link https://files.pythonhosted.org/packages/4b/1b/2697ef2eb5e7fc90aaeb8fbe64d2c24069dbd0871f1fb6b23e5c7f66273f/satmut_utils-1.0.2.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.0.2
2024-01-04T07:23:52,081   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/85/2f/44449e247d8203168cd338bef490d92314d66b2dc0ea15ef3d03c6d7a9d1/satmut_utils-1.0.3-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,082   Found link https://files.pythonhosted.org/packages/33/f7/68da077554cf885a0fed028748c6e419bb97f64faa0a253ff4993fd08524/satmut_utils-1.0.3.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.0.3
2024-01-04T07:23:52,083   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/6b/66/2954cd80d73c55edbb61264e43335a0366eed686d458e0dec85191729f59/satmut_utils-1.0.4-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,084   Found link https://files.pythonhosted.org/packages/af/18/b40883e3aafdf867c3bc41141a21857eb93526b46a6fd0d64321a66f1cf1/satmut_utils-1.0.4.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.0.4
2024-01-04T07:23:52,084   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/35/c8/5c54c3de3fc74482be64cea35d3786a6bc1388d1f0cfce81a8480f1e8ec9/satmut_utils-1.1.0-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,085   Found link https://files.pythonhosted.org/packages/05/0b/7376e3610e664b48ee4c5d3a97924bae56338bb1a4c507e01b650e01b079/satmut_utils-1.1.0.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.1.0
2024-01-04T07:23:52,086   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/6e/7c/ee78402b228696789f5664dd0af60d1a055332a6ded0fc4c764d99f58e74/satmut_utils-1.1.1-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,087   Found link https://files.pythonhosted.org/packages/e5/cf/de6d723ed9f741f52bfbf83e1e3fa516383d8e46a5190bfe10eda8afdfdb/satmut_utils-1.1.1.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.1.1
2024-01-04T07:23:52,087   Skipping link: No binaries permitted for satmut-utils: https://files.pythonhosted.org/packages/cc/1c/7848af782381f404512051f4b3de12c05ededbb774467ae9c3fb9bce8b43/satmut_utils-1.1.2-py3-none-any.whl (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,088   Found link https://files.pythonhosted.org/packages/c6/0e/9bcfb78e2802e533905bf2231f7290affcd7b8e7bb978564d0a6515e85f5/satmut_utils-1.1.2.tar.gz (from https://pypi.org/simple/satmut-utils/) (requires-python:>=3.7), version: 1.1.2
2024-01-04T07:23:52,089 Fetching project page and analyzing links: https://www.piwheels.org/simple/satmut-utils/
2024-01-04T07:23:52,090 Getting page https://www.piwheels.org/simple/satmut-utils/
2024-01-04T07:23:52,091 Found index url https://www.piwheels.org/simple/
2024-01-04T07:23:52,266 Fetched page https://www.piwheels.org/simple/satmut-utils/ as text/html
2024-01-04T07:23:52,270   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.1.1-py3-none-any.whl#sha256=ab9ac8084249c0619e3f56e5c88b1ea01cfaa4e07cd498a5f1567391540a231b (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,270   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.1.0-py3-none-any.whl#sha256=5ddfee477c12473a423eb5f0bada11ea2267b234ff7c6f1bdcc8d2736ddb2498 (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,271   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.0.4-py3-none-any.whl#sha256=323a13eb1dd75261586bd6c887dd223a40587742ca7aed6cdd40cbae05856a6f (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,271   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.0.3-py3-none-any.whl#sha256=59c120e0a32ed07a847cb94d055d007d238e8c9aa7ec6bbe5c792542ffeab2ca (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,272   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.0.2-py3-none-any.whl#sha256=b3eaebca5f040ebf0c60f26e3b9ccef1935ce70852728f24b3a1623f4c791c20 (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,273   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.0.1-py3-none-any.whl#sha256=3f7c43b678b5e344409e2cb0718742684066d907768826a7d19b85b4c43adae6 (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,273   Skipping link: No binaries permitted for satmut-utils: https://www.piwheels.org/simple/satmut-utils/satmut_utils-1.0.0-py3-none-any.whl#sha256=851816d46080d9e7a7ac2f235ea191e2a32f936dbd625d4caff953f6b4c1495c (from https://www.piwheels.org/simple/satmut-utils/) (requires-python:>=3.7)
2024-01-04T07:23:52,274 Skipping link: not a file: https://www.piwheels.org/simple/satmut-utils/
2024-01-04T07:23:52,274 Skipping link: not a file: https://pypi.org/simple/satmut-utils/
2024-01-04T07:23:52,294 Given no hashes to check 1 links for project 'satmut-utils': discarding no candidates
2024-01-04T07:23:52,312 Collecting satmut-utils==1.1.2
2024-01-04T07:23:52,314   Created temporary directory: /tmp/pip-unpack-nfmteqiy
2024-01-04T07:23:53,027   Downloading satmut_utils-1.1.2.tar.gz (12.0 MB)
2024-01-04T07:23:56,091   Added satmut-utils==1.1.2 from https://files.pythonhosted.org/packages/c6/0e/9bcfb78e2802e533905bf2231f7290affcd7b8e7bb978564d0a6515e85f5/satmut_utils-1.1.2.tar.gz to build tracker '/tmp/pip-build-tracker-wexzgdkw'
2024-01-04T07:23:56,095   Created temporary directory: /tmp/pip-build-env-dhn1p0k1
2024-01-04T07:23:56,099   Installing build dependencies: started
2024-01-04T07:23:56,101   Running command pip subprocess to install build dependencies
2024-01-04T07:23:57,344   Using pip 23.3.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11)
2024-01-04T07:23:57,876   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2024-01-04T07:23:59,299   Collecting setuptools>=59
2024-01-04T07:23:59,313     Using cached https://www.piwheels.org/simple/setuptools/setuptools-69.0.3-py3-none-any.whl (819 kB)
2024-01-04T07:23:59,577   Collecting wheel
2024-01-04T07:23:59,591     Using cached https://www.piwheels.org/simple/wheel/wheel-0.42.0-py3-none-any.whl (65 kB)
2024-01-04T07:24:02,192   Installing collected packages: wheel, setuptools
2024-01-04T07:24:02,416     Creating /tmp/pip-build-env-dhn1p0k1/overlay/local/bin
2024-01-04T07:24:02,418     changing mode of /tmp/pip-build-env-dhn1p0k1/overlay/local/bin/wheel to 755
2024-01-04T07:24:04,642   Successfully installed setuptools-69.0.3 wheel-0.42.0

2024-01-04T07:24:04,894   [notice] A new release of pip is available: 23.3.1 -> 23.3.2
2024-01-04T07:24:04,895   [notice] To update, run: python3 -m pip install --upgrade pip
2024-01-04T07:24:05,179   Installing build dependencies: finished with status 'done'
2024-01-04T07:24:05,184   Getting requirements to build wheel: started
2024-01-04T07:24:05,185   Running command Getting requirements to build wheel
2024-01-04T07:24:05,812   running egg_info
2024-01-04T07:24:05,818   writing src/satmut_utils.egg-info/PKG-INFO
2024-01-04T07:24:05,821   writing dependency_links to src/satmut_utils.egg-info/dependency_links.txt
2024-01-04T07:24:05,823   writing entry points to src/satmut_utils.egg-info/entry_points.txt
2024-01-04T07:24:05,825   writing top-level names to src/satmut_utils.egg-info/top_level.txt
2024-01-04T07:24:05,853   reading manifest file 'src/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:05,856   reading manifest template 'MANIFEST.in'
2024-01-04T07:24:05,859   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2024-01-04T07:24:05,860   adding license file 'LICENSE.txt'
2024-01-04T07:24:05,864   writing manifest file 'src/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:05,940   Getting requirements to build wheel: finished with status 'done'
2024-01-04T07:24:05,950   Created temporary directory: /tmp/pip-modern-metadata-6ezlz6aa
2024-01-04T07:24:05,952   Preparing metadata (pyproject.toml): started
2024-01-04T07:24:05,954   Running command Preparing metadata (pyproject.toml)
2024-01-04T07:24:06,475   running dist_info
2024-01-04T07:24:06,497   creating /tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info
2024-01-04T07:24:06,501   writing /tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/PKG-INFO
2024-01-04T07:24:06,505   writing dependency_links to /tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/dependency_links.txt
2024-01-04T07:24:06,507   writing entry points to /tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/entry_points.txt
2024-01-04T07:24:06,509   writing top-level names to /tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/top_level.txt
2024-01-04T07:24:06,510   writing manifest file '/tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:06,535   reading manifest file '/tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:06,537   reading manifest template 'MANIFEST.in'
2024-01-04T07:24:06,540   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2024-01-04T07:24:06,541   adding license file 'LICENSE.txt'
2024-01-04T07:24:06,544   writing manifest file '/tmp/pip-modern-metadata-6ezlz6aa/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:06,545   creating '/tmp/pip-modern-metadata-6ezlz6aa/satmut_utils-1.1.2.dist-info'
2024-01-04T07:24:06,734   Preparing metadata (pyproject.toml): finished with status 'done'
2024-01-04T07:24:06,738   Source in /tmp/pip-wheel-p7aas_7q/satmut-utils_5470bfc6d66441fba193311da91a8aa0 has version 1.1.2, which satisfies requirement satmut-utils==1.1.2 from https://files.pythonhosted.org/packages/c6/0e/9bcfb78e2802e533905bf2231f7290affcd7b8e7bb978564d0a6515e85f5/satmut_utils-1.1.2.tar.gz
2024-01-04T07:24:06,739   Removed satmut-utils==1.1.2 from https://files.pythonhosted.org/packages/c6/0e/9bcfb78e2802e533905bf2231f7290affcd7b8e7bb978564d0a6515e85f5/satmut_utils-1.1.2.tar.gz from build tracker '/tmp/pip-build-tracker-wexzgdkw'
2024-01-04T07:24:06,745 Created temporary directory: /tmp/pip-unpack-5psaq5ov
2024-01-04T07:24:06,746 Created temporary directory: /tmp/pip-unpack-q6ibrawz
2024-01-04T07:24:06,749 Building wheels for collected packages: satmut-utils
2024-01-04T07:24:06,753   Created temporary directory: /tmp/pip-wheel-3fh0lyds
2024-01-04T07:24:06,754   Destination directory: /tmp/pip-wheel-3fh0lyds
2024-01-04T07:24:06,756   Building wheel for satmut-utils (pyproject.toml): started
2024-01-04T07:24:06,757   Running command Building wheel for satmut-utils (pyproject.toml)
2024-01-04T07:24:07,354   running bdist_wheel
2024-01-04T07:24:07,422   running build
2024-01-04T07:24:07,422   running build_py
2024-01-04T07:24:07,432   creating build
2024-01-04T07:24:07,433   creating build/lib
2024-01-04T07:24:07,434   creating build/lib/satmut_utils
2024-01-04T07:24:07,435   copying src/satmut_utils/definitions.py -> build/lib/satmut_utils
2024-01-04T07:24:07,438   copying src/satmut_utils/__init__.py -> build/lib/satmut_utils
2024-01-04T07:24:07,439   copying src/satmut_utils/satmut_utils.py -> build/lib/satmut_utils
2024-01-04T07:24:07,443   creating build/lib/tests
2024-01-04T07:24:07,444   copying src/tests/__init__.py -> build/lib/tests
2024-01-04T07:24:07,446   creating build/lib/analysis
2024-01-04T07:24:07,447   copying src/analysis/variant_caller.py -> build/lib/analysis
2024-01-04T07:24:07,451   copying src/analysis/read_preprocessor.py -> build/lib/analysis
2024-01-04T07:24:07,454   copying src/analysis/seq_utils.py -> build/lib/analysis
2024-01-04T07:24:07,457   copying src/analysis/aligners.py -> build/lib/analysis
2024-01-04T07:24:07,459   copying src/analysis/read_editor.py -> build/lib/analysis
2024-01-04T07:24:07,462   copying src/analysis/__init__.py -> build/lib/analysis
2024-01-04T07:24:07,464   copying src/analysis/coordinate_mapper.py -> build/lib/analysis
2024-01-04T07:24:07,467   copying src/analysis/references.py -> build/lib/analysis
2024-01-04T07:24:07,470   creating build/lib/core_utils
2024-01-04T07:24:07,471   copying src/core_utils/file_utils.py -> build/lib/core_utils
2024-01-04T07:24:07,474   copying src/core_utils/__init__.py -> build/lib/core_utils
2024-01-04T07:24:07,475   copying src/core_utils/feature_file_utils.py -> build/lib/core_utils
2024-01-04T07:24:07,478   copying src/core_utils/vcf_utils.py -> build/lib/core_utils
2024-01-04T07:24:07,481   copying src/core_utils/string_utils.py -> build/lib/core_utils
2024-01-04T07:24:07,483   creating build/lib/scripts
2024-01-04T07:24:07,485   copying src/scripts/run_fastq_preprocessor.py -> build/lib/scripts
2024-01-04T07:24:07,487   copying src/scripts/run_bowtie2_aligner.py -> build/lib/scripts
2024-01-04T07:24:07,489   copying src/scripts/__init__.py -> build/lib/scripts
2024-01-04T07:24:07,492   creating build/lib/tests/test_data
2024-01-04T07:24:07,493   copying src/tests/test_data/__init__.py -> build/lib/tests/test_data
2024-01-04T07:24:07,495   creating build/lib/tests/analysis
2024-01-04T07:24:07,497   copying src/tests/analysis/test_variant_caller.py -> build/lib/tests/analysis
2024-01-04T07:24:07,500   copying src/tests/analysis/test_seq_utils.py -> build/lib/tests/analysis
2024-01-04T07:24:07,503   copying src/tests/analysis/test_read_preprocessor.py -> build/lib/tests/analysis
2024-01-04T07:24:07,506   copying src/tests/analysis/test_read_editor.py -> build/lib/tests/analysis
2024-01-04T07:24:07,509   copying src/tests/analysis/__init__.py -> build/lib/tests/analysis
2024-01-04T07:24:07,511   copying src/tests/analysis/test_coordinate_mapper.py -> build/lib/tests/analysis
2024-01-04T07:24:07,514   copying src/tests/analysis/test_references.py -> build/lib/tests/analysis
2024-01-04T07:24:07,516   copying src/tests/analysis/test_aligners.py -> build/lib/tests/analysis
2024-01-04T07:24:07,518   creating build/lib/tests/core_utils
2024-01-04T07:24:07,520   copying src/tests/core_utils/test_file_utils.py -> build/lib/tests/core_utils
2024-01-04T07:24:07,522   copying src/tests/core_utils/__init__.py -> build/lib/tests/core_utils
2024-01-04T07:24:07,523   copying src/tests/core_utils/test_string_utils.py -> build/lib/tests/core_utils
2024-01-04T07:24:07,525   copying src/tests/core_utils/test_feature_file_utils.py -> build/lib/tests/core_utils
2024-01-04T07:24:07,527   running egg_info
2024-01-04T07:24:07,531   writing src/satmut_utils.egg-info/PKG-INFO
2024-01-04T07:24:07,534   writing dependency_links to src/satmut_utils.egg-info/dependency_links.txt
2024-01-04T07:24:07,536   writing entry points to src/satmut_utils.egg-info/entry_points.txt
2024-01-04T07:24:07,538   writing top-level names to src/satmut_utils.egg-info/top_level.txt
2024-01-04T07:24:07,551   reading manifest file 'src/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:07,554   reading manifest template 'MANIFEST.in'
2024-01-04T07:24:07,557   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2024-01-04T07:24:07,558   adding license file 'LICENSE.txt'
2024-01-04T07:24:07,563   writing manifest file 'src/satmut_utils.egg-info/SOURCES.txt'
2024-01-04T07:24:07,571   copying src/tests/test_data/CBS.fa -> build/lib/tests/test_data
2024-01-04T07:24:07,573   copying src/tests/test_data/CBS.gff -> build/lib/tests/test_data
2024-01-04T07:24:07,577   copying src/tests/test_data/CBS_pEZY3.fa -> build/lib/tests/test_data
2024-01-04T07:24:07,579   copying src/tests/test_data/CBS_pEZY3.fa.1.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,641   copying src/tests/test_data/CBS_pEZY3.fa.2.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,643   copying src/tests/test_data/CBS_pEZY3.fa.3.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,646   copying src/tests/test_data/CBS_pEZY3.fa.4.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,648   copying src/tests/test_data/CBS_pEZY3.fa.fai -> build/lib/tests/test_data
2024-01-04T07:24:07,650   copying src/tests/test_data/CBS_pEZY3.fa.rev.1.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,714   copying src/tests/test_data/CBS_pEZY3.fa.rev.2.bt2 -> build/lib/tests/test_data
2024-01-04T07:24:07,717   copying src/tests/test_data/CBS_pEZY3.gff -> build/lib/tests/test_data
2024-01-04T07:24:07,719   copying src/tests/test_data/CBS_pEZY3_primers.bed -> build/lib/tests/test_data
2024-01-04T07:24:07,721   copying src/tests/test_data/CBS_pEZY3_targets.bed -> build/lib/tests/test_data
2024-01-04T07:24:07,723   copying src/tests/test_data/CBS_sim.R1.fq.gz -> build/lib/tests/test_data
2024-01-04T07:24:07,725   copying src/tests/test_data/CBS_sim.R2.fq.gz -> build/lib/tests/test_data
2024-01-04T07:24:07,727   copying src/tests/test_data/CBS_sim.bam -> build/lib/tests/test_data
2024-01-04T07:24:07,729   copying src/tests/test_data/CBS_sim.bam.bai -> build/lib/tests/test_data
2024-01-04T07:24:07,731   copying src/tests/test_data/CBS_sim.vcf -> build/lib/tests/test_data
2024-01-04T07:24:07,733   copying src/tests/test_data/CBS_sim_primers.bed -> build/lib/tests/test_data
2024-01-04T07:24:07,734   copying src/tests/test_data/GRCh38.chr21.fa.gz -> build/lib/tests/test_data
2024-01-04T07:24:07,909   copying src/tests/test_data/PKNOX1.fa -> build/lib/tests/test_data
2024-01-04T07:24:07,912   copying src/tests/test_data/appris_human_24_01_2019_selected.fa -> build/lib/tests/test_data
2024-01-04T07:24:07,914   copying src/tests/test_data/appris_human_24_01_2019_selected.fa.fai -> build/lib/tests/test_data
2024-01-04T07:24:07,916   copying src/tests/test_data/appris_human_v1_actual_regions_contigs.txt -> build/lib/tests/test_data
2024-01-04T07:24:07,918   copying src/tests/test_data/appris_human_v1_actual_regions_gene_ids.txt -> build/lib/tests/test_data
2024-01-04T07:24:07,919   copying src/tests/test_data/appris_human_v1_actual_regions_trx_ids.txt -> build/lib/tests/test_data
2024-01-04T07:24:07,921   copying src/tests/test_data/gencode.v29.annotation.gtf -> build/lib/tests/test_data
2024-01-04T07:24:07,924   copying src/tests/test_data/test_preprocess.bam -> build/lib/tests/test_data
2024-01-04T07:24:07,926   copying src/tests/test_data/test_preprocess.bam.bai -> build/lib/tests/test_data
2024-01-04T07:24:07,928   copying src/tests/test_data/test_preprocess.sam -> build/lib/tests/test_data
2024-01-04T07:24:07,930   copying src/tests/test_data/test_preprocess.sort.bam -> build/lib/tests/test_data
2024-01-04T07:24:07,932   copying src/tests/test_data/test_preprocess.sort.bam.bai -> build/lib/tests/test_data
2024-01-04T07:24:07,947   installing to build/bdist.linux-armv7l/wheel
2024-01-04T07:24:07,947   running install
2024-01-04T07:24:07,971   running install_lib
2024-01-04T07:24:07,977   creating build/bdist.linux-armv7l
2024-01-04T07:24:07,977   creating build/bdist.linux-armv7l/wheel
2024-01-04T07:24:07,979   creating build/bdist.linux-armv7l/wheel/satmut_utils
2024-01-04T07:24:07,980   copying build/lib/satmut_utils/definitions.py -> build/bdist.linux-armv7l/wheel/satmut_utils
2024-01-04T07:24:07,982   copying build/lib/satmut_utils/__init__.py -> build/bdist.linux-armv7l/wheel/satmut_utils
2024-01-04T07:24:07,983   copying build/lib/satmut_utils/satmut_utils.py -> build/bdist.linux-armv7l/wheel/satmut_utils
2024-01-04T07:24:07,986   creating build/bdist.linux-armv7l/wheel/tests
2024-01-04T07:24:07,988   creating build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:07,989   copying build/lib/tests/test_data/appris_human_v1_actual_regions_contigs.txt -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:07,991   copying build/lib/tests/test_data/GRCh38.chr21.fa.gz -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,178   copying build/lib/tests/test_data/CBS_pEZY3.fa.fai -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,181   copying build/lib/tests/test_data/CBS.fa -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,183   copying build/lib/tests/test_data/CBS_sim.bam -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,185   copying build/lib/tests/test_data/test_preprocess.sort.bam.bai -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,188   copying build/lib/tests/test_data/test_preprocess.bam.bai -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,190   copying build/lib/tests/test_data/CBS.gff -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,193   copying build/lib/tests/test_data/CBS_sim.R1.fq.gz -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,195   copying build/lib/tests/test_data/gencode.v29.annotation.gtf -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,199   copying build/lib/tests/test_data/CBS_sim.R2.fq.gz -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,201   copying build/lib/tests/test_data/CBS_pEZY3.fa.4.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,204   copying build/lib/tests/test_data/CBS_pEZY3.fa.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,206   copying build/lib/tests/test_data/CBS_pEZY3.fa.2.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,208   copying build/lib/tests/test_data/CBS_pEZY3.fa.1.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,284   copying build/lib/tests/test_data/test_preprocess.sort.bam -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,286   copying build/lib/tests/test_data/test_preprocess.sam -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,288   copying build/lib/tests/test_data/__init__.py -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,290   copying build/lib/tests/test_data/CBS_sim_primers.bed -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,292   copying build/lib/tests/test_data/CBS_pEZY3_targets.bed -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,293   copying build/lib/tests/test_data/appris_human_24_01_2019_selected.fa -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,295   copying build/lib/tests/test_data/CBS_pEZY3.fa.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,367   copying build/lib/tests/test_data/appris_human_v1_actual_regions_gene_ids.txt -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,368   copying build/lib/tests/test_data/CBS_pEZY3_primers.bed -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,370   copying build/lib/tests/test_data/CBS_pEZY3.fa.3.bt2 -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,372   copying build/lib/tests/test_data/CBS_pEZY3.fa -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,374   copying build/lib/tests/test_data/test_preprocess.bam -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,376   copying build/lib/tests/test_data/CBS_pEZY3.gff -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,378   copying build/lib/tests/test_data/CBS_sim.vcf -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,379   copying build/lib/tests/test_data/CBS_sim.bam.bai -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,381   copying build/lib/tests/test_data/appris_human_v1_actual_regions_trx_ids.txt -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,383   copying build/lib/tests/test_data/PKNOX1.fa -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,385   copying build/lib/tests/test_data/appris_human_24_01_2019_selected.fa.fai -> build/bdist.linux-armv7l/wheel/tests/test_data
2024-01-04T07:24:08,387   creating build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,389   copying build/lib/tests/analysis/test_variant_caller.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,392   copying build/lib/tests/analysis/test_seq_utils.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,394   copying build/lib/tests/analysis/test_read_preprocessor.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,398   copying build/lib/tests/analysis/test_read_editor.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,401   copying build/lib/tests/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,402   copying build/lib/tests/analysis/test_coordinate_mapper.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,405   copying build/lib/tests/analysis/test_references.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,407   copying build/lib/tests/analysis/test_aligners.py -> build/bdist.linux-armv7l/wheel/tests/analysis
2024-01-04T07:24:08,409   copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2024-01-04T07:24:08,411   creating build/bdist.linux-armv7l/wheel/tests/core_utils
2024-01-04T07:24:08,412   copying build/lib/tests/core_utils/test_file_utils.py -> build/bdist.linux-armv7l/wheel/tests/core_utils
2024-01-04T07:24:08,414   copying build/lib/tests/core_utils/__init__.py -> build/bdist.linux-armv7l/wheel/tests/core_utils
2024-01-04T07:24:08,416   copying build/lib/tests/core_utils/test_string_utils.py -> build/bdist.linux-armv7l/wheel/tests/core_utils
2024-01-04T07:24:08,417   copying build/lib/tests/core_utils/test_feature_file_utils.py -> build/bdist.linux-armv7l/wheel/tests/core_utils
2024-01-04T07:24:08,420   creating build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,421   copying build/lib/analysis/variant_caller.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,424   copying build/lib/analysis/read_preprocessor.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,427   copying build/lib/analysis/seq_utils.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,430   copying build/lib/analysis/aligners.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,432   copying build/lib/analysis/read_editor.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,435   copying build/lib/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,436   copying build/lib/analysis/coordinate_mapper.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,440   copying build/lib/analysis/references.py -> build/bdist.linux-armv7l/wheel/analysis
2024-01-04T07:24:08,442   creating build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,443   copying build/lib/core_utils/file_utils.py -> build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,445   copying build/lib/core_utils/__init__.py -> build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,447   copying build/lib/core_utils/feature_file_utils.py -> build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,449   copying build/lib/core_utils/vcf_utils.py -> build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,451   copying build/lib/core_utils/string_utils.py -> build/bdist.linux-armv7l/wheel/core_utils
2024-01-04T07:24:08,454   creating build/bdist.linux-armv7l/wheel/scripts
2024-01-04T07:24:08,454   copying build/lib/scripts/run_fastq_preprocessor.py -> build/bdist.linux-armv7l/wheel/scripts
2024-01-04T07:24:08,457   copying build/lib/scripts/run_bowtie2_aligner.py -> build/bdist.linux-armv7l/wheel/scripts
2024-01-04T07:24:08,459   copying build/lib/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/scripts
2024-01-04T07:24:08,460   running install_egg_info
2024-01-04T07:24:08,471   Copying src/satmut_utils.egg-info to build/bdist.linux-armv7l/wheel/satmut_utils-1.1.2-py3.11.egg-info
2024-01-04T07:24:08,482   running install_scripts
2024-01-04T07:24:08,497   creating build/bdist.linux-armv7l/wheel/satmut_utils-1.1.2.dist-info/WHEEL
2024-01-04T07:24:08,499   creating '/tmp/pip-wheel-3fh0lyds/.tmp-1zqfulxh/satmut_utils-1.1.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2024-01-04T07:24:08,501   adding 'analysis/__init__.py'
2024-01-04T07:24:08,503   adding 'analysis/aligners.py'
2024-01-04T07:24:08,510   adding 'analysis/coordinate_mapper.py'
2024-01-04T07:24:08,516   adding 'analysis/read_editor.py'
2024-01-04T07:24:08,525   adding 'analysis/read_preprocessor.py'
2024-01-04T07:24:08,527   adding 'analysis/references.py'
2024-01-04T07:24:08,530   adding 'analysis/seq_utils.py'
2024-01-04T07:24:08,537   adding 'analysis/variant_caller.py'
2024-01-04T07:24:08,539   adding 'core_utils/__init__.py'
2024-01-04T07:24:08,541   adding 'core_utils/feature_file_utils.py'
2024-01-04T07:24:08,543   adding 'core_utils/file_utils.py'
2024-01-04T07:24:08,544   adding 'core_utils/string_utils.py'
2024-01-04T07:24:08,548   adding 'core_utils/vcf_utils.py'
2024-01-04T07:24:08,549   adding 'satmut_utils/__init__.py'
2024-01-04T07:24:08,551   adding 'satmut_utils/definitions.py'
2024-01-04T07:24:08,555   adding 'satmut_utils/satmut_utils.py'
2024-01-04T07:24:08,558   adding 'scripts/__init__.py'
2024-01-04T07:24:08,559   adding 'scripts/run_bowtie2_aligner.py'
2024-01-04T07:24:08,561   adding 'scripts/run_fastq_preprocessor.py'
2024-01-04T07:24:08,563   adding 'tests/__init__.py'
2024-01-04T07:24:08,565   adding 'tests/analysis/__init__.py'
2024-01-04T07:24:08,566   adding 'tests/analysis/test_aligners.py'
2024-01-04T07:24:08,570   adding 'tests/analysis/test_coordinate_mapper.py'
2024-01-04T07:24:08,573   adding 'tests/analysis/test_read_editor.py'
2024-01-04T07:24:08,579   adding 'tests/analysis/test_read_preprocessor.py'
2024-01-04T07:24:08,581   adding 'tests/analysis/test_references.py'
2024-01-04T07:24:08,583   adding 'tests/analysis/test_seq_utils.py'
2024-01-04T07:24:08,588   adding 'tests/analysis/test_variant_caller.py'
2024-01-04T07:24:08,590   adding 'tests/core_utils/__init__.py'
2024-01-04T07:24:08,591   adding 'tests/core_utils/test_feature_file_utils.py'
2024-01-04T07:24:08,593   adding 'tests/core_utils/test_file_utils.py'
2024-01-04T07:24:08,594   adding 'tests/core_utils/test_string_utils.py'
2024-01-04T07:24:08,597   adding 'tests/test_data/CBS.fa'
2024-01-04T07:24:08,598   adding 'tests/test_data/CBS.gff'
2024-01-04T07:24:08,602   adding 'tests/test_data/CBS_pEZY3.fa'
2024-01-04T07:24:08,695   adding 'tests/test_data/CBS_pEZY3.fa.1.bt2'
2024-01-04T07:24:08,722   adding 'tests/test_data/CBS_pEZY3.fa.2.bt2'
2024-01-04T07:24:08,723   adding 'tests/test_data/CBS_pEZY3.fa.3.bt2'
2024-01-04T07:24:08,724   adding 'tests/test_data/CBS_pEZY3.fa.4.bt2'
2024-01-04T07:24:08,726   adding 'tests/test_data/CBS_pEZY3.fa.fai'
2024-01-04T07:24:08,819   adding 'tests/test_data/CBS_pEZY3.fa.rev.1.bt2'
2024-01-04T07:24:08,846   adding 'tests/test_data/CBS_pEZY3.fa.rev.2.bt2'
2024-01-04T07:24:08,847   adding 'tests/test_data/CBS_pEZY3.gff'
2024-01-04T07:24:08,848   adding 'tests/test_data/CBS_pEZY3_primers.bed'
2024-01-04T07:24:08,850   adding 'tests/test_data/CBS_pEZY3_targets.bed'
2024-01-04T07:24:08,851   adding 'tests/test_data/CBS_sim.R1.fq.gz'
2024-01-04T07:24:08,852   adding 'tests/test_data/CBS_sim.R2.fq.gz'
2024-01-04T07:24:08,854   adding 'tests/test_data/CBS_sim.bam'
2024-01-04T07:24:08,855   adding 'tests/test_data/CBS_sim.bam.bai'
2024-01-04T07:24:08,856   adding 'tests/test_data/CBS_sim.vcf'
2024-01-04T07:24:08,858   adding 'tests/test_data/CBS_sim_primers.bed'
2024-01-04T07:24:10,160   adding 'tests/test_data/GRCh38.chr21.fa.gz'
2024-01-04T07:24:10,235   adding 'tests/test_data/PKNOX1.fa'
2024-01-04T07:24:10,236   adding 'tests/test_data/__init__.py'
2024-01-04T07:24:10,239   adding 'tests/test_data/appris_human_24_01_2019_selected.fa'
2024-01-04T07:24:10,241   adding 'tests/test_data/appris_human_24_01_2019_selected.fa.fai'
2024-01-04T07:24:10,242   adding 'tests/test_data/appris_human_v1_actual_regions_contigs.txt'
2024-01-04T07:24:10,243   adding 'tests/test_data/appris_human_v1_actual_regions_gene_ids.txt'
2024-01-04T07:24:10,244   adding 'tests/test_data/appris_human_v1_actual_regions_trx_ids.txt'
2024-01-04T07:24:10,246   adding 'tests/test_data/gencode.v29.annotation.gtf'
2024-01-04T07:24:10,248   adding 'tests/test_data/test_preprocess.bam'
2024-01-04T07:24:10,249   adding 'tests/test_data/test_preprocess.bam.bai'
2024-01-04T07:24:10,251   adding 'tests/test_data/test_preprocess.sam'
2024-01-04T07:24:10,252   adding 'tests/test_data/test_preprocess.sort.bam'
2024-01-04T07:24:10,253   adding 'tests/test_data/test_preprocess.sort.bam.bai'
2024-01-04T07:24:10,259   adding 'satmut_utils-1.1.2.dist-info/LICENSE.txt'
2024-01-04T07:24:10,261   adding 'satmut_utils-1.1.2.dist-info/METADATA'
2024-01-04T07:24:10,262   adding 'satmut_utils-1.1.2.dist-info/WHEEL'
2024-01-04T07:24:10,263   adding 'satmut_utils-1.1.2.dist-info/entry_points.txt'
2024-01-04T07:24:10,264   adding 'satmut_utils-1.1.2.dist-info/top_level.txt'
2024-01-04T07:24:10,265   adding 'satmut_utils-1.1.2.dist-info/RECORD'
2024-01-04T07:24:10,393   removing build/bdist.linux-armv7l/wheel
2024-01-04T07:24:10,509   Building wheel for satmut-utils (pyproject.toml): finished with status 'done'
2024-01-04T07:24:10,756   Created wheel for satmut-utils: filename=satmut_utils-1.1.2-py3-none-any.whl size=12001862 sha256=42f9e77abca428ce5913457c68764048176332fa41953e1dfef563ffee6f7a60
2024-01-04T07:24:10,757   Stored in directory: /tmp/pip-ephem-wheel-cache-lx1t_24s/wheels/ab/13/5a/6ce06e0505133ab20febe4a61bcdd24fa0e8db4d90c79d27d9
2024-01-04T07:24:10,775 Successfully built satmut-utils
2024-01-04T07:24:11,368 Removed build tracker: '/tmp/pip-build-tracker-wexzgdkw'