2025-06-06T03:27:43,272 Created temporary directory: /tmp/pip-build-tracker-0qqpteb_ 2025-06-06T03:27:43,274 Initialized build tracking at /tmp/pip-build-tracker-0qqpteb_ 2025-06-06T03:27:43,274 Created build tracker: /tmp/pip-build-tracker-0qqpteb_ 2025-06-06T03:27:43,274 Entered build tracker: /tmp/pip-build-tracker-0qqpteb_ 2025-06-06T03:27:43,275 Created temporary directory: /tmp/pip-wheel-ld4u_nk7 2025-06-06T03:27:43,279 Created temporary directory: /tmp/pip-ephem-wheel-cache-taescmsx 2025-06-06T03:27:43,330 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-06-06T03:27:43,332 2 location(s) to search for versions of ont-spectre: 2025-06-06T03:27:43,332 * https://pypi.org/simple/ont-spectre/ 2025-06-06T03:27:43,332 * https://www.piwheels.org/simple/ont-spectre/ 2025-06-06T03:27:43,333 Fetching project page and analyzing links: https://pypi.org/simple/ont-spectre/ 2025-06-06T03:27:43,334 Getting page https://pypi.org/simple/ont-spectre/ 2025-06-06T03:27:43,336 Found index url https://pypi.org/simple/ 2025-06-06T03:27:43,618 Fetched page https://pypi.org/simple/ont-spectre/ as application/vnd.pypi.simple.v1+json 2025-06-06T03:27:43,620 Found link https://files.pythonhosted.org/packages/8c/ac/f5d215a7de78360886138cac41885b9b109419966ec8a9e6ffeb26c08391/ont-spectre-0.2.0.tar.gz (from https://pypi.org/simple/ont-spectre/), version: 0.2.0 2025-06-06T03:27:43,621 Found link https://files.pythonhosted.org/packages/c1/f1/1629482a61c0ee61f830cbcd418e0660c4fd2bbf3c4ba5584e3476ee0bf6/ont_spectre-0.2.1.tar.gz (from https://pypi.org/simple/ont-spectre/), version: 0.2.1 2025-06-06T03:27:43,621 Found link https://files.pythonhosted.org/packages/77/f0/48fb32bd5b1307b5dbeb8c4b514fdc725dff0e3ccf946a4af58d1b7b06fa/ont_spectre-0.2.2.tar.gz (from https://pypi.org/simple/ont-spectre/), version: 0.2.2 2025-06-06T03:27:43,622 Found link https://files.pythonhosted.org/packages/39/98/94dfa3c1cd823453a7aa12b3cd073236eeea90c4ec4881dbc6bb49b84b06/ont_spectre-0.3.0.tar.gz (from https://pypi.org/simple/ont-spectre/) (requires-python:>=3.8), version: 0.3.0 2025-06-06T03:27:43,623 Found link https://files.pythonhosted.org/packages/8b/a0/bc4dfeef8dde1c9733b5093c99d15eb3c7bee0d15474beb6175d331ac116/ont_spectre-0.3.1.tar.gz (from https://pypi.org/simple/ont-spectre/) (requires-python:>=3.8), version: 0.3.1 2025-06-06T03:27:43,624 Found link https://files.pythonhosted.org/packages/f2/b2/c357939b9e91cf692c1c770f55989fadc333d586a877c4b2343bcce75566/ont_spectre-0.3.2.tar.gz (from https://pypi.org/simple/ont-spectre/) (requires-python:>=3.8), version: 0.3.2 2025-06-06T03:27:43,625 Found link https://files.pythonhosted.org/packages/53/2b/e2715890ac4ce4f8341bb8aba1bc8266c46b3fd1f6d4590a03fbdff8e79a/ont_spectre-0.3.3.tar.gz (from https://pypi.org/simple/ont-spectre/) (requires-python:>=3.8), version: 0.3.3 2025-06-06T03:27:43,626 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-spectre/ 2025-06-06T03:27:43,626 Getting page https://www.piwheels.org/simple/ont-spectre/ 2025-06-06T03:27:43,628 Found index url https://www.piwheels.org/simple/ 2025-06-06T03:27:43,776 WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/ont-spectre/ 2025-06-06T03:27:44,428 WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/ont-spectre/ 2025-06-06T03:27:45,577 WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/ont-spectre/ 2025-06-06T03:27:47,799 WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/ont-spectre/ 2025-06-06T03:27:52,013 WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/ont-spectre/ 2025-06-06T03:27:52,226 Could not fetch URL https://www.piwheels.org/simple/ont-spectre/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/ont-spectre/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping 2025-06-06T03:27:52,228 Skipping link: not a file: https://www.piwheels.org/simple/ont-spectre/ 2025-06-06T03:27:52,228 Skipping link: not a file: https://pypi.org/simple/ont-spectre/ 2025-06-06T03:27:52,247 Given no hashes to check 1 links for project 'ont-spectre': discarding no candidates 2025-06-06T03:27:52,249 Collecting ont-spectre==0.3.3 2025-06-06T03:27:52,251 Created temporary directory: /tmp/pip-unpack-bco6k7np 2025-06-06T03:27:52,473 Downloading ont_spectre-0.3.3.tar.gz (162 kB) 2025-06-06T03:27:52,648 Added ont-spectre==0.3.3 from https://files.pythonhosted.org/packages/53/2b/e2715890ac4ce4f8341bb8aba1bc8266c46b3fd1f6d4590a03fbdff8e79a/ont_spectre-0.3.3.tar.gz to build tracker '/tmp/pip-build-tracker-0qqpteb_' 2025-06-06T03:27:52,650 Running setup.py (path:/tmp/pip-wheel-ld4u_nk7/ont-spectre_114405e1566f494a9bd2657c86e7ef57/setup.py) egg_info for package ont-spectre 2025-06-06T03:27:52,651 Created temporary directory: /tmp/pip-pip-egg-info-m4ctrjsi 2025-06-06T03:27:52,652 Preparing metadata (setup.py): started 2025-06-06T03:27:52,653 Running command python setup.py egg_info 2025-06-06T03:27:53,171 /tmp/pip-wheel-ld4u_nk7/ont-spectre_114405e1566f494a9bd2657c86e7ef57/setup.py:5: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. 2025-06-06T03:27:53,171 import pkg_resources 2025-06-06T03:27:53,429 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-06-06T03:27:53,429 !! 2025-06-06T03:27:53,431 ******************************************************************************** 2025-06-06T03:27:53,431 Requirements should be satisfied by a PEP 517 installer. 2025-06-06T03:27:53,432 If you are using pip, you can try `pip install --use-pep517`. 2025-06-06T03:27:53,433 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-06T03:27:53,433 or your builds will no longer be supported. 2025-06-06T03:27:53,434 ******************************************************************************** 2025-06-06T03:27:53,435 !! 2025-06-06T03:27:53,435 dist.fetch_build_eggs(dist.setup_requires) 2025-06-06T03:27:53,859 running egg_info 2025-06-06T03:27:53,886 creating /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info 2025-06-06T03:27:53,887 writing /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/PKG-INFO 2025-06-06T03:27:53,890 writing dependency_links to /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/dependency_links.txt 2025-06-06T03:27:53,892 writing entry points to /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/entry_points.txt 2025-06-06T03:27:53,893 writing requirements to /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/requires.txt 2025-06-06T03:27:53,895 writing top-level names to /tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/top_level.txt 2025-06-06T03:27:53,896 writing manifest file '/tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/SOURCES.txt' 2025-06-06T03:27:53,986 reading manifest file '/tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/SOURCES.txt' 2025-06-06T03:27:53,987 reading manifest template 'MANIFEST.in' 2025-06-06T03:27:53,989 adding license file 'LICENSE.md' 2025-06-06T03:27:53,992 writing manifest file '/tmp/pip-pip-egg-info-m4ctrjsi/ont_spectre.egg-info/SOURCES.txt' 2025-06-06T03:27:54,103 Preparing metadata (setup.py): finished with status 'done' 2025-06-06T03:27:54,107 Source in /tmp/pip-wheel-ld4u_nk7/ont-spectre_114405e1566f494a9bd2657c86e7ef57 has version 0.3.3, which satisfies requirement ont-spectre==0.3.3 from https://files.pythonhosted.org/packages/53/2b/e2715890ac4ce4f8341bb8aba1bc8266c46b3fd1f6d4590a03fbdff8e79a/ont_spectre-0.3.3.tar.gz 2025-06-06T03:27:54,108 Removed ont-spectre==0.3.3 from https://files.pythonhosted.org/packages/53/2b/e2715890ac4ce4f8341bb8aba1bc8266c46b3fd1f6d4590a03fbdff8e79a/ont_spectre-0.3.3.tar.gz from build tracker '/tmp/pip-build-tracker-0qqpteb_' 2025-06-06T03:27:54,116 Created temporary directory: /tmp/pip-unpack-_xe5zg0a 2025-06-06T03:27:54,117 Created temporary directory: /tmp/pip-unpack-wp0_xa2k 2025-06-06T03:27:54,117 Building wheels for collected packages: ont-spectre 2025-06-06T03:27:54,121 Created temporary directory: /tmp/pip-wheel-7qrxcwaa 2025-06-06T03:27:54,121 DEPRECATION: Building 'ont-spectre' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'ont-spectre'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-06-06T03:27:54,123 Building wheel for ont-spectre (setup.py): started 2025-06-06T03:27:54,124 Destination directory: /tmp/pip-wheel-7qrxcwaa 2025-06-06T03:27:54,124 Running command python setup.py bdist_wheel 2025-06-06T03:27:54,597 /tmp/pip-wheel-ld4u_nk7/ont-spectre_114405e1566f494a9bd2657c86e7ef57/setup.py:5: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. 2025-06-06T03:27:54,597 import pkg_resources 2025-06-06T03:27:54,844 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-06-06T03:27:54,845 !! 2025-06-06T03:27:54,846 ******************************************************************************** 2025-06-06T03:27:54,847 Requirements should be satisfied by a PEP 517 installer. 2025-06-06T03:27:54,848 If you are using pip, you can try `pip install --use-pep517`. 2025-06-06T03:27:54,849 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-06T03:27:54,850 or your builds will no longer be supported. 2025-06-06T03:27:54,850 ******************************************************************************** 2025-06-06T03:27:54,852 !! 2025-06-06T03:27:54,852 dist.fetch_build_eggs(dist.setup_requires) 2025-06-06T03:27:55,240 running bdist_wheel 2025-06-06T03:27:55,371 running build 2025-06-06T03:27:55,371 running build_py 2025-06-06T03:27:55,400 creating build/lib/spectre 2025-06-06T03:27:55,403 copying spectre/main.py -> build/lib/spectre 2025-06-06T03:27:55,405 copying spectre/__init__.py -> build/lib/spectre 2025-06-06T03:27:55,407 copying spectre/spectreCNV.py -> build/lib/spectre 2025-06-06T03:27:55,410 copying spectre/spectreCNVPopulation.py -> build/lib/spectre 2025-06-06T03:27:55,412 creating build/lib/spectre/analysis 2025-06-06T03:27:55,413 copying spectre/analysis/call_cnv_coverage.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,416 copying spectre/analysis/cnv_candidate.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,418 copying spectre/analysis/analysis.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,421 copying spectre/analysis/__init__.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,422 copying spectre/analysis/call_cnv_AF.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,424 copying spectre/analysis/coverage_stats.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,426 copying spectre/analysis/cnv_metrics.py -> build/lib/spectre/analysis 2025-06-06T03:27:55,429 creating build/lib/spectre/util 2025-06-06T03:27:55,430 copying spectre/util/dataAnalyzer.py -> build/lib/spectre/util 2025-06-06T03:27:55,432 copying spectre/util/__init__.py -> build/lib/spectre/util 2025-06-06T03:27:55,433 copying spectre/util/outputWriter.py -> build/lib/spectre/util 2025-06-06T03:27:55,435 copying spectre/util/mosdepthReader.py -> build/lib/spectre/util 2025-06-06T03:27:55,437 copying spectre/util/OSUtil.py -> build/lib/spectre/util 2025-06-06T03:27:55,439 copying spectre/util/vcf_parser.py -> build/lib/spectre/util 2025-06-06T03:27:55,441 copying spectre/util/cnv_id.py -> build/lib/spectre/util 2025-06-06T03:27:55,443 creating build/lib/spectre/plots 2025-06-06T03:27:55,444 copying spectre/plots/__init__.py -> build/lib/spectre/plots 2025-06-06T03:27:55,445 copying spectre/plots/plot.py -> build/lib/spectre/plots 2025-06-06T03:27:55,448 creating build/lib/spectre/util/metadata 2025-06-06T03:27:55,449 copying spectre/util/metadata/__init__.py -> build/lib/spectre/util/metadata 2025-06-06T03:27:55,451 copying spectre/util/metadata/metadataCollector.py -> build/lib/spectre/util/metadata 2025-06-06T03:27:55,456 creating build/lib/spectre/data 2025-06-06T03:27:55,457 copying spectre/data/chm13v2_blacklist_v1.0.bed -> build/lib/spectre/data 2025-06-06T03:27:55,461 copying spectre/data/hg38_blacklist_v1.0.bed -> build/lib/spectre/data 2025-06-06T03:27:55,467 copying spectre/data/hg38_metadata.mdr -> build/lib/spectre/data 2025-06-06T03:27:55,470 copying spectre/data/chm13v2_metadata.mdr -> build/lib/spectre/data 2025-06-06T03:27:55,472 copying spectre/data/hg19_blacklist_v1.0.bed -> build/lib/spectre/data 2025-06-06T03:27:55,477 copying spectre/data/hg19_metadata.mdr -> build/lib/spectre/data 2025-06-06T03:27:55,509 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-06-06T03:27:55,510 !! 2025-06-06T03:27:55,511 ******************************************************************************** 2025-06-06T03:27:55,511 Please avoid running ``setup.py`` directly. 2025-06-06T03:27:55,512 Instead, use pypa/build, pypa/installer or other 2025-06-06T03:27:55,512 standards-based tools. 2025-06-06T03:27:55,513 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-06T03:27:55,514 or your builds will no longer be supported. 2025-06-06T03:27:55,515 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-06-06T03:27:55,516 ******************************************************************************** 2025-06-06T03:27:55,517 !! 2025-06-06T03:27:55,517 self.initialize_options() 2025-06-06T03:27:55,539 installing to build/bdist.linux-armv7l/wheel 2025-06-06T03:27:55,540 running install 2025-06-06T03:27:55,563 running install_lib 2025-06-06T03:27:55,590 creating build/bdist.linux-armv7l/wheel 2025-06-06T03:27:55,592 creating build/bdist.linux-armv7l/wheel/spectre 2025-06-06T03:27:55,593 copying build/lib/spectre/main.py -> build/bdist.linux-armv7l/wheel/./spectre 2025-06-06T03:27:55,597 creating build/bdist.linux-armv7l/wheel/spectre/analysis 2025-06-06T03:27:55,598 copying build/lib/spectre/analysis/call_cnv_coverage.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,600 copying build/lib/spectre/analysis/cnv_candidate.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,602 copying build/lib/spectre/analysis/analysis.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,605 copying build/lib/spectre/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,606 copying build/lib/spectre/analysis/call_cnv_AF.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,608 copying build/lib/spectre/analysis/coverage_stats.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,610 copying build/lib/spectre/analysis/cnv_metrics.py -> build/bdist.linux-armv7l/wheel/./spectre/analysis 2025-06-06T03:27:55,613 creating build/bdist.linux-armv7l/wheel/spectre/util 2025-06-06T03:27:55,614 copying build/lib/spectre/util/dataAnalyzer.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,616 copying build/lib/spectre/util/__init__.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,618 copying build/lib/spectre/util/outputWriter.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,620 creating build/bdist.linux-armv7l/wheel/spectre/util/metadata 2025-06-06T03:27:55,621 copying build/lib/spectre/util/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./spectre/util/metadata 2025-06-06T03:27:55,623 copying build/lib/spectre/util/metadata/metadataCollector.py -> build/bdist.linux-armv7l/wheel/./spectre/util/metadata 2025-06-06T03:27:55,625 copying build/lib/spectre/util/mosdepthReader.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,627 copying build/lib/spectre/util/OSUtil.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,629 copying build/lib/spectre/util/vcf_parser.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,631 copying build/lib/spectre/util/cnv_id.py -> build/bdist.linux-armv7l/wheel/./spectre/util 2025-06-06T03:27:55,633 copying build/lib/spectre/__init__.py -> build/bdist.linux-armv7l/wheel/./spectre 2025-06-06T03:27:55,634 copying build/lib/spectre/spectreCNV.py -> build/bdist.linux-armv7l/wheel/./spectre 2025-06-06T03:27:55,637 copying build/lib/spectre/spectreCNVPopulation.py -> build/bdist.linux-armv7l/wheel/./spectre 2025-06-06T03:27:55,639 creating build/bdist.linux-armv7l/wheel/spectre/data 2025-06-06T03:27:55,641 copying build/lib/spectre/data/chm13v2_blacklist_v1.0.bed -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,644 copying build/lib/spectre/data/hg38_blacklist_v1.0.bed -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,650 copying build/lib/spectre/data/hg38_metadata.mdr -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,652 copying build/lib/spectre/data/chm13v2_metadata.mdr -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,654 copying build/lib/spectre/data/hg19_blacklist_v1.0.bed -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,660 copying build/lib/spectre/data/hg19_metadata.mdr -> build/bdist.linux-armv7l/wheel/./spectre/data 2025-06-06T03:27:55,663 creating build/bdist.linux-armv7l/wheel/spectre/plots 2025-06-06T03:27:55,664 copying build/lib/spectre/plots/__init__.py -> build/bdist.linux-armv7l/wheel/./spectre/plots 2025-06-06T03:27:55,666 copying build/lib/spectre/plots/plot.py -> build/bdist.linux-armv7l/wheel/./spectre/plots 2025-06-06T03:27:55,667 running install_egg_info 2025-06-06T03:27:55,695 running egg_info 2025-06-06T03:27:55,721 writing ont_spectre.egg-info/PKG-INFO 2025-06-06T03:27:55,724 writing dependency_links to ont_spectre.egg-info/dependency_links.txt 2025-06-06T03:27:55,725 writing entry points to ont_spectre.egg-info/entry_points.txt 2025-06-06T03:27:55,727 writing requirements to ont_spectre.egg-info/requires.txt 2025-06-06T03:27:55,728 writing top-level names to ont_spectre.egg-info/top_level.txt 2025-06-06T03:27:55,761 reading manifest file 'ont_spectre.egg-info/SOURCES.txt' 2025-06-06T03:27:55,765 reading manifest template 'MANIFEST.in' 2025-06-06T03:27:55,766 adding license file 'LICENSE.md' 2025-06-06T03:27:55,770 writing manifest file 'ont_spectre.egg-info/SOURCES.txt' 2025-06-06T03:27:55,772 Copying ont_spectre.egg-info to build/bdist.linux-armv7l/wheel/./ont_spectre-0.3.3-py3.11.egg-info 2025-06-06T03:27:55,786 running install_scripts 2025-06-06T03:27:55,801 creating build/bdist.linux-armv7l/wheel/ont_spectre-0.3.3.dist-info/WHEEL 2025-06-06T03:27:55,804 creating '/tmp/pip-wheel-7qrxcwaa/ont_spectre-0.3.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-06-06T03:27:55,810 adding 'ont_spectre-0.3.3.dist-info/licenses/LICENSE.md' 2025-06-06T03:27:55,812 adding 'spectre/__init__.py' 2025-06-06T03:27:55,816 adding 'spectre/main.py' 2025-06-06T03:27:55,819 adding 'spectre/spectreCNV.py' 2025-06-06T03:27:55,821 adding 'spectre/spectreCNVPopulation.py' 2025-06-06T03:27:55,823 adding 'spectre/analysis/__init__.py' 2025-06-06T03:27:55,829 adding 'spectre/analysis/analysis.py' 2025-06-06T03:27:55,831 adding 'spectre/analysis/call_cnv_AF.py' 2025-06-06T03:27:55,833 adding 'spectre/analysis/call_cnv_coverage.py' 2025-06-06T03:27:55,835 adding 'spectre/analysis/cnv_candidate.py' 2025-06-06T03:27:55,839 adding 'spectre/analysis/cnv_metrics.py' 2025-06-06T03:27:55,841 adding 'spectre/analysis/coverage_stats.py' 2025-06-06T03:27:55,856 adding 'spectre/data/chm13v2_blacklist_v1.0.bed' 2025-06-06T03:27:55,858 adding 'spectre/data/chm13v2_metadata.mdr' 2025-06-06T03:27:55,892 adding 'spectre/data/hg19_blacklist_v1.0.bed' 2025-06-06T03:27:55,895 adding 'spectre/data/hg19_metadata.mdr' 2025-06-06T03:27:55,928 adding 'spectre/data/hg38_blacklist_v1.0.bed' 2025-06-06T03:27:55,934 adding 'spectre/data/hg38_metadata.mdr' 2025-06-06T03:27:55,936 adding 'spectre/plots/__init__.py' 2025-06-06T03:27:55,937 adding 'spectre/plots/plot.py' 2025-06-06T03:27:55,939 adding 'spectre/util/OSUtil.py' 2025-06-06T03:27:55,940 adding 'spectre/util/__init__.py' 2025-06-06T03:27:55,941 adding 'spectre/util/cnv_id.py' 2025-06-06T03:27:55,942 adding 'spectre/util/dataAnalyzer.py' 2025-06-06T03:27:55,944 adding 'spectre/util/mosdepthReader.py' 2025-06-06T03:27:55,945 adding 'spectre/util/outputWriter.py' 2025-06-06T03:27:55,947 adding 'spectre/util/vcf_parser.py' 2025-06-06T03:27:55,949 adding 'spectre/util/metadata/__init__.py' 2025-06-06T03:27:55,950 adding 'spectre/util/metadata/metadataCollector.py' 2025-06-06T03:27:55,952 adding 'ont_spectre-0.3.3.dist-info/METADATA' 2025-06-06T03:27:55,953 adding 'ont_spectre-0.3.3.dist-info/WHEEL' 2025-06-06T03:27:55,954 adding 'ont_spectre-0.3.3.dist-info/entry_points.txt' 2025-06-06T03:27:55,955 adding 'ont_spectre-0.3.3.dist-info/top_level.txt' 2025-06-06T03:27:55,956 adding 'ont_spectre-0.3.3.dist-info/RECORD' 2025-06-06T03:27:55,959 removing build/bdist.linux-armv7l/wheel 2025-06-06T03:27:56,080 Building wheel for ont-spectre (setup.py): finished with status 'done' 2025-06-06T03:27:56,084 Created wheel for ont-spectre: filename=ont_spectre-0.3.3-py3-none-any.whl size=169564 sha256=0851790d1f606b4061a4402ad490d0f565d86fe697bfe4f371ffa4f174b1dc9e 2025-06-06T03:27:56,085 Stored in directory: /tmp/pip-ephem-wheel-cache-taescmsx/wheels/05/62/ee/9e752f63aad96e5a486868b03132f376df746d1873171de533 2025-06-06T03:27:56,098 Successfully built ont-spectre 2025-06-06T03:27:56,105 Removed build tracker: '/tmp/pip-build-tracker-0qqpteb_'