2025-06-08T13:53:05,855 Created temporary directory: /tmp/pip-build-tracker-njcoptcq 2025-06-08T13:53:05,856 Initialized build tracking at /tmp/pip-build-tracker-njcoptcq 2025-06-08T13:53:05,857 Created build tracker: /tmp/pip-build-tracker-njcoptcq 2025-06-08T13:53:05,858 Entered build tracker: /tmp/pip-build-tracker-njcoptcq 2025-06-08T13:53:05,858 Created temporary directory: /tmp/pip-wheel-5lmy3mjw 2025-06-08T13:53:05,862 Created temporary directory: /tmp/pip-ephem-wheel-cache-k5nzarcz 2025-06-08T13:53:05,918 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-06-08T13:53:05,921 2 location(s) to search for versions of xi-mzidentml-converter: 2025-06-08T13:53:05,921 * https://pypi.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:05,921 * https://www.piwheels.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:05,921 Fetching project page and analyzing links: https://pypi.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:05,922 Getting page 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https://files.pythonhosted.org/packages/3e/20/655a8642d0b5b9dffffd3f435f63fe4cb67b7617a9b16a78ff152ee6c0b1/xi_mzidentml_converter-0.1.29.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.1.29 2025-06-08T13:53:06,211 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/8b/21/4f47692b28d8ea03782fe6a79eba29d8d35b50ef2875bb05198276248d66/xi_mzidentml_converter-0.2.0-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,212 Found link https://files.pythonhosted.org/packages/4f/78/1fd132cf1e6f9a3e2018907b69e861dd5b5d057c47c658aec142babc890d/xi_mzidentml_converter-0.2.0.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.2.0 2025-06-08T13:53:06,212 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/0c/da/c2750ce3b90484964d5c5eb00491ed8fc16d2c40d8610191ec64d5d018cb/xi_mzidentml_converter-0.2.2-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,213 Found link https://files.pythonhosted.org/packages/1a/28/38b2d1ad6ffc0ec743135f5ef36a9249a37d03ed554b6ee5b74ea28551a1/xi_mzidentml_converter-0.2.2.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.2.2 2025-06-08T13:53:06,214 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/33/fe/3f4318a90c5ff0c3f367d41331d1ff01bce6513866d2e7a3e4315dd216d4/xi_mzidentml_converter-0.2.3-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,214 Found link https://files.pythonhosted.org/packages/c1/57/212495a02a87a024a7b1606943202419be0cd22a2fa2d24585e89fe53d7d/xi_mzidentml_converter-0.2.3.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.2.3 2025-06-08T13:53:06,215 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/4e/e1/0ba0edb131b390ab4ac39284b7a38c379f46420f83ca85f37e8727590a3c/xi_mzidentml_converter-0.2.4-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,216 Found link https://files.pythonhosted.org/packages/e2/8d/2dce1fe8d2ecf04703a3d6e2ce22fe901ee0402d9afb489ee9b75d8288e0/xi_mzidentml_converter-0.2.4.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.2.4 2025-06-08T13:53:06,217 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/f7/95/4b13dc191a39d34aa4acd22dc7de419adfa3d700b6ad99f0ecd28a08332d/xi_mzidentml_converter-0.2.7-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,218 Found link https://files.pythonhosted.org/packages/93/52/a6a8a39ba1b0f6fcb85a8148ff157cff86f2543222341f84dbaf00eb2a3d/xi_mzidentml_converter-0.2.7.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.2.7 2025-06-08T13:53:06,218 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/f6/cb/0186eced7d81fd649bc7aa8787b4a7148f8a9f9060f96189b3c4117487e0/xi_mzidentml_converter-0.3.0-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,219 Found link https://files.pythonhosted.org/packages/6f/56/d2e449012f726687b0d407d1a8888673ad083139eef41bdfd12e70002909/xi_mzidentml_converter-0.3.0.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.0 2025-06-08T13:53:06,220 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/fe/06/2b22ef58a48d28b14fb3c175b3341fdd962b58bc5351695f1156d0c481d0/xi_mzidentml_converter-0.3.1-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,220 Found link https://files.pythonhosted.org/packages/ce/78/d38839bab31fa18f173eeb7c68f1dd136d341b1e499c88d7440c00081361/xi_mzidentml_converter-0.3.1.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.1 2025-06-08T13:53:06,221 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/54/ed/b42017ff83671405c3d5dee99142895adf9adfeffdbf2e790b25398daa26/xi_mzidentml_converter-0.3.2-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,222 Found link https://files.pythonhosted.org/packages/06/7e/7a5bf1dc50e47aec8655bc80d81184f9a45e26fa56569cbbedee37535a23/xi_mzidentml_converter-0.3.2.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.2 2025-06-08T13:53:06,223 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/93/30/c2a14aec9fac3cce422a9d351d49ce7cea7fb3f8caec9ea91e9d5d8ed519/xi_mzidentml_converter-0.3.3-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,224 Found link https://files.pythonhosted.org/packages/27/c3/8404435574079e2f095728774f0e516d3105683491f3321ea535b15b5965/xi_mzidentml_converter-0.3.3.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.3 2025-06-08T13:53:06,224 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/a5/e6/e2907b83bc024861584416fa2163191ffe77cc99b6d2eaed4f66485c52d7/xi_mzidentml_converter-0.3.4-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,225 Found link https://files.pythonhosted.org/packages/fb/99/3642a15f4a82517719e2a42400ecf3f8c274856fd633a66b36f870132dff/xi_mzidentml_converter-0.3.4.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.4 2025-06-08T13:53:06,226 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/25/c6/5f7cb985ff9eeaf54dbc391f7d2e9585a5feb5a4be4386c71034c15affd9/xi_mzidentml_converter-0.3.5-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,226 Found link https://files.pythonhosted.org/packages/f6/02/4d88fea0f08b88af55aef28ddf6f8a04261e80ccedf9568934640b6f6dbf/xi_mzidentml_converter-0.3.5.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.5 2025-06-08T13:53:06,227 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/8b/42/2ddb15b8b9995d9f1ece1710dc81377fca1584644f2e23983ee11870930b/xi_mzidentml_converter-0.3.6-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,228 Found link https://files.pythonhosted.org/packages/a5/83/a9faa736b10bb57673de49ea5e0a358f718aed7be094989066eb8401511f/xi_mzidentml_converter-0.3.6.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.6 2025-06-08T13:53:06,229 Skipping link: No binaries permitted for xi-mzidentml-converter: https://files.pythonhosted.org/packages/0a/7a/1c48864e33a1b4efb6c6d1892f41cd970df7b2f3fef26eb5056b49677780/xi_mzidentml_converter-0.3.8-py3-none-any.whl (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10) 2025-06-08T13:53:06,230 Found link https://files.pythonhosted.org/packages/3a/ad/bfc021f70f72a934c6454dcb0084d47365e9c526a8e2e65abc37eb53bfd3/xi_mzidentml_converter-0.3.8.tar.gz (from https://pypi.org/simple/xi-mzidentml-converter/) (requires-python:>=3.10), version: 0.3.8 2025-06-08T13:53:06,230 Fetching project page and analyzing links: https://www.piwheels.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:06,232 Getting page https://www.piwheels.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:06,233 Found index url https://www.piwheels.org/simple/ 2025-06-08T13:53:06,394 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/xi-mzidentml-converter/ 2025-06-08T13:53:07,055 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/xi-mzidentml-converter/ 2025-06-08T13:53:08,227 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/xi-mzidentml-converter/ 2025-06-08T13:53:10,400 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/xi-mzidentml-converter/ 2025-06-08T13:53:14,572 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/xi-mzidentml-converter/ 2025-06-08T13:53:14,738 Could not fetch URL https://www.piwheels.org/simple/xi-mzidentml-converter/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/xi-mzidentml-converter/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping 2025-06-08T13:53:14,740 Skipping link: not a file: https://www.piwheels.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:14,741 Skipping link: not a file: https://pypi.org/simple/xi-mzidentml-converter/ 2025-06-08T13:53:14,766 Given no hashes to check 1 links for project 'xi-mzidentml-converter': discarding no candidates 2025-06-08T13:53:14,768 Collecting xi-mzidentml-converter==0.3.8 2025-06-08T13:53:14,770 Created temporary directory: /tmp/pip-unpack-y7xv9n5f 2025-06-08T13:53:14,997 Downloading xi_mzidentml_converter-0.3.8.tar.gz (97 kB) 2025-06-08T13:53:15,209 Added xi-mzidentml-converter==0.3.8 from https://files.pythonhosted.org/packages/3a/ad/bfc021f70f72a934c6454dcb0084d47365e9c526a8e2e65abc37eb53bfd3/xi_mzidentml_converter-0.3.8.tar.gz to build tracker '/tmp/pip-build-tracker-njcoptcq' 2025-06-08T13:53:15,212 Running setup.py (path:/tmp/pip-wheel-5lmy3mjw/xi-mzidentml-converter_ee1a9b3f261f4da98c7af1999258d6eb/setup.py) egg_info for package xi-mzidentml-converter 2025-06-08T13:53:15,213 Created temporary directory: /tmp/pip-pip-egg-info-5gbyrs90 2025-06-08T13:53:15,214 Preparing metadata (setup.py): started 2025-06-08T13:53:15,215 Running command python setup.py egg_info 2025-06-08T13:53:16,120 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-08T13:53:16,120 !! 2025-06-08T13:53:16,122 ******************************************************************************** 2025-06-08T13:53:16,122 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-08T13:53:16,123 License :: OSI Approved :: Apache Software License 2025-06-08T13:53:16,125 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-08T13:53:16,126 ******************************************************************************** 2025-06-08T13:53:16,127 !! 2025-06-08T13:53:16,127 self._finalize_license_expression() 2025-06-08T13:53:16,152 running egg_info 2025-06-08T13:53:16,181 creating /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info 2025-06-08T13:53:16,182 writing /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/PKG-INFO 2025-06-08T13:53:16,186 writing dependency_links to /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/dependency_links.txt 2025-06-08T13:53:16,188 writing entry points to /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/entry_points.txt 2025-06-08T13:53:16,190 writing requirements to /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/requires.txt 2025-06-08T13:53:16,191 writing top-level names to /tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/top_level.txt 2025-06-08T13:53:16,192 writing manifest file '/tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/SOURCES.txt' 2025-06-08T13:53:16,295 reading manifest file '/tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/SOURCES.txt' 2025-06-08T13:53:16,297 adding license file 'LICENSE.md' 2025-06-08T13:53:16,301 writing manifest file '/tmp/pip-pip-egg-info-5gbyrs90/xi_mzidentml_converter.egg-info/SOURCES.txt' 2025-06-08T13:53:16,407 Preparing metadata (setup.py): finished with status 'done' 2025-06-08T13:53:16,411 Source in /tmp/pip-wheel-5lmy3mjw/xi-mzidentml-converter_ee1a9b3f261f4da98c7af1999258d6eb has version 0.3.8, which satisfies requirement xi-mzidentml-converter==0.3.8 from https://files.pythonhosted.org/packages/3a/ad/bfc021f70f72a934c6454dcb0084d47365e9c526a8e2e65abc37eb53bfd3/xi_mzidentml_converter-0.3.8.tar.gz 2025-06-08T13:53:16,412 Removed xi-mzidentml-converter==0.3.8 from https://files.pythonhosted.org/packages/3a/ad/bfc021f70f72a934c6454dcb0084d47365e9c526a8e2e65abc37eb53bfd3/xi_mzidentml_converter-0.3.8.tar.gz from build tracker '/tmp/pip-build-tracker-njcoptcq' 2025-06-08T13:53:16,422 Created temporary directory: /tmp/pip-unpack-nnjr9drv 2025-06-08T13:53:16,423 Created temporary directory: /tmp/pip-unpack-uiv5kh7k 2025-06-08T13:53:16,424 Building wheels for collected packages: xi-mzidentml-converter 2025-06-08T13:53:16,429 Created temporary directory: /tmp/pip-wheel-ytssn23c 2025-06-08T13:53:16,430 DEPRECATION: Building 'xi-mzidentml-converter' 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 'xi-mzidentml-converter'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-06-08T13:53:16,431 Building wheel for xi-mzidentml-converter (setup.py): started 2025-06-08T13:53:16,433 Destination directory: /tmp/pip-wheel-ytssn23c 2025-06-08T13:53:16,434 Running command python setup.py bdist_wheel 2025-06-08T13:53:17,278 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-08T13:53:17,279 !! 2025-06-08T13:53:17,280 ******************************************************************************** 2025-06-08T13:53:17,280 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-08T13:53:17,282 License :: OSI Approved :: Apache Software License 2025-06-08T13:53:17,283 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-08T13:53:17,284 ******************************************************************************** 2025-06-08T13:53:17,285 !! 2025-06-08T13:53:17,285 self._finalize_license_expression() 2025-06-08T13:53:17,286 running bdist_wheel 2025-06-08T13:53:17,420 running build 2025-06-08T13:53:17,421 running build_py 2025-06-08T13:53:17,453 creating build/lib/models 2025-06-08T13:53:17,455 copying models/projectsubdetail.py -> build/lib/models 2025-06-08T13:53:17,458 copying models/__init__.py -> build/lib/models 2025-06-08T13:53:17,459 copying models/enzyme.py -> build/lib/models 2025-06-08T13:53:17,461 copying models/base.py -> build/lib/models 2025-06-08T13:53:17,463 copying models/spectrumidentificationprotocol.py -> build/lib/models 2025-06-08T13:53:17,465 copying models/modifiedpeptide.py -> build/lib/models 2025-06-08T13:53:17,466 copying models/dbsequence.py -> build/lib/models 2025-06-08T13:53:17,468 copying models/projectdetail.py -> build/lib/models 2025-06-08T13:53:17,470 copying models/peptideevidence.py -> build/lib/models 2025-06-08T13:53:17,472 copying models/upload.py -> build/lib/models 2025-06-08T13:53:17,473 copying models/match.py -> build/lib/models 2025-06-08T13:53:17,475 copying models/searchmodification.py -> build/lib/models 2025-06-08T13:53:17,477 copying models/index.py -> build/lib/models 2025-06-08T13:53:17,479 copying models/spectradata.py -> build/lib/models 2025-06-08T13:53:17,480 copying models/analysiscollectionspectrumidentification.py -> build/lib/models 2025-06-08T13:53:17,482 copying models/spectrum.py -> build/lib/models 2025-06-08T13:53:17,485 creating build/lib/config 2025-06-08T13:53:17,486 copying config/__init__.py -> build/lib/config 2025-06-08T13:53:17,488 copying config/config_parser.py -> build/lib/config 2025-06-08T13:53:17,490 copying config/index.py -> build/lib/config 2025-06-08T13:53:17,492 copying config/database.py -> build/lib/config 2025-06-08T13:53:17,494 creating build/lib/parser 2025-06-08T13:53:17,495 copying parser/__main__.py -> build/lib/parser 2025-06-08T13:53:17,498 copying parser/MzIdParser.py -> build/lib/parser 2025-06-08T13:53:17,501 copying parser/__init__.py -> build/lib/parser 2025-06-08T13:53:17,503 copying parser/APIWriter.py -> build/lib/parser 2025-06-08T13:53:17,505 copying parser/DatabaseWriter.py -> build/lib/parser 2025-06-08T13:53:17,508 copying parser/SimpleFASTA.py -> build/lib/parser 2025-06-08T13:53:17,510 copying parser/process_dataset.py -> build/lib/parser 2025-06-08T13:53:17,512 copying parser/Writer.py -> build/lib/parser 2025-06-08T13:53:17,514 copying parser/schema_validate.py -> build/lib/parser 2025-06-08T13:53:17,517 creating build/lib/tests 2025-06-08T13:53:17,518 copying tests/test_fasta_reader.py -> build/lib/tests 2025-06-08T13:53:17,521 copying tests/test_mzid_1_3_0.py -> build/lib/tests 2025-06-08T13:53:17,523 copying tests/test_CsvParsers.py -> build/lib/tests 2025-06-08T13:53:17,526 copying tests/__init__.py -> build/lib/tests 2025-06-08T13:53:17,527 copying tests/test_MzIdParser_matrixscience2.py -> build/lib/tests 2025-06-08T13:53:17,530 copying tests/test_MzIdParser_matrixscience.py -> build/lib/tests 2025-06-08T13:53:17,532 copying tests/test_MzIdParser_ecoli_dsso.py -> build/lib/tests 2025-06-08T13:53:17,537 copying tests/compare.py -> build/lib/tests 2025-06-08T13:53:17,539 copying tests/parse_csv.py -> build/lib/tests 2025-06-08T13:53:17,541 copying tests/parse_mzid.py -> build/lib/tests 2025-06-08T13:53:17,543 copying tests/db_pytest_fixtures.py -> build/lib/tests 2025-06-08T13:53:17,545 creating build/lib/schema 2025-06-08T13:53:17,546 copying schema/__init__.py -> build/lib/schema 2025-06-08T13:53:17,549 creating build/lib/parser/csv_parser 2025-06-08T13:53:17,550 copying parser/csv_parser/__init__.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,552 copying parser/csv_parser/FullCsvParser.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,555 copying parser/csv_parser/NoPeakListsCsvParser.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,557 copying parser/csv_parser/XiSpecCsvParser.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,559 copying parser/csv_parser/LinksOnlyCsvParser.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,562 copying parser/csv_parser/AbstractCsvParser.py -> build/lib/parser/csv_parser 2025-06-08T13:53:17,565 creating build/lib/parser/peaklistReader 2025-06-08T13:53:17,565 copying parser/peaklistReader/__init__.py -> build/lib/parser/peaklistReader 2025-06-08T13:53:17,568 copying parser/peaklistReader/PeakListWrapper.py -> build/lib/parser/peaklistReader 2025-06-08T13:53:17,571 creating build/lib/parser/database 2025-06-08T13:53:17,572 copying parser/database/update_sqlite.py -> build/lib/parser/database 2025-06-08T13:53:17,574 copying parser/database/__init__.py -> build/lib/parser/database 2025-06-08T13:53:17,575 copying parser/database/create_db_schema.py -> build/lib/parser/database 2025-06-08T13:53:17,577 running egg_info 2025-06-08T13:53:17,608 writing xi_mzidentml_converter.egg-info/PKG-INFO 2025-06-08T13:53:17,612 writing dependency_links to xi_mzidentml_converter.egg-info/dependency_links.txt 2025-06-08T13:53:17,613 writing entry points to xi_mzidentml_converter.egg-info/entry_points.txt 2025-06-08T13:53:17,615 writing requirements to xi_mzidentml_converter.egg-info/requires.txt 2025-06-08T13:53:17,616 writing top-level names to xi_mzidentml_converter.egg-info/top_level.txt 2025-06-08T13:53:17,657 reading manifest file 'xi_mzidentml_converter.egg-info/SOURCES.txt' 2025-06-08T13:53:17,662 adding license file 'LICENSE.md' 2025-06-08T13:53:17,667 writing manifest file 'xi_mzidentml_converter.egg-info/SOURCES.txt' 2025-06-08T13:53:17,674 copying config/logging.ini -> build/lib/config 2025-06-08T13:53:17,676 copying schema/mzIdentML1.2.0.xsd -> build/lib/schema 2025-06-08T13:53:17,680 copying schema/mzIdentML1.3.0.xsd -> build/lib/schema 2025-06-08T13:53:17,718 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-06-08T13:53:17,719 !! 2025-06-08T13:53:17,720 ******************************************************************************** 2025-06-08T13:53:17,721 Please avoid running ``setup.py`` directly. 2025-06-08T13:53:17,721 Instead, use pypa/build, pypa/installer or other 2025-06-08T13:53:17,722 standards-based tools. 2025-06-08T13:53:17,723 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-08T13:53:17,723 or your builds will no longer be supported. 2025-06-08T13:53:17,725 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-06-08T13:53:17,725 ******************************************************************************** 2025-06-08T13:53:17,727 !! 2025-06-08T13:53:17,727 self.initialize_options() 2025-06-08T13:53:17,749 installing to build/bdist.linux-armv7l/wheel 2025-06-08T13:53:17,750 running install 2025-06-08T13:53:17,775 running install_lib 2025-06-08T13:53:17,802 creating build/bdist.linux-armv7l/wheel 2025-06-08T13:53:17,805 creating build/bdist.linux-armv7l/wheel/models 2025-06-08T13:53:17,806 copying build/lib/models/projectsubdetail.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,808 copying build/lib/models/__init__.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,810 copying build/lib/models/enzyme.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,811 copying build/lib/models/base.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,813 copying build/lib/models/spectrumidentificationprotocol.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,815 copying build/lib/models/modifiedpeptide.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,817 copying build/lib/models/dbsequence.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,819 copying build/lib/models/projectdetail.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,820 copying build/lib/models/peptideevidence.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,822 copying build/lib/models/upload.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,824 copying build/lib/models/match.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,826 copying build/lib/models/searchmodification.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,828 copying build/lib/models/index.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,830 copying build/lib/models/spectradata.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,832 copying build/lib/models/analysiscollectionspectrumidentification.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,833 copying build/lib/models/spectrum.py -> build/bdist.linux-armv7l/wheel/./models 2025-06-08T13:53:17,836 creating build/bdist.linux-armv7l/wheel/config 2025-06-08T13:53:17,837 copying build/lib/config/__init__.py -> build/bdist.linux-armv7l/wheel/./config 2025-06-08T13:53:17,839 copying build/lib/config/logging.ini -> build/bdist.linux-armv7l/wheel/./config 2025-06-08T13:53:17,841 copying build/lib/config/config_parser.py -> build/bdist.linux-armv7l/wheel/./config 2025-06-08T13:53:17,843 copying build/lib/config/index.py -> build/bdist.linux-armv7l/wheel/./config 2025-06-08T13:53:17,845 copying build/lib/config/database.py -> build/bdist.linux-armv7l/wheel/./config 2025-06-08T13:53:17,848 creating build/bdist.linux-armv7l/wheel/parser 2025-06-08T13:53:17,849 copying build/lib/parser/__main__.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,851 copying build/lib/parser/MzIdParser.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,854 copying build/lib/parser/__init__.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,856 copying build/lib/parser/APIWriter.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,859 copying build/lib/parser/DatabaseWriter.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,862 creating build/bdist.linux-armv7l/wheel/parser/csv_parser 2025-06-08T13:53:17,863 copying build/lib/parser/csv_parser/__init__.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,865 copying build/lib/parser/csv_parser/FullCsvParser.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,868 copying build/lib/parser/csv_parser/NoPeakListsCsvParser.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,870 copying build/lib/parser/csv_parser/XiSpecCsvParser.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,872 copying build/lib/parser/csv_parser/LinksOnlyCsvParser.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,875 copying build/lib/parser/csv_parser/AbstractCsvParser.py -> build/bdist.linux-armv7l/wheel/./parser/csv_parser 2025-06-08T13:53:17,877 copying build/lib/parser/SimpleFASTA.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,879 copying build/lib/parser/process_dataset.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,882 copying build/lib/parser/Writer.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,884 copying build/lib/parser/schema_validate.py -> build/bdist.linux-armv7l/wheel/./parser 2025-06-08T13:53:17,887 creating build/bdist.linux-armv7l/wheel/parser/peaklistReader 2025-06-08T13:53:17,888 copying build/lib/parser/peaklistReader/__init__.py -> build/bdist.linux-armv7l/wheel/./parser/peaklistReader 2025-06-08T13:53:17,890 copying build/lib/parser/peaklistReader/PeakListWrapper.py -> build/bdist.linux-armv7l/wheel/./parser/peaklistReader 2025-06-08T13:53:17,894 creating build/bdist.linux-armv7l/wheel/parser/database 2025-06-08T13:53:17,895 copying build/lib/parser/database/update_sqlite.py -> build/bdist.linux-armv7l/wheel/./parser/database 2025-06-08T13:53:17,897 copying build/lib/parser/database/__init__.py -> build/bdist.linux-armv7l/wheel/./parser/database 2025-06-08T13:53:17,899 copying build/lib/parser/database/create_db_schema.py -> build/bdist.linux-armv7l/wheel/./parser/database 2025-06-08T13:53:17,902 creating build/bdist.linux-armv7l/wheel/tests 2025-06-08T13:53:17,903 copying build/lib/tests/test_fasta_reader.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,905 copying build/lib/tests/test_mzid_1_3_0.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,908 copying build/lib/tests/test_CsvParsers.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,911 copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,912 copying build/lib/tests/test_MzIdParser_matrixscience2.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,915 copying build/lib/tests/test_MzIdParser_matrixscience.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,918 copying build/lib/tests/test_MzIdParser_ecoli_dsso.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,922 copying build/lib/tests/compare.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,925 copying build/lib/tests/parse_csv.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,927 copying build/lib/tests/parse_mzid.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,930 copying build/lib/tests/db_pytest_fixtures.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-08T13:53:17,933 creating build/bdist.linux-armv7l/wheel/schema 2025-06-08T13:53:17,935 copying build/lib/schema/__init__.py -> build/bdist.linux-armv7l/wheel/./schema 2025-06-08T13:53:17,937 copying build/lib/schema/mzIdentML1.2.0.xsd -> build/bdist.linux-armv7l/wheel/./schema 2025-06-08T13:53:17,942 copying build/lib/schema/mzIdentML1.3.0.xsd -> build/bdist.linux-armv7l/wheel/./schema 2025-06-08T13:53:17,946 running install_egg_info 2025-06-08T13:53:17,987 Copying xi_mzidentml_converter.egg-info to build/bdist.linux-armv7l/wheel/./xi_mzidentml_converter-0.3.8-py3.11.egg-info 2025-06-08T13:53:18,000 running install_scripts 2025-06-08T13:53:18,014 creating build/bdist.linux-armv7l/wheel/xi_mzidentml_converter-0.3.8.dist-info/WHEEL 2025-06-08T13:53:18,016 creating '/tmp/pip-wheel-ytssn23c/xi_mzidentml_converter-0.3.8-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-06-08T13:53:18,019 adding 'config/__init__.py' 2025-06-08T13:53:18,021 adding 'config/config_parser.py' 2025-06-08T13:53:18,022 adding 'config/database.py' 2025-06-08T13:53:18,024 adding 'config/index.py' 2025-06-08T13:53:18,025 adding 'config/logging.ini' 2025-06-08T13:53:18,028 adding 'models/__init__.py' 2025-06-08T13:53:18,029 adding 'models/analysiscollectionspectrumidentification.py' 2025-06-08T13:53:18,031 adding 'models/base.py' 2025-06-08T13:53:18,032 adding 'models/dbsequence.py' 2025-06-08T13:53:18,033 adding 'models/enzyme.py' 2025-06-08T13:53:18,035 adding 'models/index.py' 2025-06-08T13:53:18,036 adding 'models/match.py' 2025-06-08T13:53:18,037 adding 'models/modifiedpeptide.py' 2025-06-08T13:53:18,039 adding 'models/peptideevidence.py' 2025-06-08T13:53:18,040 adding 'models/projectdetail.py' 2025-06-08T13:53:18,041 adding 'models/projectsubdetail.py' 2025-06-08T13:53:18,043 adding 'models/searchmodification.py' 2025-06-08T13:53:18,044 adding 'models/spectradata.py' 2025-06-08T13:53:18,045 adding 'models/spectrum.py' 2025-06-08T13:53:18,046 adding 'models/spectrumidentificationprotocol.py' 2025-06-08T13:53:18,048 adding 'models/upload.py' 2025-06-08T13:53:18,050 adding 'parser/APIWriter.py' 2025-06-08T13:53:18,052 adding 'parser/DatabaseWriter.py' 2025-06-08T13:53:18,057 adding 'parser/MzIdParser.py' 2025-06-08T13:53:18,059 adding 'parser/SimpleFASTA.py' 2025-06-08T13:53:18,060 adding 'parser/Writer.py' 2025-06-08T13:53:18,062 adding 'parser/__init__.py' 2025-06-08T13:53:18,063 adding 'parser/__main__.py' 2025-06-08T13:53:18,066 adding 'parser/process_dataset.py' 2025-06-08T13:53:18,067 adding 'parser/schema_validate.py' 2025-06-08T13:53:18,070 adding 'parser/csv_parser/AbstractCsvParser.py' 2025-06-08T13:53:18,073 adding 'parser/csv_parser/FullCsvParser.py' 2025-06-08T13:53:18,075 adding 'parser/csv_parser/LinksOnlyCsvParser.py' 2025-06-08T13:53:18,076 adding 'parser/csv_parser/NoPeakListsCsvParser.py' 2025-06-08T13:53:18,078 adding 'parser/csv_parser/XiSpecCsvParser.py' 2025-06-08T13:53:18,079 adding 'parser/csv_parser/__init__.py' 2025-06-08T13:53:18,080 adding 'parser/database/__init__.py' 2025-06-08T13:53:18,082 adding 'parser/database/create_db_schema.py' 2025-06-08T13:53:18,083 adding 'parser/database/update_sqlite.py' 2025-06-08T13:53:18,085 adding 'parser/peaklistReader/PeakListWrapper.py' 2025-06-08T13:53:18,087 adding 'parser/peaklistReader/__init__.py' 2025-06-08T13:53:18,088 adding 'schema/__init__.py' 2025-06-08T13:53:18,096 adding 'schema/mzIdentML1.2.0.xsd' 2025-06-08T13:53:18,104 adding 'schema/mzIdentML1.3.0.xsd' 2025-06-08T13:53:18,107 adding 'tests/__init__.py' 2025-06-08T13:53:18,108 adding 'tests/compare.py' 2025-06-08T13:53:18,109 adding 'tests/db_pytest_fixtures.py' 2025-06-08T13:53:18,111 adding 'tests/parse_csv.py' 2025-06-08T13:53:18,112 adding 'tests/parse_mzid.py' 2025-06-08T13:53:18,114 adding 'tests/test_CsvParsers.py' 2025-06-08T13:53:18,126 adding 'tests/test_MzIdParser_ecoli_dsso.py' 2025-06-08T13:53:18,128 adding 'tests/test_MzIdParser_matrixscience.py' 2025-06-08T13:53:18,130 adding 'tests/test_MzIdParser_matrixscience2.py' 2025-06-08T13:53:18,131 adding 'tests/test_fasta_reader.py' 2025-06-08T13:53:18,132 adding 'tests/test_mzid_1_3_0.py' 2025-06-08T13:53:18,136 adding 'xi_mzidentml_converter-0.3.8.dist-info/licenses/LICENSE.md' 2025-06-08T13:53:18,138 adding 'xi_mzidentml_converter-0.3.8.dist-info/METADATA' 2025-06-08T13:53:18,139 adding 'xi_mzidentml_converter-0.3.8.dist-info/WHEEL' 2025-06-08T13:53:18,139 adding 'xi_mzidentml_converter-0.3.8.dist-info/entry_points.txt' 2025-06-08T13:53:18,141 adding 'xi_mzidentml_converter-0.3.8.dist-info/top_level.txt' 2025-06-08T13:53:18,142 adding 'xi_mzidentml_converter-0.3.8.dist-info/RECORD' 2025-06-08T13:53:18,146 removing build/bdist.linux-armv7l/wheel 2025-06-08T13:53:18,274 Building wheel for xi-mzidentml-converter (setup.py): finished with status 'done' 2025-06-08T13:53:18,277 Created wheel for xi-mzidentml-converter: filename=xi_mzidentml_converter-0.3.8-py3-none-any.whl size=115197 sha256=6f550d552faf9a314fe26dac7bc49a0f0843c3be74024e4cbd883154be010287 2025-06-08T13:53:18,278 Stored in directory: /tmp/pip-ephem-wheel-cache-k5nzarcz/wheels/9b/e0/40/9b844865af4dfecaa8efe51f6dc81243443a4c7b29acb485db 2025-06-08T13:53:18,292 Successfully built xi-mzidentml-converter 2025-06-08T13:53:18,298 Removed build tracker: '/tmp/pip-build-tracker-njcoptcq'