2026-10-02T02:48:51,916 Created temporary directory: /tmp/pip-ephem-wheel-cache-_8akua74
2026-10-02T02:48:51,918 Created temporary directory: /tmp/pip-build-tracker-hgym4mz5
2026-10-02T02:48:51,919 Initialized build tracking at /tmp/pip-build-tracker-hgym4mz5
2026-10-02T02:48:51,919 Created build tracker: /tmp/pip-build-tracker-hgym4mz5
2026-10-02T02:48:51,920 Entered build tracker: /tmp/pip-build-tracker-hgym4mz5
2026-10-02T02:48:51,920 Created temporary directory: /tmp/pip-wheel-26bnw10r
2026-10-02T02:48:51,923 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-10-02T02:48:51,926 Created temporary directory: /tmp/pip-ephem-wheel-cache-klue0uo4
2026-10-02T02:48:51,948 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-10-02T02:48:51,951 2 location(s) to search for versions of ragtag:
2026-10-02T02:48:51,951 * https://pypi.org/simple/ragtag/
2026-10-02T02:48:51,951 * https://www.piwheels.org/simple/ragtag/
2026-10-02T02:48:51,952 Fetching project page and analyzing links: https://pypi.org/simple/ragtag/
2026-10-02T02:48:51,953 Getting page https://pypi.org/simple/ragtag/
2026-10-02T02:48:51,954 Found index url https://pypi.org/simple
2026-10-02T02:48:52,187 Fetched page https://pypi.org/simple/ragtag/ as application/vnd.pypi.simple.v1+json
2026-10-02T02:48:52,191   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/ab/7f/4750738e2c86765698ebff9c0960090ceb518d4975d8341a466c795d3e7b/RagTag-1.0.0-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,192   Found link https://files.pythonhosted.org/packages/e3/59/238f983c31df596d5b87b4a22b19969035799a393072ff44c0fb081fa892/RagTag-1.0.0.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 1.0.0
2026-10-02T02:48:52,193   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/81/0d/b44d0997156ff22f532c31baed594e6d6fd86b1da3571846a70e829de6ac/RagTag-1.0.1-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,194   Found link https://files.pythonhosted.org/packages/60/90/d9396e28dda4e88d0daa56fb9e41b6106129af06db98f0d74339e7a8acc4/RagTag-1.0.1.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 1.0.1
2026-10-02T02:48:52,194   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/46/39/273cadcb582ca4c3314c57d63019bfbabc7b176f4095803ff8c26bc92884/RagTag-1.0.2-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,195   Found link https://files.pythonhosted.org/packages/ab/5a/b49bd507b4b9371545e6660f9eec058058f90d241572b654956c10df8718/RagTag-1.0.2.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 1.0.2
2026-10-02T02:48:52,196   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/62/cc/1d680b7b4477c118bef9299015504ff9c1c5c884f843609b8ae55fcf4b14/RagTag-1.1.0-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,197   Found link https://files.pythonhosted.org/packages/9c/a0/80e5439859df590f2d20ae8a97b08ddbec6ba26a965b8ef711b5f4d2e861/RagTag-1.1.0.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 1.1.0
2026-10-02T02:48:52,197   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/c0/b5/d192c4851a0fd67b50bb6601e25b9b50b845624780f34209e89c8d4d682d/RagTag-1.1.1-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,198   Found link https://files.pythonhosted.org/packages/27/eb/5b5d2189dcbeacbd955fe72cf6a47bc324000af6e486a75e92ed886d9636/RagTag-1.1.1.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 1.1.1
2026-10-02T02:48:52,199   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/96/13/0c2ccf1848bf63dae113b78e68cee1bdc2b87c33645d60b953b006872d6d/RagTag-2.0.0-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,200   Found link https://files.pythonhosted.org/packages/6c/b0/51246b31bcbaa796b517d1cd73bf175974c89360784f8c3b322149bd493d/RagTag-2.0.0.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 2.0.0
2026-10-02T02:48:52,200   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/5b/9e/d916650796ed837707913035bfdfe306081ea5be1c634ebbe4bcd291ca60/RagTag-2.0.1-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,201   Found link https://files.pythonhosted.org/packages/2f/7f/728f69a12aea994bf7db6cc5d35d2f3d583870497448ea5846bef3222601/RagTag-2.0.1.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 2.0.1
2026-10-02T02:48:52,202   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/2d/05/4dae6bef6454639e24dc4f1bba6971a72827e078ae10cc114f270141e850/RagTag-2.1.0-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,203   Found link https://files.pythonhosted.org/packages/50/ee/d922ed9ecf39d82448e97c9c18d26c07af7c30b3c17777e1df1428caec5f/RagTag-2.1.0.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 2.1.0
2026-10-02T02:48:52,203   Skipping link: No binaries permitted for ragtag: https://files.pythonhosted.org/packages/38/cb/8082951cdf9dc18f816798b82f11693462f070e5a15461ea81531ae190b8/ragtag-2.1.1-py3-none-any.whl (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,204   Found link https://files.pythonhosted.org/packages/24/6d/cf2396137b4b1a24c5f5517f8aada42cd3c3bb065b09855e254125354b5f/ragtag-2.1.1.tar.gz (from https://pypi.org/simple/ragtag/) (requires-python:>=3.6), version: 2.1.1
2026-10-02T02:48:52,205 Fetching project page and analyzing links: https://www.piwheels.org/simple/ragtag/
2026-10-02T02:48:52,205 Getting page https://www.piwheels.org/simple/ragtag/
2026-10-02T02:48:52,207 Found index url https://www.piwheels.org/simple
2026-10-02T02:48:52,399 Fetched page https://www.piwheels.org/simple/ragtag/ as text/html
2026-10-02T02:48:52,402   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-2.1.0-py3-none-any.whl#sha256=ff2e3f19d0c8e583623eb6e26c77fb1f1b8c9692f5a66476357cdc756bae5b9f (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,403   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-2.0.1-py3-none-any.whl#sha256=2a94642c1f8958140aa09f23e7e8726d271805dc352fc6aa543a788267bb4eb1 (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,404   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-2.0.0-py3-none-any.whl#sha256=5a74720898018178c16018e0308dcb6a4c16a3e618d230249f8abdd4ee189bdc (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,404   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-1.1.1-py3-none-any.whl#sha256=0960b936d50694f3c557982f79a0cd6dfec4d3ea7c5731ba0f33c7625e4a8bd8 (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,405   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-1.1.0-py3-none-any.whl#sha256=73b54d948a7d7e4107297972f893818e2d662afa068bec5635e63ab4be74dc76 (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,405   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-1.0.2-py3-none-any.whl#sha256=1b5acdb3f76e6d77c567f911994dbb7d36a7a0d925ae6775da854a124362500f (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,406   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-1.0.1-py3-none-any.whl#sha256=96986c341498cb8a5150a21c1f0f700c47fa28f8f3110f45e72f08f820f4a1ae (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,407   Skipping link: No binaries permitted for ragtag: https://archive1.piwheels.org/simple/ragtag/RagTag-1.0.0-py3-none-any.whl#sha256=5aa6a76fad14074df8b25be95ef8b4521878b363d8c1f507cb5ffab8c4e32eda (from https://www.piwheels.org/simple/ragtag/) (requires-python:>=3.6)
2026-10-02T02:48:52,407 Skipping link: not a file: https://www.piwheels.org/simple/ragtag/
2026-10-02T02:48:52,408 Skipping link: not a file: https://pypi.org/simple/ragtag/
2026-10-02T02:48:52,427 Given no hashes to check 1 links for project 'ragtag': discarding no candidates
2026-10-02T02:48:52,446 Collecting ragtag==2.1.1
2026-10-02T02:48:52,448   Created temporary directory: /tmp/pip-unpack-yaezk1fn
2026-10-02T02:48:52,602   Downloading ragtag-2.1.1.tar.gz (57 kB)
2026-10-02T02:48:52,730   Added ragtag==2.1.1 from https://files.pythonhosted.org/packages/24/6d/cf2396137b4b1a24c5f5517f8aada42cd3c3bb065b09855e254125354b5f/ragtag-2.1.1.tar.gz to build tracker '/tmp/pip-build-tracker-hgym4mz5'
2026-10-02T02:48:52,731   Running setup.py (path:/tmp/pip-wheel-26bnw10r/ragtag_895fd7b78be3494b8bf83651230c868a/setup.py) egg_info for package ragtag
2026-10-02T02:48:52,732   Created temporary directory: /tmp/pip-pip-egg-info-u6fkhxwh
2026-10-02T02:48:52,732   Preparing metadata (setup.py): started
2026-10-02T02:48:52,734   Running command python setup.py egg_info
2026-10-02T02:48:53,604   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2026-10-02T02:48:53,605   !!

2026-10-02T02:48:53,606           ********************************************************************************
2026-10-02T02:48:53,606           Please consider removing the following classifiers in favor of a SPDX license expression:

2026-10-02T02:48:53,607           License :: OSI Approved :: MIT License

2026-10-02T02:48:53,608           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2026-10-02T02:48:53,609           ********************************************************************************

2026-10-02T02:48:53,610   !!
2026-10-02T02:48:53,610     self._finalize_license_expression()
2026-10-02T02:48:53,634   running egg_info
2026-10-02T02:48:53,663   creating /tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info
2026-10-02T02:48:53,664   writing /tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/PKG-INFO
2026-10-02T02:48:53,668   writing dependency_links to /tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/dependency_links.txt
2026-10-02T02:48:53,670   writing requirements to /tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/requires.txt
2026-10-02T02:48:53,671   writing top-level names to /tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/top_level.txt
2026-10-02T02:48:53,673   writing manifest file '/tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/SOURCES.txt'
2026-10-02T02:48:53,786   reading manifest file '/tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/SOURCES.txt'
2026-10-02T02:48:53,787   adding license file 'LICENSE'
2026-10-02T02:48:53,790   writing manifest file '/tmp/pip-pip-egg-info-u6fkhxwh/RagTag.egg-info/SOURCES.txt'
2026-10-02T02:48:53,903   Preparing metadata (setup.py): finished with status 'done'
2026-10-02T02:48:53,907   Source in /tmp/pip-wheel-26bnw10r/ragtag_895fd7b78be3494b8bf83651230c868a has version 2.1.1, which satisfies requirement ragtag==2.1.1 from https://files.pythonhosted.org/packages/24/6d/cf2396137b4b1a24c5f5517f8aada42cd3c3bb065b09855e254125354b5f/ragtag-2.1.1.tar.gz
2026-10-02T02:48:53,908   Removed ragtag==2.1.1 from https://files.pythonhosted.org/packages/24/6d/cf2396137b4b1a24c5f5517f8aada42cd3c3bb065b09855e254125354b5f/ragtag-2.1.1.tar.gz from build tracker '/tmp/pip-build-tracker-hgym4mz5'
2026-10-02T02:48:53,914 Created temporary directory: /tmp/pip-unpack-y49b1vha
2026-10-02T02:48:53,915 Building wheels for collected packages: ragtag
2026-10-02T02:48:53,919   Created temporary directory: /tmp/pip-wheel-p88jwje0
2026-10-02T02:48:53,920   Building wheel for ragtag (setup.py): started
2026-10-02T02:48:53,921   Destination directory: /tmp/pip-wheel-p88jwje0
2026-10-02T02:48:53,922   Running command python setup.py bdist_wheel
2026-10-02T02:48:54,774   /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated.
2026-10-02T02:48:54,775   !!

2026-10-02T02:48:54,776           ********************************************************************************
2026-10-02T02:48:54,776           Please consider removing the following classifiers in favor of a SPDX license expression:

2026-10-02T02:48:54,777           License :: OSI Approved :: MIT License

2026-10-02T02:48:54,778           See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details.
2026-10-02T02:48:54,778           ********************************************************************************

2026-10-02T02:48:54,779   !!
2026-10-02T02:48:54,780     self._finalize_license_expression()
2026-10-02T02:48:54,780   running bdist_wheel
2026-10-02T02:48:54,914   running build
2026-10-02T02:48:54,915   running build_py
2026-10-02T02:48:54,943   creating build/lib/ragtag_utilities
2026-10-02T02:48:54,945   copying ragtag_utilities/Aligner.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,947   copying ragtag_utilities/AlignmentReader.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,949   copying ragtag_utilities/RestrictionFragmentMap.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,952   copying ragtag_utilities/ScaffoldGraph.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,955   copying ragtag_utilities/utilities.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,957   copying ragtag_utilities/AGPFile.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,959   copying ragtag_utilities/__init__.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,961   copying ragtag_utilities/ContigAlignment.py -> build/lib/ragtag_utilities
2026-10-02T02:48:54,965   running build_scripts
2026-10-02T02:48:54,965   creating build/scripts-3.11
2026-10-02T02:48:54,966   copying and adjusting ragtag.py -> build/scripts-3.11
2026-10-02T02:48:54,969   copying and adjusting ragtag_update_gff.py -> build/scripts-3.11
2026-10-02T02:48:54,971   copying and adjusting ragtag_create_links.py -> build/scripts-3.11
2026-10-02T02:48:54,973   copying and adjusting ragtag_agpcheck.py -> build/scripts-3.11
2026-10-02T02:48:54,975   copying and adjusting ragtag_merge.py -> build/scripts-3.11
2026-10-02T02:48:54,977   copying and adjusting setup.py -> build/scripts-3.11
2026-10-02T02:48:54,978   copying and adjusting ragtag_asmstats.py -> build/scripts-3.11
2026-10-02T02:48:54,980   copying and adjusting ragtag_agp2fa.py -> build/scripts-3.11
2026-10-02T02:48:54,982   copying and adjusting ragtag_correct.py -> build/scripts-3.11
2026-10-02T02:48:54,985   copying and adjusting ragtag_scaffold.py -> build/scripts-3.11
2026-10-02T02:48:54,987   copying and adjusting ragtag_patch.py -> build/scripts-3.11
2026-10-02T02:48:54,990   copying and adjusting ragtag_stats.py -> build/scripts-3.11
2026-10-02T02:48:54,992   copying and adjusting ragtag_break_query.py -> build/scripts-3.11
2026-10-02T02:48:54,993   copying and adjusting ragtag_splitasm.py -> build/scripts-3.11
2026-10-02T02:48:54,995   copying and adjusting ragtag_paf2delta.py -> build/scripts-3.11
2026-10-02T02:48:54,997   copying and adjusting ragtag_delta2paf.py -> build/scripts-3.11
2026-10-02T02:48:54,999   copying and adjusting ragtag_rename.py -> build/scripts-3.11
2026-10-02T02:48:55,000   changing mode of build/scripts-3.11/ragtag.py from 644 to 755
2026-10-02T02:48:55,001   changing mode of build/scripts-3.11/ragtag_update_gff.py from 644 to 755
2026-10-02T02:48:55,001   changing mode of build/scripts-3.11/ragtag_create_links.py from 644 to 755
2026-10-02T02:48:55,002   changing mode of build/scripts-3.11/ragtag_agpcheck.py from 644 to 755
2026-10-02T02:48:55,002   changing mode of build/scripts-3.11/ragtag_merge.py from 644 to 755
2026-10-02T02:48:55,003   changing mode of build/scripts-3.11/setup.py from 644 to 755
2026-10-02T02:48:55,003   changing mode of build/scripts-3.11/ragtag_asmstats.py from 644 to 755
2026-10-02T02:48:55,003   changing mode of build/scripts-3.11/ragtag_agp2fa.py from 644 to 755
2026-10-02T02:48:55,004   changing mode of build/scripts-3.11/ragtag_correct.py from 644 to 755
2026-10-02T02:48:55,004   changing mode of build/scripts-3.11/ragtag_scaffold.py from 644 to 755
2026-10-02T02:48:55,005   changing mode of build/scripts-3.11/ragtag_patch.py from 644 to 755
2026-10-02T02:48:55,005   changing mode of build/scripts-3.11/ragtag_stats.py from 644 to 755
2026-10-02T02:48:55,006   changing mode of build/scripts-3.11/ragtag_break_query.py from 644 to 755
2026-10-02T02:48:55,006   changing mode of build/scripts-3.11/ragtag_splitasm.py from 644 to 755
2026-10-02T02:48:55,007   changing mode of build/scripts-3.11/ragtag_paf2delta.py from 644 to 755
2026-10-02T02:48:55,007   changing mode of build/scripts-3.11/ragtag_delta2paf.py from 644 to 755
2026-10-02T02:48:55,008   changing mode of build/scripts-3.11/ragtag_rename.py from 644 to 755
2026-10-02T02:48:55,035   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2026-10-02T02:48:55,035   !!

2026-10-02T02:48:55,036           ********************************************************************************
2026-10-02T02:48:55,037           Please avoid running ``setup.py`` directly.
2026-10-02T02:48:55,037           Instead, use pypa/build, pypa/installer or other
2026-10-02T02:48:55,038           standards-based tools.

2026-10-02T02:48:55,039           This deprecation is overdue, please update your project and remove deprecated
2026-10-02T02:48:55,039           calls to avoid build errors in the future.

2026-10-02T02:48:55,040           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2026-10-02T02:48:55,041           ********************************************************************************

2026-10-02T02:48:55,041   !!
2026-10-02T02:48:55,042     self.initialize_options()
2026-10-02T02:48:55,062   installing to build/bdist.linux-armv7l/wheel
2026-10-02T02:48:55,063   running install
2026-10-02T02:48:55,085   running install_lib
2026-10-02T02:48:55,112   creating build/bdist.linux-armv7l/wheel
2026-10-02T02:48:55,114   creating build/bdist.linux-armv7l/wheel/ragtag_utilities
2026-10-02T02:48:55,115   copying build/lib/ragtag_utilities/Aligner.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,118   copying build/lib/ragtag_utilities/AlignmentReader.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,120   copying build/lib/ragtag_utilities/RestrictionFragmentMap.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,123   copying build/lib/ragtag_utilities/ScaffoldGraph.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,125   copying build/lib/ragtag_utilities/utilities.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,128   copying build/lib/ragtag_utilities/AGPFile.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,130   copying build/lib/ragtag_utilities/__init__.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,132   copying build/lib/ragtag_utilities/ContigAlignment.py -> build/bdist.linux-armv7l/wheel/./ragtag_utilities
2026-10-02T02:48:55,134   running install_egg_info
2026-10-02T02:48:55,167   running egg_info
2026-10-02T02:48:55,194   writing RagTag.egg-info/PKG-INFO
2026-10-02T02:48:55,197   writing dependency_links to RagTag.egg-info/dependency_links.txt
2026-10-02T02:48:55,199   writing requirements to RagTag.egg-info/requires.txt
2026-10-02T02:48:55,200   writing top-level names to RagTag.egg-info/top_level.txt
2026-10-02T02:48:55,230   reading manifest file 'RagTag.egg-info/SOURCES.txt'
2026-10-02T02:48:55,234   adding license file 'LICENSE'
2026-10-02T02:48:55,237   writing manifest file 'RagTag.egg-info/SOURCES.txt'
2026-10-02T02:48:55,239   Copying RagTag.egg-info to build/bdist.linux-armv7l/wheel/./RagTag-2.1.1-py3.11.egg-info
2026-10-02T02:48:55,250   running install_scripts
2026-10-02T02:48:55,251   creating build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,253   copying build/scripts-3.11/ragtag.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,255   copying build/scripts-3.11/ragtag_update_gff.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,257   copying build/scripts-3.11/ragtag_create_links.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,260   copying build/scripts-3.11/ragtag_agpcheck.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,262   copying build/scripts-3.11/ragtag_merge.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,264   copying build/scripts-3.11/setup.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,266   copying build/scripts-3.11/ragtag_asmstats.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,268   copying build/scripts-3.11/ragtag_agp2fa.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,270   copying build/scripts-3.11/ragtag_correct.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,273   copying build/scripts-3.11/ragtag_scaffold.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,275   copying build/scripts-3.11/ragtag_patch.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,278   copying build/scripts-3.11/ragtag_stats.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,280   copying build/scripts-3.11/ragtag_break_query.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,282   copying build/scripts-3.11/ragtag_splitasm.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,284   copying build/scripts-3.11/ragtag_paf2delta.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,286   copying build/scripts-3.11/ragtag_delta2paf.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,288   copying build/scripts-3.11/ragtag_rename.py -> build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts
2026-10-02T02:48:55,290   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag.py to 755
2026-10-02T02:48:55,290   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_update_gff.py to 755
2026-10-02T02:48:55,291   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_create_links.py to 755
2026-10-02T02:48:55,291   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_agpcheck.py to 755
2026-10-02T02:48:55,292   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_merge.py to 755
2026-10-02T02:48:55,292   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/setup.py to 755
2026-10-02T02:48:55,293   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_asmstats.py to 755
2026-10-02T02:48:55,293   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_agp2fa.py to 755
2026-10-02T02:48:55,294   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_correct.py to 755
2026-10-02T02:48:55,294   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_scaffold.py to 755
2026-10-02T02:48:55,295   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_patch.py to 755
2026-10-02T02:48:55,296   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_stats.py to 755
2026-10-02T02:48:55,296   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_break_query.py to 755
2026-10-02T02:48:55,296   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_splitasm.py to 755
2026-10-02T02:48:55,297   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_paf2delta.py to 755
2026-10-02T02:48:55,297   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_delta2paf.py to 755
2026-10-02T02:48:55,298   changing mode of build/bdist.linux-armv7l/wheel/ragtag-2.1.1.data/scripts/ragtag_rename.py to 755
2026-10-02T02:48:55,309   creating build/bdist.linux-armv7l/wheel/ragtag-2.1.1.dist-info/WHEEL
2026-10-02T02:48:55,312   creating '/tmp/pip-wheel-p88jwje0/ragtag-2.1.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-10-02T02:48:55,315   adding 'ragtag-2.1.1.data/scripts/ragtag.py'
2026-10-02T02:48:55,316   adding 'ragtag-2.1.1.data/scripts/ragtag_agp2fa.py'
2026-10-02T02:48:55,318   adding 'ragtag-2.1.1.data/scripts/ragtag_agpcheck.py'
2026-10-02T02:48:55,319   adding 'ragtag-2.1.1.data/scripts/ragtag_asmstats.py'
2026-10-02T02:48:55,321   adding 'ragtag-2.1.1.data/scripts/ragtag_break_query.py'
2026-10-02T02:48:55,324   adding 'ragtag-2.1.1.data/scripts/ragtag_correct.py'
2026-10-02T02:48:55,326   adding 'ragtag-2.1.1.data/scripts/ragtag_create_links.py'
2026-10-02T02:48:55,328   adding 'ragtag-2.1.1.data/scripts/ragtag_delta2paf.py'
2026-10-02T02:48:55,330   adding 'ragtag-2.1.1.data/scripts/ragtag_merge.py'
2026-10-02T02:48:55,332   adding 'ragtag-2.1.1.data/scripts/ragtag_paf2delta.py'
2026-10-02T02:48:55,335   adding 'ragtag-2.1.1.data/scripts/ragtag_patch.py'
2026-10-02T02:48:55,336   adding 'ragtag-2.1.1.data/scripts/ragtag_rename.py'
2026-10-02T02:48:55,339   adding 'ragtag-2.1.1.data/scripts/ragtag_scaffold.py'
2026-10-02T02:48:55,341   adding 'ragtag-2.1.1.data/scripts/ragtag_splitasm.py'
2026-10-02T02:48:55,342   adding 'ragtag-2.1.1.data/scripts/ragtag_stats.py'
2026-10-02T02:48:55,344   adding 'ragtag-2.1.1.data/scripts/ragtag_update_gff.py'
2026-10-02T02:48:55,346   adding 'ragtag-2.1.1.data/scripts/setup.py'
2026-10-02T02:48:55,348   adding 'ragtag-2.1.1.dist-info/licenses/LICENSE'
2026-10-02T02:48:55,351   adding 'ragtag_utilities/AGPFile.py'
2026-10-02T02:48:55,353   adding 'ragtag_utilities/Aligner.py'
2026-10-02T02:48:55,355   adding 'ragtag_utilities/AlignmentReader.py'
2026-10-02T02:48:55,358   adding 'ragtag_utilities/ContigAlignment.py'
2026-10-02T02:48:55,359   adding 'ragtag_utilities/RestrictionFragmentMap.py'
2026-10-02T02:48:55,364   adding 'ragtag_utilities/ScaffoldGraph.py'
2026-10-02T02:48:55,365   adding 'ragtag_utilities/__init__.py'
2026-10-02T02:48:55,367   adding 'ragtag_utilities/utilities.py'
2026-10-02T02:48:55,368   adding 'ragtag-2.1.1.dist-info/METADATA'
2026-10-02T02:48:55,369   adding 'ragtag-2.1.1.dist-info/WHEEL'
2026-10-02T02:48:55,370   adding 'ragtag-2.1.1.dist-info/top_level.txt'
2026-10-02T02:48:55,371   adding 'ragtag-2.1.1.dist-info/zip-safe'
2026-10-02T02:48:55,372   adding 'ragtag-2.1.1.dist-info/RECORD'
2026-10-02T02:48:55,374   removing build/bdist.linux-armv7l/wheel
2026-10-02T02:48:55,498   Building wheel for ragtag (setup.py): finished with status 'done'
2026-10-02T02:48:55,501   Created wheel for ragtag: filename=ragtag-2.1.1-py3-none-any.whl size=85295 sha256=06b7eedd786266726375e5fb6888cc9be5aeb815385925552bf3647f0ab3689a
2026-10-02T02:48:55,502   Stored in directory: /tmp/pip-ephem-wheel-cache-klue0uo4/wheels/25/a2/ce/7a6931bdb0c331f8e9fc1bec452c741f25daa955b00a598bb6
2026-10-02T02:48:55,513 Successfully built ragtag
2026-10-02T02:48:55,519 Removed build tracker: '/tmp/pip-build-tracker-hgym4mz5'