2025-12-08T17:43:54,729 Created temporary directory: /tmp/pip-ephem-wheel-cache-xzkpgtyn
2025-12-08T17:43:54,731 Created temporary directory: /tmp/pip-build-tracker-kblbqz4e
2025-12-08T17:43:54,732 Initialized build tracking at /tmp/pip-build-tracker-kblbqz4e
2025-12-08T17:43:54,732 Created build tracker: /tmp/pip-build-tracker-kblbqz4e
2025-12-08T17:43:54,733 Entered build tracker: /tmp/pip-build-tracker-kblbqz4e
2025-12-08T17:43:54,734 Created temporary directory: /tmp/pip-wheel-mqogq821
2025-12-08T17:43:54,736 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
2025-12-08T17:43:54,739 Created temporary directory: /tmp/pip-ephem-wheel-cache-ceqvro1t
2025-12-08T17:43:54,761 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-12-08T17:43:54,764 2 location(s) to search for versions of medaka:
2025-12-08T17:43:54,764 * https://pypi.org/simple/medaka/
2025-12-08T17:43:54,764 * https://www.piwheels.org/simple/medaka/
2025-12-08T17:43:54,765 Fetching project page and analyzing links: https://pypi.org/simple/medaka/
2025-12-08T17:43:54,766 Getting page https://pypi.org/simple/medaka/
2025-12-08T17:43:54,767 Found index url https://pypi.org/simple
2025-12-08T17:43:55,003 Fetched page https://pypi.org/simple/medaka/ as application/vnd.pypi.simple.v1+json
2025-12-08T17:43:55,049   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/26/33/e2962890d3b87154f30e038a1128cb5be7260605e64b755125bb7d1ba58a/medaka-0.4.1-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,050   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/b9/0a/66d4188bc68e407da24d42d9b92570816f256448766f724faac275739392/medaka-0.4.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,050   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/60/5e/c39a1cdb311434813c37f51c45cbefdc863493c19d277054a8ef829b0cd8/medaka-0.4.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,052   Link requires a different Python (3.11.2 not in: '>=3.4.*,<3.7'): https://files.pythonhosted.org/packages/4b/7e/6520185af23ac4ec3994b7e24120f6336d0ff1ffd6437c407e0758c713a5/medaka-0.4.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,052   Skipping link: 0.4.1 Requires-Python >=3.4.*,<3.7: https://files.pythonhosted.org/packages/4b/7e/6520185af23ac4ec3994b7e24120f6336d0ff1ffd6437c407e0758c713a5/medaka-0.4.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,053   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/7e/b9/0c784e5b2448c2834ae8ac993ea8ac08b5961770f16887e892a4d00f2155/medaka-0.4.3-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,054   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/b6/ed/2ca7a4e82e0e81b7c1c27aaa79f54cccae06c67e7a8a84b634565358ca52/medaka-0.4.3-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,054   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/70/e9/27de839a071bb272e928277dcc2d386e45649e2e609df5308f679e53470c/medaka-0.4.3-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,056   Link requires a different Python (3.11.2 not in: '>=3.4.*,<3.7'): https://files.pythonhosted.org/packages/72/11/27adae396526e35ca1ad8af639740e6ca4c096603d7b7319cecffa2c538a/medaka-0.4.3.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,056   Skipping link: 0.4.3 Requires-Python >=3.4.*,<3.7: https://files.pythonhosted.org/packages/72/11/27adae396526e35ca1ad8af639740e6ca4c096603d7b7319cecffa2c538a/medaka-0.4.3.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,057   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/df/ea/ca83da715b81858ffeb3d754e78435cfebd48d39534f4849885067ac51eb/medaka-0.5.2-cp34-cp34m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,058   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/58/dc/02ffe455cc9fe8e5437f7c14386c798f30774a32b81986d0e08178f2a43b/medaka-0.5.2-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,058   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/56/96/4b273f88330ee8721c731ebc3784895d5f0be4ec9e62ebc5adbf5acfb26e/medaka-0.5.2-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,059   Link requires a different Python (3.11.2 not in: '>=3.4.*,<3.7'): https://files.pythonhosted.org/packages/d9/fe/27c3044e993acd7b9ded240c6c2133743cd35dc8fd5a3a8800eb3e458e62/medaka-0.5.2.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,060   Skipping link: 0.5.2 Requires-Python >=3.4.*,<3.7: https://files.pythonhosted.org/packages/d9/fe/27c3044e993acd7b9ded240c6c2133743cd35dc8fd5a3a8800eb3e458e62/medaka-0.5.2.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,060   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/64/23/69271ac6524bf460a4d094a824cd175a430e9c0dfc46fde9a9068a8c2a77/medaka-0.6.5-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,061   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/5b/c2/e19edcb88cc0cf75b03caf234cbda1d3b1a7968bdc032897789fe406535b/medaka-0.6.5-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,062   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/c8/58/6432f8e39a523d887650fdcf6229928e28accdac14e0422a5234818fb0a6/medaka-0.6.5.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,063   Skipping link: 0.6.5 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/c8/58/6432f8e39a523d887650fdcf6229928e28accdac14e0422a5234818fb0a6/medaka-0.6.5.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,063   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/7b/d6/33164e62df1f406d6c24b25afa30baf08c31f277bee929eb94ce044a1786/medaka-0.7.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,064   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/05/19/8229d6a9b67fe7c28566602bb5268be0b259f53df76fe8302b2e22e43234/medaka-0.7.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,065   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/36/a8/13e3e9419f67063b24871e88eb6a883388008266b4089f46ab0a4eb25385/medaka-0.7.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,065   Skipping link: 0.7.1 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/36/a8/13e3e9419f67063b24871e88eb6a883388008266b4089f46ab0a4eb25385/medaka-0.7.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,066   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/88/3c/c9f27c7cbcb756432c83a06ad04bb9ecb60d7f71aa030d68b8edf477696b/medaka-0.8.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,067   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/59/bf/ea8a7ebbcab7f63d88b215c68d29d0bb2c693e923408a515d0857010479b/medaka-0.8.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,068   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/24/62/8daba6cbedfecbe239a0eba5a4cb10801fb040ab5ad4e59c8f56cb62fff7/medaka-0.8.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,068   Skipping link: 0.8.1 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/24/62/8daba6cbedfecbe239a0eba5a4cb10801fb040ab5ad4e59c8f56cb62fff7/medaka-0.8.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,069   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/8a/ea/36fb21ee68fdbd5b6b6dcb10acdc264e549f24f5b3744c3e804541721d1e/medaka-0.9.2-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,070   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/a0/2c/c79769250ccc718928c0585df3684c0a17255c9044a0afe686a2a12309b4/medaka-0.9.2-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,070   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/b8/4c/d221b7d8f154dd93ab175150726bd3c31aa1fde0766c1644cfc3e8d3a3dd/medaka-0.9.2.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,071   Skipping link: 0.9.2 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/b8/4c/d221b7d8f154dd93ab175150726bd3c31aa1fde0766c1644cfc3e8d3a3dd/medaka-0.9.2.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,072   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/6f/64/4176da2cb99c2fa3c9679e7bd38ea0853a3d46f1c3a9b4d19989fcd03390/medaka-0.10.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,072   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/92/e8/6ccab5ba2e748631419044428ba68a65ebed9f44dceca77d9d38640c3f8b/medaka-0.10.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,074   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/cc/33/3d57405f8fe3e85cec441f4791f5b8307ae4b4d37c17af9404f9190c80ac/medaka-0.10.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,074   Skipping link: 0.10.1 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/cc/33/3d57405f8fe3e85cec441f4791f5b8307ae4b4d37c17af9404f9190c80ac/medaka-0.10.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,075   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/06/2f/be5e4e74de0a0ed815aa62d8836f074b9d41bafd94c2ed84b7f34a85c5e8/medaka-0.11.5-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,075   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/72/bc/296fc293a5fa6b3e2e5c21cde3a9bcaf8afd12511ba83d749f835bae8bfa/medaka-0.11.5-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,076   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/b8/e7/b6451f495fd8c911bf8b9cb46a9aee8a1f1734dec60eea79ecd51cc6de1c/medaka-0.11.5.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,077   Skipping link: 0.11.5 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/b8/e7/b6451f495fd8c911bf8b9cb46a9aee8a1f1734dec60eea79ecd51cc6de1c/medaka-0.11.5.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,078   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/7b/ea/4608c3409e1038723736ab12398bcfe187df7d0c07dfa0e538c54506db8c/medaka-0.12.1-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,078   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/03/fd/ccb707ecc85cad0c626a2fd0e3a377255b66639a5fae3978421ebf7553fe/medaka-0.12.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,079   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/74/e7/045666277280e334893865a47e476b72f1ff80d88dad2edd0c100c07b8fe/medaka-0.12.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,080   Skipping link: 0.12.1 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/74/e7/045666277280e334893865a47e476b72f1ff80d88dad2edd0c100c07b8fe/medaka-0.12.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,080   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/c1/ba/5b289ec8d06f4549a36cd8e869fb0de4d9a3dedebe026aced7dbfda5773d/medaka-1.0.0-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,081   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/f4/02/0cda43f4585386c4f9d724623c4aef10ef715835130781cb6f87753e89e9/medaka-1.0.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,082   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/4b/f7/a2970846fbd59ad860d7a6f9caabaf1df63079d90da94e6912cf0a989e55/medaka-1.0.0.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,082   Skipping link: 1.0.0 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/4b/f7/a2970846fbd59ad860d7a6f9caabaf1df63079d90da94e6912cf0a989e55/medaka-1.0.0.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,083   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/f2/db/cd9df71736a775f720ac9b637b9817143b6d8d28c985a5da416a089cd2db/medaka-1.0.3-cp35-cp35m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,084   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/82/fc/a725d9e7255b7a9f02aa5374567a9add35e63cf2e3acd10ad4f659bb78a7/medaka-1.0.3-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,085   Link requires a different Python (3.11.2 not in: '>=3.5.*,<3.7'): https://files.pythonhosted.org/packages/02/95/fb656e275c8ea5fe0ae3b04d76553ad774ef6a406a7c356b0a41d8ee9ba4/medaka-1.0.3.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,086   Skipping link: 1.0.3 Requires-Python >=3.5.*,<3.7: https://files.pythonhosted.org/packages/02/95/fb656e275c8ea5fe0ae3b04d76553ad774ef6a406a7c356b0a41d8ee9ba4/medaka-1.0.3.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.7)
2025-12-08T17:43:55,086   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/f1/4c/a1d186db42d33d1b6e5a4e7261629fcbee4b7279e341822e08f7807dbe43/medaka-1.1.3-cp35-cp35m-manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.9)
2025-12-08T17:43:55,087   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/da/5e/27233fbfc55579f076cd6e4aaefd8a69ee93f0fb5707ef5cfc28f0f93bf7/medaka-1.1.3-cp35-cp35m-manylinux2014_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.9)
2025-12-08T17:43:55,088   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/e5/8b/65b897117587b113c5246281f51e03ec436fc20141ef1a946af312a8de94/medaka-1.1.3-cp36-cp36m-manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.5.*,<3.9)
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2025-12-08T17:43:55,111   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/96/8a/588369c655c247431f22f92f1713f11b9ea6632fc2ec20adbb6d57e7cb17/medaka-1.5.0-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
2025-12-08T17:43:55,111   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/3e/ef/e3b001006d712876e10f14761f2acdb9f448bc541d1567f2cd1f3413b506/medaka-1.5.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
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2025-12-08T17:43:55,114   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/db/44/121a3fba6d49d40e3b00d23a608b7aba2173bfa302baf37218122036d2cf/medaka-1.6.1-cp37-cp37m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
2025-12-08T17:43:55,115   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/b9/b8/b0a31385c3c2f0721be06524dbf1f906b748f70266dae125ff867623e015/medaka-1.6.1-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
2025-12-08T17:43:55,116   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/61/52/8d8cdd5eb9f46dab57e28abb56afd43158176ea332117efbf0a2bc4212a7/medaka-1.6.1-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
2025-12-08T17:43:55,117   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/5e/c1/1327fac73b2ad7c5b26f23cb2cd664cf1a3bdf91c68dcaa49d5b2c72ebce/medaka-1.6.1-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
2025-12-08T17:43:55,118   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/b1/0a/e5bae5c4c2aa7c7eb0eb0896c9b73518da401deae4d87b367913596ebbfe/medaka-1.6.1-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:>3.5.*,<3.10)
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2025-12-08T17:43:55,146   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/6b/79/deff629b33bfb2281f004445d126a29b94dfe18c04b574c91e4db0484d00/medaka-1.9.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:>=3.7,<3.11)
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2025-12-08T17:43:55,225   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/fd/4a/33f60ccb135dc351f1722132824b6f610e24cdfe0954496bcb62cc579f5f/medaka-2.0.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.12,>=3.8)
2025-12-08T17:43:55,226   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/5a/51/4fad6d3227cc8c545cc095287ef7a8607b833d88ef02261dba44ec1377fe/medaka-2.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.12,>=3.8)
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2025-12-08T17:43:55,228   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/71/56/c44166d502e2f7aa2fd5b6bab13c826511c788af4f8a293c02a7b52a735f/medaka-2.0.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.12,>=3.8)
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2025-12-08T17:43:55,250   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/8b/03/52776aa81375db40f6cfcd71de0523b6968f9fa4de1130efed22062c5230/medaka-2.1.1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.13,>=3.9)
2025-12-08T17:43:55,251   Found link https://files.pythonhosted.org/packages/7e/cf/4ccb9206e43d3f82dc5fd1ee4cd3750ca71226c385770f6bafd44b9e6cd1/medaka-2.1.1.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:<3.13,>=3.9), version: 2.1.1
2025-12-08T17:43:55,252   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/df/16/74081fd67e40ad654852cfc253c25473d138fbf5c2fc4b92e7c9ae9832c5/medaka-2.2.0-cp310-cp310-macosx_12_0_arm64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,252   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/18/a6/b585d1b38d43da7715a8ccee0f47ff82a86cfe0a94b6173f4749902dcc98/medaka-2.2.0-cp310-cp310-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,253   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/ae/90/00de58e175ccb47a56a37d431575a98302da3a88d22228e491ebec468205/medaka-2.2.0-cp310-cp310-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,254   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/d1/ba/2f89c63ea00cd2bebc686bf8c9ae8005c014e0274d76aba1604f5d7d856b/medaka-2.2.0-cp311-cp311-macosx_12_0_arm64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,254   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/b4/b1/894a83ddfc05c43a9e135ceb11660b0b75bf881714ee301c7e11fd142844/medaka-2.2.0-cp311-cp311-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,255   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/3e/ce/2197561be9ab2dff7db00d59226b7754d791cd5faaf392f31688fc007a14/medaka-2.2.0-cp312-cp312-macosx_12_0_arm64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,255   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/6d/5c/7254325f613327328d804a3ddc4b9aea27854995b26014d116c0df033ef0/medaka-2.2.0-cp312-cp312-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,256   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/47/6b/fa86a287c422f8f6cd27661f65e3ae9608bb5e307153b4e3c4f794d74481/medaka-2.2.0-cp313-cp313-macosx_12_0_arm64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,257   Skipping link: No binaries permitted for medaka: https://files.pythonhosted.org/packages/ef/ab/0b8fa23db9ec45fcd9cbaa1723478b3d925165475b4f026c4682ac9fc91b/medaka-2.2.0-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10)
2025-12-08T17:43:55,258   Found link https://files.pythonhosted.org/packages/45/ce/4ed751512191f157c2e043ee7208e29478dfc0f89204514ff454746fa6af/medaka-2.2.0.tar.gz (from https://pypi.org/simple/medaka/) (requires-python:<3.14,>=3.10), version: 2.2.0
2025-12-08T17:43:55,259 Fetching project page and analyzing links: https://www.piwheels.org/simple/medaka/
2025-12-08T17:43:55,259 Getting page https://www.piwheels.org/simple/medaka/
2025-12-08T17:43:55,261 Found index url https://www.piwheels.org/simple
2025-12-08T17:43:55,416 Fetched page https://www.piwheels.org/simple/medaka/ as text/html
2025-12-08T17:43:55,418   Skipping link: No binaries permitted for medaka: https://archive1.piwheels.org/simple/medaka/medaka-0.5.2-py3-none-any.whl#sha256=bcc67dd6d4f32f924176f3799b90b95cb3c17fb677ca138a2c181ca40f1925a2 (from https://www.piwheels.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,419   Skipping link: No binaries permitted for medaka: https://archive1.piwheels.org/simple/medaka/medaka-0.4.3-py3-none-any.whl#sha256=68768ed4c7148853a1359ed2ccf07b668200347e1c7c8c68c28f15b3e79e7db0 (from https://www.piwheels.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,419   Skipping link: No binaries permitted for medaka: https://archive1.piwheels.org/simple/medaka/medaka-0.4.1-py3-none-any.whl#sha256=88c925ccbf18942ca9bd2d175e23454f1e762aca079619e4bba09b78c4992018 (from https://www.piwheels.org/simple/medaka/) (requires-python:>=3.4.*,<3.7)
2025-12-08T17:43:55,420 Skipping link: not a file: https://www.piwheels.org/simple/medaka/
2025-12-08T17:43:55,420 Skipping link: not a file: https://pypi.org/simple/medaka/
2025-12-08T17:43:55,440 Given no hashes to check 1 links for project 'medaka': discarding no candidates
2025-12-08T17:43:55,458 Collecting medaka==2.2.0
2025-12-08T17:43:55,461   Created temporary directory: /tmp/pip-unpack-_fnjt3po
2025-12-08T17:43:55,597   Downloading medaka-2.2.0.tar.gz (9.6 MB)
2025-12-08T17:43:57,576   Added medaka==2.2.0 from https://files.pythonhosted.org/packages/45/ce/4ed751512191f157c2e043ee7208e29478dfc0f89204514ff454746fa6af/medaka-2.2.0.tar.gz to build tracker '/tmp/pip-build-tracker-kblbqz4e'
2025-12-08T17:43:57,580   Created temporary directory: /tmp/pip-build-env-n6lirijt
2025-12-08T17:43:57,585   Installing build dependencies: started
2025-12-08T17:43:57,586   Running command pip subprocess to install build dependencies
2025-12-08T17:43:58,725   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2025-12-08T17:43:59,377   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
2025-12-08T17:43:59,400   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-12-08T17:44:01,116   Collecting setuptools
2025-12-08T17:44:01,222     Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB)
2025-12-08T17:44:01,490   Collecting wheel
2025-12-08T17:44:01,505     Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB)
2025-12-08T17:44:02,548   Collecting cffi
2025-12-08T17:44:02,558     Downloading https://www.piwheels.org/simple/cffi/cffi-2.0.0-cp311-cp311-linux_armv7l.whl (392 kB)
2025-12-08T17:44:02,607        ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 392.7/392.7 kB 9.5 MB/s eta 0:00:00
2025-12-08T17:44:02,720   Collecting pycparser
2025-12-08T17:44:02,729     Downloading https://www.piwheels.org/simple/pycparser/pycparser-2.23-py3-none-any.whl (118 kB)
2025-12-08T17:44:02,751        ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 118.2/118.2 kB 8.0 MB/s eta 0:00:00
2025-12-08T17:44:05,696   Installing collected packages: wheel, setuptools, pycparser, cffi
2025-12-08T17:44:05,942     Creating /tmp/pip-build-env-n6lirijt/overlay/local/bin
2025-12-08T17:44:05,944     changing mode of /tmp/pip-build-env-n6lirijt/overlay/local/bin/wheel to 755
2025-12-08T17:44:10,428   Successfully installed cffi-2.0.0 pycparser-2.23 setuptools-80.9.0 wheel-0.45.1
2025-12-08T17:44:10,762   Installing build dependencies: finished with status 'done'
2025-12-08T17:44:10,779   Getting requirements to build wheel: started
2025-12-08T17:44:10,780   Running command Getting requirements to build wheel
2025-12-08T17:44:11,367   Cannot import pyabpoa, some features may not be available.
2025-12-08T17:44:11,367   Cannot import wurlitzer, some features may not be available.
2025-12-08T17:44:11,579   /tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/cffi/cparser.py:154: UserWarning: String literal found in cdef() or type source. String literals are ignored here, but you should remove them anyway because some character sequences confuse pre-parsing.
2025-12-08T17:44:11,579     warnings.warn("String literal found in cdef() or type source. "
2025-12-08T17:44:11,739   Bundling models: ['r103_fast_g507', 'r103_fast_snp_g507', 'r103_fast_variant_g507', 'r103_hac_g507', 'r103_hac_snp_g507', 'r103_hac_variant_g507', 'r103_sup_g507', 'r103_sup_snp_g507', 'r103_sup_variant_g507', 'r1041_e82_260bps_fast_g632', 'r1041_e82_260bps_fast_variant_g632', 'r1041_e82_260bps_hac_g632', 'r1041_e82_260bps_hac_v4.0.0', 'r1041_e82_260bps_hac_v4.1.0', 'r1041_e82_260bps_hac_variant_g632', 'r1041_e82_260bps_hac_variant_v4.1.0', 'r1041_e82_260bps_joint_apk_ulk_v5.0.0', 'r1041_e82_260bps_sup_g632', 'r1041_e82_260bps_sup_v4.0.0', 'r1041_e82_260bps_sup_v4.1.0', 'r1041_e82_260bps_sup_variant_g632', 'r1041_e82_260bps_sup_variant_v4.1.0', 'r1041_e82_400bps_bacterial_methylation', 'r1041_e82_400bps_fast_g615', 'r1041_e82_400bps_fast_g632', 'r1041_e82_400bps_fast_variant_g615', 'r1041_e82_400bps_fast_variant_g632', 'r1041_e82_400bps_hac_g615', 'r1041_e82_400bps_hac_g632', 'r1041_e82_400bps_hac_v4.0.0', 'r1041_e82_400bps_hac_v4.1.0', 'r1041_e82_400bps_hac_v4.2.0', 'r1041_e82_400bps_hac_v4.3.0', 'r1041_e82_400bps_hac_v5.0.0', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_v5.2.0', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_variant_g615', 'r1041_e82_400bps_hac_variant_g632', 'r1041_e82_400bps_hac_variant_v4.1.0', 'r1041_e82_400bps_hac_variant_v4.2.0', 'r1041_e82_400bps_hac_variant_v4.3.0', 'r1041_e82_400bps_hac_variant_v5.0.0', 'r1041_e82_400bps_sup_g615', 'r1041_e82_400bps_sup_v4.0.0', 'r1041_e82_400bps_sup_v4.1.0', 'r1041_e82_400bps_sup_v4.2.0', 'r1041_e82_400bps_sup_v4.3.0', 'r1041_e82_400bps_sup_v5.0.0', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_v5.2.0', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_variant_g615', 'r1041_e82_400bps_sup_variant_v4.1.0', 'r1041_e82_400bps_sup_variant_v4.2.0', 'r1041_e82_400bps_sup_variant_v4.3.0', 'r1041_e82_400bps_sup_variant_v5.0.0', 'r104_e81_fast_g5015', 'r104_e81_fast_variant_g5015', 'r104_e81_hac_g5015', 'r104_e81_hac_variant_g5015', 'r104_e81_sup_g5015', 'r104_e81_sup_g610', 'r104_e81_sup_variant_g610', 'r941_e81_fast_g514', 'r941_e81_fast_variant_g514', 'r941_e81_hac_g514', 'r941_e81_hac_variant_g514', 'r941_e81_sup_g514', 'r941_e81_sup_variant_g514', 'r941_min_fast_g507', 'r941_min_fast_snp_g507', 'r941_min_fast_variant_g507', 'r941_min_hac_g507', 'r941_min_hac_snp_g507', 'r941_min_hac_variant_g507', 'r941_min_sup_g507', 'r941_min_sup_snp_g507', 'r941_min_sup_variant_g507', 'r941_prom_fast_g507', 'r941_prom_fast_snp_g507', 'r941_prom_fast_variant_g507', 'r941_prom_hac_g507', 'r941_prom_hac_snp_g507', 'r941_prom_hac_variant_g507', 'r941_prom_sup_g507', 'r941_prom_sup_snp_g507', 'r941_prom_sup_variant_g507', 'r941_sup_plant_g610', 'r941_sup_plant_variant_g610']
2025-12-08T17:44:11,740   Extra compile args:  ['-std=c99', '-O3', '-mtune=haswell']
2025-12-08T17:44:11,741   Extra link args:  []
2025-12-08T17:44:11,741   running egg_info
2025-12-08T17:44:11,747   writing medaka.egg-info/PKG-INFO
2025-12-08T17:44:11,752   writing dependency_links to medaka.egg-info/dependency_links.txt
2025-12-08T17:44:11,754   writing entry points to medaka.egg-info/entry_points.txt
2025-12-08T17:44:11,756   writing requirements to medaka.egg-info/requires.txt
2025-12-08T17:44:11,757   writing top-level names to medaka.egg-info/top_level.txt
2025-12-08T17:44:11,868   reading manifest file 'medaka.egg-info/SOURCES.txt'
2025-12-08T17:44:11,973   reading manifest template 'MANIFEST.in'
2025-12-08T17:44:12,005   no previously-included directories found matching 'submodules/samtools-*/htslib-*/test'
2025-12-08T17:44:12,008   no previously-included directories found matching 'build'
2025-12-08T17:44:12,009   adding license file 'LICENSE'
2025-12-08T17:44:12,031   writing manifest file 'medaka.egg-info/SOURCES.txt'
2025-12-08T17:44:12,140   Getting requirements to build wheel: finished with status 'done'
2025-12-08T17:44:12,143   Created temporary directory: /tmp/pip-modern-metadata-rlms_bne
2025-12-08T17:44:12,146   Preparing metadata (pyproject.toml): started
2025-12-08T17:44:12,147   Running command Preparing metadata (pyproject.toml)
2025-12-08T17:44:12,659   Cannot import pyabpoa, some features may not be available.
2025-12-08T17:44:12,660   Cannot import wurlitzer, some features may not be available.
2025-12-08T17:44:12,749   /tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/cffi/cparser.py:154: UserWarning: String literal found in cdef() or type source. String literals are ignored here, but you should remove them anyway because some character sequences confuse pre-parsing.
2025-12-08T17:44:12,749     warnings.warn("String literal found in cdef() or type source. "
2025-12-08T17:44:12,912   Bundling models: ['r103_fast_g507', 'r103_fast_snp_g507', 'r103_fast_variant_g507', 'r103_hac_g507', 'r103_hac_snp_g507', 'r103_hac_variant_g507', 'r103_sup_g507', 'r103_sup_snp_g507', 'r103_sup_variant_g507', 'r1041_e82_260bps_fast_g632', 'r1041_e82_260bps_fast_variant_g632', 'r1041_e82_260bps_hac_g632', 'r1041_e82_260bps_hac_v4.0.0', 'r1041_e82_260bps_hac_v4.1.0', 'r1041_e82_260bps_hac_variant_g632', 'r1041_e82_260bps_hac_variant_v4.1.0', 'r1041_e82_260bps_joint_apk_ulk_v5.0.0', 'r1041_e82_260bps_sup_g632', 'r1041_e82_260bps_sup_v4.0.0', 'r1041_e82_260bps_sup_v4.1.0', 'r1041_e82_260bps_sup_variant_g632', 'r1041_e82_260bps_sup_variant_v4.1.0', 'r1041_e82_400bps_bacterial_methylation', 'r1041_e82_400bps_fast_g615', 'r1041_e82_400bps_fast_g632', 'r1041_e82_400bps_fast_variant_g615', 'r1041_e82_400bps_fast_variant_g632', 'r1041_e82_400bps_hac_g615', 'r1041_e82_400bps_hac_g632', 'r1041_e82_400bps_hac_v4.0.0', 'r1041_e82_400bps_hac_v4.1.0', 'r1041_e82_400bps_hac_v4.2.0', 'r1041_e82_400bps_hac_v4.3.0', 'r1041_e82_400bps_hac_v5.0.0', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_v5.2.0', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_variant_g615', 'r1041_e82_400bps_hac_variant_g632', 'r1041_e82_400bps_hac_variant_v4.1.0', 'r1041_e82_400bps_hac_variant_v4.2.0', 'r1041_e82_400bps_hac_variant_v4.3.0', 'r1041_e82_400bps_hac_variant_v5.0.0', 'r1041_e82_400bps_sup_g615', 'r1041_e82_400bps_sup_v4.0.0', 'r1041_e82_400bps_sup_v4.1.0', 'r1041_e82_400bps_sup_v4.2.0', 'r1041_e82_400bps_sup_v4.3.0', 'r1041_e82_400bps_sup_v5.0.0', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_v5.2.0', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_variant_g615', 'r1041_e82_400bps_sup_variant_v4.1.0', 'r1041_e82_400bps_sup_variant_v4.2.0', 'r1041_e82_400bps_sup_variant_v4.3.0', 'r1041_e82_400bps_sup_variant_v5.0.0', 'r104_e81_fast_g5015', 'r104_e81_fast_variant_g5015', 'r104_e81_hac_g5015', 'r104_e81_hac_variant_g5015', 'r104_e81_sup_g5015', 'r104_e81_sup_g610', 'r104_e81_sup_variant_g610', 'r941_e81_fast_g514', 'r941_e81_fast_variant_g514', 'r941_e81_hac_g514', 'r941_e81_hac_variant_g514', 'r941_e81_sup_g514', 'r941_e81_sup_variant_g514', 'r941_min_fast_g507', 'r941_min_fast_snp_g507', 'r941_min_fast_variant_g507', 'r941_min_hac_g507', 'r941_min_hac_snp_g507', 'r941_min_hac_variant_g507', 'r941_min_sup_g507', 'r941_min_sup_snp_g507', 'r941_min_sup_variant_g507', 'r941_prom_fast_g507', 'r941_prom_fast_snp_g507', 'r941_prom_fast_variant_g507', 'r941_prom_hac_g507', 'r941_prom_hac_snp_g507', 'r941_prom_hac_variant_g507', 'r941_prom_sup_g507', 'r941_prom_sup_snp_g507', 'r941_prom_sup_variant_g507', 'r941_sup_plant_g610', 'r941_sup_plant_variant_g610']
2025-12-08T17:44:12,912   Extra compile args:  ['-std=c99', '-O3', '-mtune=haswell']
2025-12-08T17:44:12,913   Extra link args:  []
2025-12-08T17:44:12,914   running dist_info
2025-12-08T17:44:12,927   creating /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info
2025-12-08T17:44:12,928   writing /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/PKG-INFO
2025-12-08T17:44:12,933   writing dependency_links to /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/dependency_links.txt
2025-12-08T17:44:12,934   writing entry points to /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/entry_points.txt
2025-12-08T17:44:12,936   writing requirements to /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/requires.txt
2025-12-08T17:44:12,938   writing top-level names to /tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/top_level.txt
2025-12-08T17:44:12,939   writing manifest file '/tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/SOURCES.txt'
2025-12-08T17:44:12,983   reading manifest file '/tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/SOURCES.txt'
2025-12-08T17:44:12,985   reading manifest template 'MANIFEST.in'
2025-12-08T17:44:13,008   no previously-included directories found matching 'submodules/samtools-*/htslib-*/test'
2025-12-08T17:44:13,009   no previously-included directories found matching 'build'
2025-12-08T17:44:13,010   adding license file 'LICENSE'
2025-12-08T17:44:13,026   writing manifest file '/tmp/pip-modern-metadata-rlms_bne/medaka.egg-info/SOURCES.txt'
2025-12-08T17:44:13,028   creating '/tmp/pip-modern-metadata-rlms_bne/medaka-2.2.0.dist-info'
2025-12-08T17:44:13,188   Preparing metadata (pyproject.toml): finished with status 'done'
2025-12-08T17:44:13,194   Source in /tmp/pip-wheel-mqogq821/medaka_65b566b719814b0b97b2ebb3502ca8cb has version 2.2.0, which satisfies requirement medaka==2.2.0 from https://files.pythonhosted.org/packages/45/ce/4ed751512191f157c2e043ee7208e29478dfc0f89204514ff454746fa6af/medaka-2.2.0.tar.gz
2025-12-08T17:44:13,195   Removed medaka==2.2.0 from https://files.pythonhosted.org/packages/45/ce/4ed751512191f157c2e043ee7208e29478dfc0f89204514ff454746fa6af/medaka-2.2.0.tar.gz from build tracker '/tmp/pip-build-tracker-kblbqz4e'
2025-12-08T17:44:13,202 Created temporary directory: /tmp/pip-unpack-u5t99fzk
2025-12-08T17:44:13,203 Building wheels for collected packages: medaka
2025-12-08T17:44:13,209   Created temporary directory: /tmp/pip-wheel-c3ugivwp
2025-12-08T17:44:13,210   Destination directory: /tmp/pip-wheel-c3ugivwp
2025-12-08T17:44:13,212   Building wheel for medaka (pyproject.toml): started
2025-12-08T17:44:13,213   Running command Building wheel for medaka (pyproject.toml)
2025-12-08T17:44:13,712   Cannot import pyabpoa, some features may not be available.
2025-12-08T17:44:13,713   Cannot import wurlitzer, some features may not be available.
2025-12-08T17:44:13,799   /tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/cffi/cparser.py:154: UserWarning: String literal found in cdef() or type source. String literals are ignored here, but you should remove them anyway because some character sequences confuse pre-parsing.
2025-12-08T17:44:13,799     warnings.warn("String literal found in cdef() or type source. "
2025-12-08T17:44:13,963   Bundling models: ['r103_fast_g507', 'r103_fast_snp_g507', 'r103_fast_variant_g507', 'r103_hac_g507', 'r103_hac_snp_g507', 'r103_hac_variant_g507', 'r103_sup_g507', 'r103_sup_snp_g507', 'r103_sup_variant_g507', 'r1041_e82_260bps_fast_g632', 'r1041_e82_260bps_fast_variant_g632', 'r1041_e82_260bps_hac_g632', 'r1041_e82_260bps_hac_v4.0.0', 'r1041_e82_260bps_hac_v4.1.0', 'r1041_e82_260bps_hac_variant_g632', 'r1041_e82_260bps_hac_variant_v4.1.0', 'r1041_e82_260bps_joint_apk_ulk_v5.0.0', 'r1041_e82_260bps_sup_g632', 'r1041_e82_260bps_sup_v4.0.0', 'r1041_e82_260bps_sup_v4.1.0', 'r1041_e82_260bps_sup_variant_g632', 'r1041_e82_260bps_sup_variant_v4.1.0', 'r1041_e82_400bps_bacterial_methylation', 'r1041_e82_400bps_fast_g615', 'r1041_e82_400bps_fast_g632', 'r1041_e82_400bps_fast_variant_g615', 'r1041_e82_400bps_fast_variant_g632', 'r1041_e82_400bps_hac_g615', 'r1041_e82_400bps_hac_g632', 'r1041_e82_400bps_hac_v4.0.0', 'r1041_e82_400bps_hac_v4.1.0', 'r1041_e82_400bps_hac_v4.2.0', 'r1041_e82_400bps_hac_v4.3.0', 'r1041_e82_400bps_hac_v5.0.0', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_v5.2.0', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_hac_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_hac_variant_g615', 'r1041_e82_400bps_hac_variant_g632', 'r1041_e82_400bps_hac_variant_v4.1.0', 'r1041_e82_400bps_hac_variant_v4.2.0', 'r1041_e82_400bps_hac_variant_v4.3.0', 'r1041_e82_400bps_hac_variant_v5.0.0', 'r1041_e82_400bps_sup_g615', 'r1041_e82_400bps_sup_v4.0.0', 'r1041_e82_400bps_sup_v4.1.0', 'r1041_e82_400bps_sup_v4.2.0', 'r1041_e82_400bps_sup_v4.3.0', 'r1041_e82_400bps_sup_v5.0.0', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.0.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_v5.2.0', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_dwells', 'r1041_e82_400bps_sup_v5.2.0_rl_lstm384_no_dwells', 'r1041_e82_400bps_sup_variant_g615', 'r1041_e82_400bps_sup_variant_v4.1.0', 'r1041_e82_400bps_sup_variant_v4.2.0', 'r1041_e82_400bps_sup_variant_v4.3.0', 'r1041_e82_400bps_sup_variant_v5.0.0', 'r104_e81_fast_g5015', 'r104_e81_fast_variant_g5015', 'r104_e81_hac_g5015', 'r104_e81_hac_variant_g5015', 'r104_e81_sup_g5015', 'r104_e81_sup_g610', 'r104_e81_sup_variant_g610', 'r941_e81_fast_g514', 'r941_e81_fast_variant_g514', 'r941_e81_hac_g514', 'r941_e81_hac_variant_g514', 'r941_e81_sup_g514', 'r941_e81_sup_variant_g514', 'r941_min_fast_g507', 'r941_min_fast_snp_g507', 'r941_min_fast_variant_g507', 'r941_min_hac_g507', 'r941_min_hac_snp_g507', 'r941_min_hac_variant_g507', 'r941_min_sup_g507', 'r941_min_sup_snp_g507', 'r941_min_sup_variant_g507', 'r941_prom_fast_g507', 'r941_prom_fast_snp_g507', 'r941_prom_fast_variant_g507', 'r941_prom_hac_g507', 'r941_prom_hac_snp_g507', 'r941_prom_hac_variant_g507', 'r941_prom_sup_g507', 'r941_prom_sup_snp_g507', 'r941_prom_sup_variant_g507', 'r941_sup_plant_g610', 'r941_sup_plant_variant_g610']
2025-12-08T17:44:13,963   Extra compile args:  ['-std=c99', '-O3', '-mtune=haswell']
2025-12-08T17:44:13,964   Extra link args:  []
2025-12-08T17:44:13,964   running bdist_wheel
2025-12-08T17:44:13,984   running build
2025-12-08T17:44:13,984   running build_py
2025-12-08T17:44:13,995   creating build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:13,997   copying medaka/smolecule.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:13,999   copying medaka/training.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,002   copying medaka/stitch.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,004   copying medaka/variant.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,007   copying medaka/common.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,010   copying medaka/rle.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,012   copying medaka/medaka_counts.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,014   copying medaka/__init__.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,015   copying medaka/options.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,017   copying medaka/models.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,019   copying medaka/torch_ext.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,022   copying medaka/medaka.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,025   copying medaka/datastore.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,027   copying medaka/align.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,029   copying medaka/features.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,032   copying medaka/vcf.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,035   copying medaka/labels.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,040   copying medaka/executor.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,042   copying medaka/prediction.py -> build/lib.linux-armv7l-cpython-311/medaka
2025-12-08T17:44:14,045   creating build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,046   copying medaka/architectures/gru.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,048   copying medaka/architectures/latent_space_lstm.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,050   copying medaka/architectures/majority_vote_model.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,052   copying medaka/architectures/base_classes.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,054   copying medaka/architectures/__init__.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,055   copying medaka/architectures/read_level_modules.py -> build/lib.linux-armv7l-cpython-311/medaka/architectures
2025-12-08T17:44:14,058   creating build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,059   copying medaka/tandem/polisher.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,061   copying medaka/tandem/spanning_read_clusterer.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,064   copying medaka/tandem/record_name.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,066   copying medaka/tandem/tandem.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,068   copying medaka/tandem/consensus_generator.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,071   copying medaka/tandem/alignment.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,072   copying medaka/tandem/__init__.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,074   copying medaka/tandem/io.py -> build/lib.linux-armv7l-cpython-311/medaka/tandem
2025-12-08T17:44:14,085   creating build/lib.linux-armv7l-cpython-311/medaka/data
2025-12-08T17:44:14,086   copying medaka/data/r1041_e82_400bps_hac_v5.2.0_model_pt.tar.gz -> build/lib.linux-armv7l-cpython-311/medaka/data
2025-12-08T17:44:14,156   copying medaka/data/r1041_e82_400bps_hac_variant_v5.0.0_model_pt.tar.gz -> build/lib.linux-armv7l-cpython-311/medaka/data
2025-12-08T17:44:14,179   copying medaka/data/r1041_e82_400bps_sup_v5.2.0_model_pt.tar.gz -> build/lib.linux-armv7l-cpython-311/medaka/data
2025-12-08T17:44:14,203   copying medaka/data/r1041_e82_400bps_sup_variant_v5.0.0_model_pt.tar.gz -> build/lib.linux-armv7l-cpython-311/medaka/data
2025-12-08T17:44:14,228   running build_ext
2025-12-08T17:44:14,229   generating cffi module 'build/temp.linux-armv7l-cpython-311/libmedaka.c'
2025-12-08T17:44:14,229   creating build/temp.linux-armv7l-cpython-311
2025-12-08T17:44:14,248   Compiling htslib using Makefile
2025-12-08T17:44:14,351   cd submodules; \
2025-12-08T17:44:14,352   	curl -L -o samtools-1.14.tar.bz2 https://github.com/samtools/samtools/releases/download/1.14/samtools-1.14.tar.bz2; \
2025-12-08T17:44:14,352   	tar -xjf samtools-1.14.tar.bz2; \
2025-12-08T17:44:14,353   	rm samtools-1.14.tar.bz2
2025-12-08T17:44:14,432     % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
2025-12-08T17:44:14,433                                    Dload  Upload   Total   Spent    Left  Speed

2025-12-08T17:44:14,731     0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2025-12-08T17:44:14,732     0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0

2025-12-08T17:44:15,195     0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
2025-12-08T17:44:15,196   100 7563k  100 7563k    0     0  9902k      0 --:--:-- --:--:-- --:--:-- 23.4M
2025-12-08T17:44:20,124   # this is required only to add in -fpic so we can build python module
2025-12-08T17:44:20,129   \x1b[1;33mMaking libhts.a\x1b[0m
2025-12-08T17:44:20,130   cd submodules/samtools-1.14/htslib-1.14/ \
2025-12-08T17:44:20,130   	&& CFLAGS="-fpic -O3 -std=c99 -mtune=haswell" ./configure  \
2025-12-08T17:44:20,131   	&& make -j 4
2025-12-08T17:44:20,437   checking for gcc... gcc
2025-12-08T17:44:20,555   checking whether the C compiler works... no
2025-12-08T17:44:20,561   configure: error: in `/tmp/pip-wheel-mqogq821/medaka_65b566b719814b0b97b2ebb3502ca8cb/submodules/samtools-1.14/htslib-1.14':
2025-12-08T17:44:20,562   configure: error: C compiler cannot create executables
2025-12-08T17:44:20,563   See `config.log' for more details
2025-12-08T17:44:20,652   make: *** [Makefile:86: libhts.a] Error 77
2025-12-08T17:44:20,655   Traceback (most recent call last):
2025-12-08T17:44:20,655     File "/usr/lib/python3/dist-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 353, in <module>
2025-12-08T17:44:20,656       main()
2025-12-08T17:44:20,657     File "/usr/lib/python3/dist-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 335, in main
2025-12-08T17:44:20,658       json_out['return_val'] = hook(**hook_input['kwargs'])
2025-12-08T17:44:20,658                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,659     File "/usr/lib/python3/dist-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 251, in build_wheel
2025-12-08T17:44:20,660       return _build_backend().build_wheel(wheel_directory, config_settings,
2025-12-08T17:44:20,661              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,661     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/build_meta.py", line 435, in build_wheel
2025-12-08T17:44:20,662       return _build(['bdist_wheel', '--dist-info-dir', str(metadata_directory)])
2025-12-08T17:44:20,663              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,664     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/build_meta.py", line 423, in _build
2025-12-08T17:44:20,664       return self._build_with_temp_dir(
2025-12-08T17:44:20,665              ^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,666     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/build_meta.py", line 404, in _build_with_temp_dir
2025-12-08T17:44:20,667       self.run_setup()
2025-12-08T17:44:20,668     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/build_meta.py", line 512, in run_setup
2025-12-08T17:44:20,668       super().run_setup(setup_script=setup_script)
2025-12-08T17:44:20,669     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/build_meta.py", line 317, in run_setup
2025-12-08T17:44:20,669       exec(code, locals())
2025-12-08T17:44:20,670     File "<string>", line 118, in <module>
2025-12-08T17:44:20,670     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/__init__.py", line 115, in setup
2025-12-08T17:44:20,671       return distutils.core.setup(**attrs)
2025-12-08T17:44:20,671              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,672     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/core.py", line 186, in setup
2025-12-08T17:44:20,673       return run_commands(dist)
2025-12-08T17:44:20,673              ^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,674     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands
2025-12-08T17:44:20,674       dist.run_commands()
2025-12-08T17:44:20,675     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands
2025-12-08T17:44:20,675       self.run_command(cmd)
2025-12-08T17:44:20,676     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-12-08T17:44:20,677       super().run_command(command)
2025-12-08T17:44:20,677     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-12-08T17:44:20,678       cmd_obj.run()
2025-12-08T17:44:20,679     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run
2025-12-08T17:44:20,680       self.run_command("build")
2025-12-08T17:44:20,680     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command
2025-12-08T17:44:20,681       self.distribution.run_command(command)
2025-12-08T17:44:20,682     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-12-08T17:44:20,683       super().run_command(command)
2025-12-08T17:44:20,683     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-12-08T17:44:20,684       cmd_obj.run()
2025-12-08T17:44:20,685     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/command/build.py", line 135, in run
2025-12-08T17:44:20,686       self.run_command(cmd_name)
2025-12-08T17:44:20,687     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command
2025-12-08T17:44:20,687       self.distribution.run_command(command)
2025-12-08T17:44:20,688     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-12-08T17:44:20,689       super().run_command(command)
2025-12-08T17:44:20,689     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-12-08T17:44:20,690       cmd_obj.run()
2025-12-08T17:44:20,691     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/cffi/setuptools_ext.py", line 155, in run
2025-12-08T17:44:20,692       base_class.run(self)
2025-12-08T17:44:20,693     File "<string>", line 102, in run
2025-12-08T17:44:20,695     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py", line 384, in execute
2025-12-08T17:44:20,696       util.execute(func, args, msg, dry_run=self.dry_run)
2025-12-08T17:44:20,697     File "/tmp/pip-build-env-n6lirijt/overlay/local/lib/python3.11/dist-packages/setuptools/_distutils/util.py", line 334, in execute
2025-12-08T17:44:20,698       func(*args)
2025-12-08T17:44:20,698     File "<string>", line 100, in compile_hts
2025-12-08T17:44:20,699     File "/usr/lib/python3.11/subprocess.py", line 413, in check_call
2025-12-08T17:44:20,700       raise CalledProcessError(retcode, cmd)
2025-12-08T17:44:20,701   subprocess.CalledProcessError: Command '['make', 'libhts.a']' returned non-zero exit status 2.
2025-12-08T17:44:20,818   ERROR: [present-rich] Building wheel for medaka (pyproject.toml) exited with 1
2025-12-08T17:44:20,832   [bold magenta]full command[/]: [blue]/usr/bin/python3 /usr/lib/python3/dist-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py build_wheel /tmp/tmpo6moketk[/]
2025-12-08T17:44:20,832   [bold magenta]cwd[/]: /tmp/pip-wheel-mqogq821/medaka_65b566b719814b0b97b2ebb3502ca8cb
2025-12-08T17:44:20,833   Building wheel for medaka (pyproject.toml): finished with status 'error'
2025-12-08T17:44:20,835   ERROR: Failed building wheel for medaka
2025-12-08T17:44:20,837 Failed to build medaka
2025-12-08T17:44:20,838 ERROR: Failed to build one or more wheels
2025-12-08T17:44:20,840 Exception information:
2025-12-08T17:44:20,840 Traceback (most recent call last):
2025-12-08T17:44:20,840   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 160, in exc_logging_wrapper
2025-12-08T17:44:20,840     status = run_func(*args)
2025-12-08T17:44:20,840              ^^^^^^^^^^^^^^^
2025-12-08T17:44:20,840   File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 247, in wrapper
2025-12-08T17:44:20,840     return func(self, options, args)
2025-12-08T17:44:20,840            ^^^^^^^^^^^^^^^^^^^^^^^^^
2025-12-08T17:44:20,840   File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 201, in run
2025-12-08T17:44:20,840     raise CommandError("Failed to build one or more wheels")
2025-12-08T17:44:20,840 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2025-12-08T17:44:20,843 Removed build tracker: '/tmp/pip-build-tracker-kblbqz4e'