2025-09-08T01:16:43,841 Created temporary directory: /tmp/pip-build-tracker-ub78d_bb 2025-09-08T01:16:43,842 Initialized build tracking at /tmp/pip-build-tracker-ub78d_bb 2025-09-08T01:16:43,842 Created build tracker: /tmp/pip-build-tracker-ub78d_bb 2025-09-08T01:16:43,842 Entered build tracker: /tmp/pip-build-tracker-ub78d_bb 2025-09-08T01:16:43,842 Created temporary directory: /tmp/pip-wheel-vez9hf82 2025-09-08T01:16:43,845 Created temporary directory: /tmp/pip-ephem-wheel-cache-7gkmd_dt 2025-09-08T01:16:43,905 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T01:16:43,908 2 location(s) to search for versions of rnacounter: 2025-09-08T01:16:43,908 * https://pypi.org/simple/rnacounter/ 2025-09-08T01:16:43,908 * https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:16:43,908 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2025-09-08T01:16:43,908 Getting page https://pypi.org/simple/rnacounter/ 2025-09-08T01:16:43,909 Found index url https://pypi.org/simple/ 2025-09-08T01:16:43,979 Fetched page https://pypi.org/simple/rnacounter/ as application/vnd.pypi.simple.v1+json 2025-09-08T01:16:43,981 Found link https://files.pythonhosted.org/packages/8f/49/762bb78c6a1215e30ccd9702444375015a50b14847266db0c2f11219e78f/rnacounter-1.1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.2 2025-09-08T01:16:43,982 Found link https://files.pythonhosted.org/packages/04/c4/e2924af98cbf63c98cc5a9d210c3c54d959cf961fba4df5da3972afc84ae/rnacounter-1.1.3.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.1 2025-09-08T01:16:43,982 Found link https://files.pythonhosted.org/packages/39/70/41efc4ca6703ffdbdbab1dcd66976ed9a30c363b6f5ba417501e2dd9fb00/rnacounter-1.1.3.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.2 2025-09-08T01:16:43,982 Found link https://files.pythonhosted.org/packages/b1/1c/9f8deaa78b994019b9024043168567099fe010c79018373e2f6ed60ea646/rnacounter-1.1.3.7.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.7 2025-09-08T01:16:43,982 Found link https://files.pythonhosted.org/packages/14/a1/be9b12f40d130b182ed0d5d01b36f76e6089805a5c945d77941f5eb0928e/rnacounter-1.1.3.10.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.10 2025-09-08T01:16:43,983 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2 2025-09-08T01:16:43,983 Found link https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2.1 2025-09-08T01:16:43,983 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3 2025-09-08T01:16:43,983 Found link https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3.1 2025-09-08T01:16:43,983 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4 2025-09-08T01:16:43,984 Found link https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4.1 2025-09-08T01:16:43,984 Found link https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4.2 2025-09-08T01:16:43,984 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5 2025-09-08T01:16:43,984 Found link https://files.pythonhosted.org/packages/a2/ea/657e7b7aa7d777173695606509933b52d794b7dbb79501a87bfea2fb511f/rnacounter-1.5.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5.2 2025-09-08T01:16:43,985 Fetching project page and analyzing links: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:16:43,985 Getting page https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:16:43,986 Found index url https://www.piwheels.org/simple/ 2025-09-08T01:16:44,077 Fetched page https://www.piwheels.org/simple/rnacounter/ as text/html 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp35-cp35m-linux_armv7l.whl#sha256=1720939a09d8fbca466729cc4db98be3526fe7a3283ce22ef5c5a21d204a6161 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp35-cp35m-linux_armv6l.whl#sha256=1720939a09d8fbca466729cc4db98be3526fe7a3283ce22ef5c5a21d204a6161 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp34-cp34m-linux_armv7l.whl#sha256=e384cbf3852a44dffbf3a6887901acb36b9b30bd5c7e1a3585b2fe39d868d67a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp34-cp34m-linux_armv6l.whl#sha256=e384cbf3852a44dffbf3a6887901acb36b9b30bd5c7e1a3585b2fe39d868d67a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp35-cp35m-linux_armv7l.whl#sha256=02c416ec8854b92c815224212889f47dbd376e9797f66a0fb19531508b6bc793 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,091 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp35-cp35m-linux_armv6l.whl#sha256=02c416ec8854b92c815224212889f47dbd376e9797f66a0fb19531508b6bc793 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,092 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp34-cp34m-linux_armv7l.whl#sha256=ee88d3438f69ffa3b1868868fce8191565f303aee8dd3ff0f34c3a62886a495c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,092 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp34-cp34m-linux_armv6l.whl#sha256=ee88d3438f69ffa3b1868868fce8191565f303aee8dd3ff0f34c3a62886a495c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,092 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp34-cp34m-linux_armv7l.whl#sha256=078f497ded7b5492884f2136fa32e9948422bd185ba0345389b2b0d9fa7ab06e (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,092 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp34-cp34m-linux_armv6l.whl#sha256=078f497ded7b5492884f2136fa32e9948422bd185ba0345389b2b0d9fa7ab06e (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,092 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp35-cp35m-linux_armv6l.whl#sha256=8dffc574db1608136d619621a8809fb0e4d5d3f830e30f94cc2567f4b0a72c55 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp35-cp35m-linux_armv7l.whl#sha256=8dffc574db1608136d619621a8809fb0e4d5d3f830e30f94cc2567f4b0a72c55 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp35-cp35m-linux_armv7l.whl#sha256=35acff814eef7a87f368a8ed7c27f0be20add0cd4a9b4aa8ca756d84f216f218 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp35-cp35m-linux_armv6l.whl#sha256=35acff814eef7a87f368a8ed7c27f0be20add0cd4a9b4aa8ca756d84f216f218 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp34-cp34m-linux_armv7l.whl#sha256=627ec3e6dccdbc30b6697dd277204e300f58ecc971782b1231b09d84a4c1ef94 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp34-cp34m-linux_armv6l.whl#sha256=627ec3e6dccdbc30b6697dd277204e300f58ecc971782b1231b09d84a4c1ef94 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,093 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp34-cp34m-linux_armv7l.whl#sha256=9213623d552d14ff1971589aae10e5f886bcfb42045418cc5871a76607eb25b7 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp34-cp34m-linux_armv6l.whl#sha256=9213623d552d14ff1971589aae10e5f886bcfb42045418cc5871a76607eb25b7 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp35-cp35m-linux_armv6l.whl#sha256=14bd0bb3f4379d3d334abacfbbbf7ed43ad60736fa69f394c1eda0385dac9193 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp35-cp35m-linux_armv7l.whl#sha256=14bd0bb3f4379d3d334abacfbbbf7ed43ad60736fa69f394c1eda0385dac9193 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3.1-cp35-cp35m-linux_armv6l.whl#sha256=a5e2657cda5fa5a9283a186329fadd8db71987a54d71f713970a85b732030278 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3.1-cp35-cp35m-linux_armv7l.whl#sha256=a5e2657cda5fa5a9283a186329fadd8db71987a54d71f713970a85b732030278 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,094 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp35-cp35m-linux_armv6l.whl#sha256=b0a053ced5ce83115199785a117fc7820b20daffef5c19acafc83d0425aca0e1 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp35-cp35m-linux_armv7l.whl#sha256=b0a053ced5ce83115199785a117fc7820b20daffef5c19acafc83d0425aca0e1 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp34-cp34m-linux_armv7l.whl#sha256=7d3a7695b9d615f45d66d1d00f595ec7b65bbc53dc4ef98292fe909a75adf063 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp34-cp34m-linux_armv6l.whl#sha256=7d3a7695b9d615f45d66d1d00f595ec7b65bbc53dc4ef98292fe909a75adf063 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp35-cp35m-linux_armv7l.whl#sha256=b963649459fb2ab742b717d9b68c590d8ce6333d770e20648104b1e30b3ea97c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp35-cp35m-linux_armv6l.whl#sha256=b963649459fb2ab742b717d9b68c590d8ce6333d770e20648104b1e30b3ea97c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,095 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp34-cp34m-linux_armv7l.whl#sha256=2179418dc1805676ef1838a927c0bbcc2a131b63bd87636aecec3fa865b161d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,096 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp34-cp34m-linux_armv6l.whl#sha256=2179418dc1805676ef1838a927c0bbcc2a131b63bd87636aecec3fa865b161d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,096 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp34-cp34m-linux_armv7l.whl#sha256=8ed62342f5d7481f7393010ff34b0286db7f26ea914710a1f81e583b478bb68a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,096 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp34-cp34m-linux_armv6l.whl#sha256=8ed62342f5d7481f7393010ff34b0286db7f26ea914710a1f81e583b478bb68a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,096 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp35-cp35m-linux_armv7l.whl#sha256=6271c54eb4c54d72f9499294fc50f1644dbd248414d993f053106a876d2e9400 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,096 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp35-cp35m-linux_armv6l.whl#sha256=6271c54eb4c54d72f9499294fc50f1644dbd248414d993f053106a876d2e9400 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,097 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.10-cp34-cp34m-linux_armv7l.whl#sha256=c27c6c537f58aaa7ad6d853e9791f08485abe8fd219501a30647ef13d19a633a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,097 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.10-cp34-cp34m-linux_armv6l.whl#sha256=c27c6c537f58aaa7ad6d853e9791f08485abe8fd219501a30647ef13d19a633a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,097 Skipping link: No binaries permitted for rnacounter: 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https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp35-cp35m-linux_armv6l.whl#sha256=8863095125d87f061f7651061bc503fbb2c1c613417b578294b555b7bcbdeeba (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp34-cp34m-linux_armv7l.whl#sha256=368b4bcbb3bbab49c3600537626272135f936e694d4d17911afd7d83cdb31ee6 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp34-cp34m-linux_armv6l.whl#sha256=368b4bcbb3bbab49c3600537626272135f936e694d4d17911afd7d83cdb31ee6 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp34-cp34m-linux_armv7l.whl#sha256=fb039ca19afdc360ee5843812cf53fbca3ac952fe26a759e4c3700f3b460fc48 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp34-cp34m-linux_armv6l.whl#sha256=fb039ca19afdc360ee5843812cf53fbca3ac952fe26a759e4c3700f3b460fc48 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp35-cp35m-linux_armv7l.whl#sha256=51ed8c80ea67e82dc8bdaf5636d930011f8ce97bd9cc30432eedabb4dc8c9c95 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp35-cp35m-linux_armv6l.whl#sha256=51ed8c80ea67e82dc8bdaf5636d930011f8ce97bd9cc30432eedabb4dc8c9c95 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,098 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp35-cp35m-linux_armv7l.whl#sha256=534e0f91ccc8a7b74d0e8966764195b4b7e008408e132f2714d3790552ffae89 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp35-cp35m-linux_armv6l.whl#sha256=534e0f91ccc8a7b74d0e8966764195b4b7e008408e132f2714d3790552ffae89 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp34-cp34m-linux_armv7l.whl#sha256=699103109ceb69845e93941543cff532f3d26934d4a5ceb71af07f8f0c972407 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp34-cp34m-linux_armv6l.whl#sha256=699103109ceb69845e93941543cff532f3d26934d4a5ceb71af07f8f0c972407 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp34-cp34m-linux_armv7l.whl#sha256=e9936c67b8b3ee724e15ef197fef27eb2f5516ba9e9681ca399c5914b4fa01d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp34-cp34m-linux_armv6l.whl#sha256=e9936c67b8b3ee724e15ef197fef27eb2f5516ba9e9681ca399c5914b4fa01d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp35-cp35m-linux_armv6l.whl#sha256=edb76e1344212be1373b20323904b92e0429f1b336a75b9b74a852152217fbab (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,099 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp35-cp35m-linux_armv7l.whl#sha256=edb76e1344212be1373b20323904b92e0429f1b336a75b9b74a852152217fbab (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:16:44,100 Skipping link: not a file: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:16:44,100 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2025-09-08T01:16:44,124 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2025-09-08T01:16:44,125 Collecting rnacounter==1.5 2025-09-08T01:16:44,126 Created temporary directory: /tmp/pip-unpack-gl18flef 2025-09-08T01:16:44,271 Downloading rnacounter-1.5.tar.gz (301 kB) 2025-09-08T01:16:44,363 Added rnacounter==1.5 from https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz to build tracker '/tmp/pip-build-tracker-ub78d_bb' 2025-09-08T01:16:44,364 Running setup.py (path:/tmp/pip-wheel-vez9hf82/rnacounter_cd15de42c8834aada4cdc10ebaf4f8b9/setup.py) egg_info for package rnacounter 2025-09-08T01:16:44,364 Created temporary directory: /tmp/pip-pip-egg-info-iyt4441c 2025-09-08T01:16:44,364 Preparing metadata (setup.py): started 2025-09-08T01:16:44,365 Running command python setup.py egg_info 2025-09-08T01:16:45,389 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:16:45,389 warnings.warn(msg) 2025-09-08T01:16:45,864 running egg_info 2025-09-08T01:16:45,938 creating /tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info 2025-09-08T01:16:45,938 writing /tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/PKG-INFO 2025-09-08T01:16:45,939 writing dependency_links to /tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/dependency_links.txt 2025-09-08T01:16:45,940 writing requirements to /tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/requires.txt 2025-09-08T01:16:45,940 writing top-level names to /tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/top_level.txt 2025-09-08T01:16:45,940 writing manifest file '/tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:16:46,315 reading manifest file '/tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:16:46,316 reading manifest template 'MANIFEST.in' 2025-09-08T01:16:46,321 writing manifest file '/tmp/pip-pip-egg-info-iyt4441c/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:16:46,457 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T01:16:46,462 Source in /tmp/pip-wheel-vez9hf82/rnacounter_cd15de42c8834aada4cdc10ebaf4f8b9 has version 1.5, which satisfies requirement rnacounter==1.5 from https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz 2025-09-08T01:16:46,462 Removed rnacounter==1.5 from https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz from build tracker '/tmp/pip-build-tracker-ub78d_bb' 2025-09-08T01:16:46,466 Created temporary directory: /tmp/pip-unpack-onfdz28a 2025-09-08T01:16:46,467 Created temporary directory: /tmp/pip-unpack-woutz8i2 2025-09-08T01:16:46,467 Building wheels for collected packages: rnacounter 2025-09-08T01:16:46,468 Created temporary directory: /tmp/pip-wheel-v4zh7mg7 2025-09-08T01:16:46,469 DEPRECATION: Building 'rnacounter' 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 'rnacounter'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T01:16:46,470 Building wheel for rnacounter (setup.py): started 2025-09-08T01:16:46,471 Destination directory: /tmp/pip-wheel-v4zh7mg7 2025-09-08T01:16:46,471 Running command python setup.py bdist_wheel 2025-09-08T01:16:47,356 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:16:47,356 warnings.warn(msg) 2025-09-08T01:16:47,744 running bdist_wheel 2025-09-08T01:16:48,107 running build 2025-09-08T01:16:48,107 running build_py 2025-09-08T01:16:48,184 creating build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,185 copying rnacounter/setup.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,186 copying rnacounter/main.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,186 copying rnacounter/draft_nocython.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,187 copying rnacounter/__init__.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,188 creating build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:16:48,188 copying testfiles/__init__.py -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:16:48,188 running egg_info 2025-09-08T01:16:48,261 writing rnacounter.egg-info/PKG-INFO 2025-09-08T01:16:48,263 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2025-09-08T01:16:48,263 writing requirements to rnacounter.egg-info/requires.txt 2025-09-08T01:16:48,264 writing top-level names to rnacounter.egg-info/top_level.txt 2025-09-08T01:16:48,339 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:16:48,341 reading manifest template 'MANIFEST.in' 2025-09-08T01:16:48,346 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:16:48,348 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,354 copying testfiles/gapdhKO.bam -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:16:48,355 copying testfiles/gapdhKO.bam.bai -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:16:48,355 copying testfiles/mm9_3genes_renamed.gtf -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:16:48,356 running build_ext 2025-09-08T01:16:48,686 building 'rnacounter/rnacounter' extension 2025-09-08T01:16:48,687 creating build/temp.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:16:48,687 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/local/lib/python3.13/dist-packages/numpy/_core/include -I/usr/include/python3.13 -c rnacounter/rnacounter.c -o build/temp.linux-armv7l-cpython-313/rnacounter/rnacounter.o 2025-09-08T01:16:49,121 rnacounter/rnacounter.c: In function ‘__Pyx_ListComp_Append’: 2025-09-08T01:16:49,121 rnacounter/rnacounter.c:1281:23: error: lvalue required as left operand of assignment 2025-09-08T01:16:49,121 1281 | Py_SIZE(list) = len+1; 2025-09-08T01:16:49,121 | ^ 2025-09-08T01:16:49,122 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Append’: 2025-09-08T01:16:49,122 rnacounter/rnacounter.c:1329:23: error: lvalue required as left operand of assignment 2025-09-08T01:16:49,122 1329 | Py_SIZE(list) = len+1; 2025-09-08T01:16:49,122 | ^ 2025-09-08T01:16:49,131 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Extend’: 2025-09-08T01:16:49,131 rnacounter/rnacounter.c:1386:22: error: implicit declaration of function ‘_PyList_Extend’; did you mean ‘PyList_Extend’? [-Wimplicit-function-declaration] 2025-09-08T01:16:49,131 1386 | PyObject* none = _PyList_Extend((PyListObject*)L, v); 2025-09-08T01:16:49,131 | ^~~~~~~~~~~~~~ 2025-09-08T01:16:49,131 | PyList_Extend 2025-09-08T01:16:49,131 rnacounter/rnacounter.c:1386:22: error: initialization of ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:49,189 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_2parse_bed’: 2025-09-08T01:16:49,193 rnacounter/rnacounter.c:4077:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:49,193 4077 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:16:49,193 | ^~ 2025-09-08T01:16:49,193 In file included from /usr/include/python3.13/Python.h:76, 2025-09-08T01:16:49,193 from rnacounter/rnacounter.c:16: 2025-09-08T01:16:49,194 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:16:49,194 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:16:49,194 | ^~~~~~~~~~~~~~~ 2025-09-08T01:16:49,243 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_4join’: 2025-09-08T01:16:49,248 rnacounter/rnacounter.c:5394:9: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:49,248 5394 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:16:49,248 | ^~ 2025-09-08T01:16:49,248 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:16:49,248 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:16:49,248 | ^~~~~~~~~~~~~~~ 2025-09-08T01:16:50,385 rnacounter/rnacounter.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-08T01:16:50,424 rnacounter/rnacounter.c:23649:50: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-08T01:16:50,424 23649 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:16:50,424 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,424 | PyBUF_C_CONTIGUOUS 2025-09-08T01:16:50,427 rnacounter/rnacounter.c:23649:50: note: each undeclared identifier is reported only once for each function it appears in 2025-09-08T01:16:50,487 rnacounter/rnacounter.c:23689:50: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-08T01:16:50,487 23689 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:16:50,487 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,487 | PyBUF_F_CONTIGUOUS 2025-09-08T01:16:50,494 rnacounter/rnacounter.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-08T01:16:50,522 rnacounter/rnacounter.c:24695:29: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:16:50,523 24695 | if (unlikely(__pyx_v_descr->names == Py_None)) { 2025-09-08T01:16:50,523 | ^~ 2025-09-08T01:16:50,523 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:16:50,523 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:16:50,523 | ^ 2025-09-08T01:16:50,552 rnacounter/rnacounter.c:24699:28: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:16:50,552 24699 | __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0; 2025-09-08T01:16:50,552 | ^~ 2025-09-08T01:16:50,587 rnacounter/rnacounter.c:24717:47: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-08T01:16:50,587 24717 | __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(__pyx_t_3 == NULL)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; 2025-09-08T01:16:50,587 | ^~ 2025-09-08T01:16:50,637 rnacounter/rnacounter.c:24898:79: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-08T01:16:50,637 24898 | (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize); 2025-09-08T01:16:50,638 | ^~ 2025-09-08T01:16:50,685 rnacounter/rnacounter.c: In function ‘__pyx_tp_dealloc_10rnacounter_10rnacounter_GenomicObject’: 2025-09-08T01:16:50,714 rnacounter/rnacounter.c:25530:45: error: implicit declaration of function ‘_PyGC_FINALIZED’ [-Wimplicit-function-declaration] 2025-09-08T01:16:50,715 25530 | if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { 2025-09-08T01:16:50,715 | ^~~~~~~~~~~~~~~ 2025-09-08T01:16:50,769 rnacounter/rnacounter.c: In function ‘__Pyx_InitCachedConstants’: 2025-09-08T01:16:50,802 rnacounter/rnacounter.c:28773:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:50,802 28773 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,802 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,802 In file included from /usr/include/python3.13/Python.h:101: 2025-09-08T01:16:50,803 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:50,803 213 | PyCode_New( 2025-09-08T01:16:50,803 | ^~~~~~~~~~ 2025-09-08T01:16:50,839 rnacounter/rnacounter.c:28773:243: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:50,839 28773 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,839 | ^~ 2025-09-08T01:16:50,839 | | 2025-09-08T01:16:50,839 | int 2025-09-08T01:16:50,840 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:50,840 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:50,840 | ^~~~~ 2025-09-08T01:16:50,840 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:50,840 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:50,840 | ~~~~~~~~~~^ 2025-09-08T01:16:50,876 rnacounter/rnacounter.c:28773:247: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:50,876 28773 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,876 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,876 | | 2025-09-08T01:16:50,876 | PyObject * {aka struct _object *} 2025-09-08T01:16:50,876 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:50,876 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:50,876 | ^~~~ 2025-09-08T01:16:50,877 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:50,877 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:50,877 | ~~~~^ 2025-09-08T01:16:50,912 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:50,912 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:50,912 | ^~~~~~~~~~ 2025-09-08T01:16:50,913 rnacounter/rnacounter.c:28773:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:50,913 28773 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,913 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,913 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:50,913 213 | PyCode_New( 2025-09-08T01:16:50,913 | ^~~~~~~~~~ 2025-09-08T01:16:50,945 rnacounter/rnacounter.c:28785:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:50,945 28785 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__72, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,946 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:50,946 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:50,946 213 | PyCode_New( 2025-09-08T01:16:50,946 | ^~~~~~~~~~ 2025-09-08T01:16:50,982 rnacounter/rnacounter.c:28785:244: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:50,982 28785 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__72, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:50,982 | ^~ 2025-09-08T01:16:50,982 | | 2025-09-08T01:16:50,982 | int 2025-09-08T01:16:50,982 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:50,983 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:50,983 | ^~~~~ 2025-09-08T01:16:50,983 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:50,983 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:50,983 | ~~~~~~~~~~^ 2025-09-08T01:16:51,019 rnacounter/rnacounter.c:28785:248: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,019 28785 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__72, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,019 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,019 | | 2025-09-08T01:16:51,019 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,019 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,019 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,019 | ^~~~ 2025-09-08T01:16:51,019 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,019 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,020 | ~~~~^ 2025-09-08T01:16:51,055 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,055 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,055 | ^~~~~~~~~~ 2025-09-08T01:16:51,055 rnacounter/rnacounter.c:28785:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,056 28785 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__72, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,056 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,056 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,056 213 | PyCode_New( 2025-09-08T01:16:51,056 | ^~~~~~~~~~ 2025-09-08T01:16:51,088 rnacounter/rnacounter.c:28797:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,088 28797 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(2, 0, 19, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,089 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,089 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,089 213 | PyCode_New( 2025-09-08T01:16:51,089 | ^~~~~~~~~~ 2025-09-08T01:16:51,125 rnacounter/rnacounter.c:28797:239: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,125 28797 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(2, 0, 19, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,125 | ^~~ 2025-09-08T01:16:51,125 | | 2025-09-08T01:16:51,125 | int 2025-09-08T01:16:51,125 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,125 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,126 | ^~~~~ 2025-09-08T01:16:51,126 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,126 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,126 | ~~~~~~~~~~^ 2025-09-08T01:16:51,161 rnacounter/rnacounter.c:28797:244: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,162 28797 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(2, 0, 19, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,162 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,162 | | 2025-09-08T01:16:51,162 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,162 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,162 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,162 | ^~~~ 2025-09-08T01:16:51,162 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,162 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,163 | ~~~~^ 2025-09-08T01:16:51,198 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,198 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,198 | ^~~~~~~~~~ 2025-09-08T01:16:51,198 rnacounter/rnacounter.c:28797:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,199 28797 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(2, 0, 19, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,199 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,199 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,199 213 | PyCode_New( 2025-09-08T01:16:51,199 | ^~~~~~~~~~ 2025-09-08T01:16:51,231 rnacounter/rnacounter.c:28809:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,232 28809 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(4, 0, 56, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 572, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 572; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,232 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,232 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,232 213 | PyCode_New( 2025-09-08T01:16:51,232 | ^~~~~~~~~~ 2025-09-08T01:16:51,268 rnacounter/rnacounter.c:28809:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,268 28809 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(4, 0, 56, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 572, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 572; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,268 | ^~~ 2025-09-08T01:16:51,268 | | 2025-09-08T01:16:51,269 | int 2025-09-08T01:16:51,269 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,269 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,269 | ^~~~~ 2025-09-08T01:16:51,269 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,269 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,269 | ~~~~~~~~~~^ 2025-09-08T01:16:51,305 rnacounter/rnacounter.c:28809:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,305 28809 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(4, 0, 56, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 572, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 572; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,305 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,305 | | 2025-09-08T01:16:51,305 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,305 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,305 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,305 | ^~~~ 2025-09-08T01:16:51,306 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,306 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,306 | ~~~~^ 2025-09-08T01:16:51,341 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,342 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,342 | ^~~~~~~~~~ 2025-09-08T01:16:51,342 rnacounter/rnacounter.c:28809:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,342 28809 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(4, 0, 56, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 572, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 572; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,342 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,342 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,342 213 | PyCode_New( 2025-09-08T01:16:51,342 | ^~~~~~~~~~ 2025-09-08T01:16:51,374 rnacounter/rnacounter.c:28821:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,375 28821 | __pyx_codeobj__79 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__78, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 715, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__79)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 715; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,375 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,375 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,375 213 | PyCode_New( 2025-09-08T01:16:51,375 | ^~~~~~~~~~ 2025-09-08T01:16:51,411 rnacounter/rnacounter.c:28821:247: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,411 28821 | __pyx_codeobj__79 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__78, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 715, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__79)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 715; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,411 | ^~~ 2025-09-08T01:16:51,412 | | 2025-09-08T01:16:51,412 | int 2025-09-08T01:16:51,412 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,412 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,412 | ^~~~~ 2025-09-08T01:16:51,412 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,412 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,412 | ~~~~~~~~~~^ 2025-09-08T01:16:51,448 rnacounter/rnacounter.c:28821:252: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,448 28821 | __pyx_codeobj__79 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__78, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 715, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__79)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 715; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,448 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,448 | | 2025-09-08T01:16:51,448 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,448 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,448 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,449 | ^~~~ 2025-09-08T01:16:51,449 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,449 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,449 | ~~~~^ 2025-09-08T01:16:51,484 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,485 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,485 | ^~~~~~~~~~ 2025-09-08T01:16:51,485 rnacounter/rnacounter.c:28821:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,485 28821 | __pyx_codeobj__79 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__78, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 715, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__79)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 715; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,485 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,485 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,485 213 | PyCode_New( 2025-09-08T01:16:51,485 | ^~~~~~~~~~ 2025-09-08T01:16:51,518 rnacounter/rnacounter.c:28833:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,518 28833 | __pyx_codeobj__82 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__81, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_rnacounter_main, 735, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__82)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 735; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,518 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,518 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,518 213 | PyCode_New( 2025-09-08T01:16:51,518 | ^~~~~~~~~~ 2025-09-08T01:16:51,554 rnacounter/rnacounter.c:28833:250: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,555 28833 | __pyx_codeobj__82 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__81, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_rnacounter_main, 735, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__82)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 735; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,555 | ^~~ 2025-09-08T01:16:51,555 | | 2025-09-08T01:16:51,555 | int 2025-09-08T01:16:51,555 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,555 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,555 | ^~~~~ 2025-09-08T01:16:51,555 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,555 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,555 | ~~~~~~~~~~^ 2025-09-08T01:16:51,591 rnacounter/rnacounter.c:28833:255: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,591 28833 | __pyx_codeobj__82 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__81, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_rnacounter_main, 735, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__82)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 735; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,591 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,592 | | 2025-09-08T01:16:51,592 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,592 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,592 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,592 | ^~~~ 2025-09-08T01:16:51,592 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,592 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,592 | ~~~~^ 2025-09-08T01:16:51,628 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,628 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,628 | ^~~~~~~~~~ 2025-09-08T01:16:51,628 rnacounter/rnacounter.c:28833:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,628 28833 | __pyx_codeobj__82 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__81, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_rnacounter_main, 735, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__82)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 735; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,628 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,629 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,629 213 | PyCode_New( 2025-09-08T01:16:51,629 | ^~~~~~~~~~ 2025-09-08T01:16:51,661 rnacounter/rnacounter.c:28842:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,661 28842 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(0, 0, 0, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_usage_string, 832, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 832; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,661 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,661 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,661 213 | PyCode_New( 2025-09-08T01:16:51,662 | ^~~~~~~~~~ 2025-09-08T01:16:51,698 rnacounter/rnacounter.c:28842:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,698 28842 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(0, 0, 0, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_usage_string, 832, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 832; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,698 | ^~~ 2025-09-08T01:16:51,698 | | 2025-09-08T01:16:51,698 | int 2025-09-08T01:16:51,698 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,698 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,698 | ^~~~~ 2025-09-08T01:16:51,698 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,699 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,699 | ~~~~~~~~~~^ 2025-09-08T01:16:51,734 rnacounter/rnacounter.c:28842:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,735 28842 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(0, 0, 0, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_usage_string, 832, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 832; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,735 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,735 | | 2025-09-08T01:16:51,735 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,735 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,735 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,735 | ^~~~ 2025-09-08T01:16:51,735 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,735 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,735 | ~~~~^ 2025-09-08T01:16:51,771 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,771 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,771 | ^~~~~~~~~~ 2025-09-08T01:16:51,771 rnacounter/rnacounter.c:28842:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,771 28842 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(0, 0, 0, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_usage_string, 832, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 832; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,772 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,772 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,772 213 | PyCode_New( 2025-09-08T01:16:51,772 | ^~~~~~~~~~ 2025-09-08T01:16:51,804 rnacounter/rnacounter.c:28854:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,804 28854 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 835, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 835; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,805 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,805 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,805 213 | PyCode_New( 2025-09-08T01:16:51,805 | ^~~~~~~~~~ 2025-09-08T01:16:51,841 rnacounter/rnacounter.c:28854:240: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,841 28854 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 835, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 835; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,841 | ^~~ 2025-09-08T01:16:51,841 | | 2025-09-08T01:16:51,841 | int 2025-09-08T01:16:51,841 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,842 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,842 | ^~~~~ 2025-09-08T01:16:51,842 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,842 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,842 | ~~~~~~~~~~^ 2025-09-08T01:16:51,878 rnacounter/rnacounter.c:28854:245: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:51,878 28854 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 835, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 835; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,878 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,878 | | 2025-09-08T01:16:51,878 | PyObject * {aka struct _object *} 2025-09-08T01:16:51,878 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,878 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,878 | ^~~~ 2025-09-08T01:16:51,879 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:51,879 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,879 | ~~~~^ 2025-09-08T01:16:51,914 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:51,915 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,915 | ^~~~~~~~~~ 2025-09-08T01:16:51,915 rnacounter/rnacounter.c:28854:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,915 28854 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 835, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 835; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,915 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,915 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,915 213 | PyCode_New( 2025-09-08T01:16:51,915 | ^~~~~~~~~~ 2025-09-08T01:16:51,948 rnacounter/rnacounter.c:28866:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:51,948 28866 | __pyx_codeobj__87 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__86, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 839, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__87)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 839; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,948 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:51,948 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:51,948 213 | PyCode_New( 2025-09-08T01:16:51,948 | ^~~~~~~~~~ 2025-09-08T01:16:51,984 rnacounter/rnacounter.c:28866:245: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:51,985 28866 | __pyx_codeobj__87 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__86, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 839, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__87)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 839; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:51,985 | ^~~ 2025-09-08T01:16:51,985 | | 2025-09-08T01:16:51,985 | int 2025-09-08T01:16:51,985 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:51,985 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:51,985 | ^~~~~ 2025-09-08T01:16:51,985 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:51,985 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:51,985 | ~~~~~~~~~~^ 2025-09-08T01:16:52,021 rnacounter/rnacounter.c:28866:250: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:52,021 28866 | __pyx_codeobj__87 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__86, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 839, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__87)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 839; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:52,021 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:52,022 | | 2025-09-08T01:16:52,022 | PyObject * {aka struct _object *} 2025-09-08T01:16:52,022 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:52,022 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:52,022 | ^~~~ 2025-09-08T01:16:52,022 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:52,022 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:52,022 | ~~~~^ 2025-09-08T01:16:52,058 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:52,058 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:52,058 | ^~~~~~~~~~ 2025-09-08T01:16:52,058 rnacounter/rnacounter.c:28866:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:52,058 28866 | __pyx_codeobj__87 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__86, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 839, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__87)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 839; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:16:52,058 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:52,059 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:52,059 213 | PyCode_New( 2025-09-08T01:16:52,059 | ^~~~~~~~~~ 2025-09-08T01:16:52,061 rnacounter/rnacounter.c: In function ‘PyInit_rnacounter’: 2025-09-08T01:16:52,094 rnacounter/rnacounter.c:28973:53: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,095 28973 | __pyx_type_10rnacounter_10rnacounter_GenomicObject.tp_print = 0; 2025-09-08T01:16:52,095 | ^ 2025-09-08T01:16:52,128 rnacounter/rnacounter.c:28988:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,128 28988 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct__parse_gtf.tp_print = 0; 2025-09-08T01:16:52,129 | ^ 2025-09-08T01:16:52,162 rnacounter/rnacounter.c:28991:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,162 28991 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_1_genexpr.tp_print = 0; 2025-09-08T01:16:52,162 | ^ 2025-09-08T01:16:52,195 rnacounter/rnacounter.c:28994:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,195 28994 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_2_genexpr.tp_print = 0; 2025-09-08T01:16:52,195 | ^ 2025-09-08T01:16:52,228 rnacounter/rnacounter.c:28997:65: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,228 28997 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_3_join.tp_print = 0; 2025-09-08T01:16:52,228 | ^ 2025-09-08T01:16:52,261 rnacounter/rnacounter.c:29000:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,262 29000 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_4_genexpr.tp_print = 0; 2025-09-08T01:16:52,262 | ^ 2025-09-08T01:16:52,295 rnacounter/rnacounter.c:29003:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,295 29003 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_5_genexpr.tp_print = 0; 2025-09-08T01:16:52,295 | ^ 2025-09-08T01:16:52,328 rnacounter/rnacounter.c:29006:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,328 29006 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_6_genexpr.tp_print = 0; 2025-09-08T01:16:52,328 | ^ 2025-09-08T01:16:52,361 rnacounter/rnacounter.c:29009:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,362 29009 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_7_process_chunk.tp_print = 0; 2025-09-08T01:16:52,362 | ^ 2025-09-08T01:16:52,395 rnacounter/rnacounter.c:29012:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,395 29012 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_8_genexpr.tp_print = 0; 2025-09-08T01:16:52,395 | ^ 2025-09-08T01:16:52,428 rnacounter/rnacounter.c:29015:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,428 29015 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_9_genexpr.tp_print = 0; 2025-09-08T01:16:52,428 | ^ 2025-09-08T01:16:52,461 rnacounter/rnacounter.c:29018:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,462 29018 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_10_genexpr.tp_print = 0; 2025-09-08T01:16:52,462 | ^ 2025-09-08T01:16:52,495 rnacounter/rnacounter.c:29021:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,495 29021 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_11_print_output.tp_print = 0; 2025-09-08T01:16:52,495 | ^ 2025-09-08T01:16:52,528 rnacounter/rnacounter.c:29024:72: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,528 29024 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_12_parse_args.tp_print = 0; 2025-09-08T01:16:52,528 | ^ 2025-09-08T01:16:52,562 rnacounter/rnacounter.c:29027:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,562 29027 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_13_genexpr.tp_print = 0; 2025-09-08T01:16:52,562 | ^ 2025-09-08T01:16:52,595 rnacounter/rnacounter.c:29030:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,595 29030 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_14_genexpr.tp_print = 0; 2025-09-08T01:16:52,595 | ^ 2025-09-08T01:16:52,628 rnacounter/rnacounter.c:29033:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:16:52,628 29033 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_15_genexpr.tp_print = 0; 2025-09-08T01:16:52,629 | ^ 2025-09-08T01:16:52,683 rnacounter/rnacounter.c: In function ‘__Pyx_PyUnicode_Equals’: 2025-09-08T01:16:52,721 rnacounter/rnacounter.c:84:51: error: implicit declaration of function ‘_PyUnicode_Ready’; did you mean ‘PyUnicode_READY’? [-Wimplicit-function-declaration] 2025-09-08T01:16:52,722 84 | 0 : _PyUnicode_Ready((PyObject *)(op))) 2025-09-08T01:16:52,722 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:52,722 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:16:52,722 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:16:52,722 | ^ 2025-09-08T01:16:52,722 rnacounter/rnacounter.c:29531:22: note: in expansion of macro ‘__Pyx_PyUnicode_READY’ 2025-09-08T01:16:52,722 29531 | if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) 2025-09-08T01:16:52,722 | ^~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:52,770 rnacounter/rnacounter.c: In function ‘__Pyx_ErrRestore’: 2025-09-08T01:16:52,805 rnacounter/rnacounter.c:29623:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:52,805 29623 | tmp_type = tstate->curexc_type; 2025-09-08T01:16:52,805 | ^~ 2025-09-08T01:16:52,839 rnacounter/rnacounter.c:29624:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:52,839 29624 | tmp_value = tstate->curexc_value; 2025-09-08T01:16:52,839 | ^~ 2025-09-08T01:16:52,874 rnacounter/rnacounter.c:29625:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:52,874 29625 | tmp_tb = tstate->curexc_traceback; 2025-09-08T01:16:52,874 | ^~ 2025-09-08T01:16:52,908 rnacounter/rnacounter.c:29626:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:52,908 29626 | tstate->curexc_type = type; 2025-09-08T01:16:52,908 | ^~ 2025-09-08T01:16:52,943 rnacounter/rnacounter.c:29627:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:52,943 29627 | tstate->curexc_value = value; 2025-09-08T01:16:52,943 | ^~ 2025-09-08T01:16:52,977 rnacounter/rnacounter.c:29628:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:52,977 29628 | tstate->curexc_traceback = tb; 2025-09-08T01:16:52,977 | ^~ 2025-09-08T01:16:52,978 rnacounter/rnacounter.c: In function ‘__Pyx_ErrFetch’: 2025-09-08T01:16:53,012 rnacounter/rnacounter.c:29639:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:53,012 29639 | *type = tstate->curexc_type; 2025-09-08T01:16:53,012 | ^~ 2025-09-08T01:16:53,046 rnacounter/rnacounter.c:29640:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:53,047 29640 | *value = tstate->curexc_value; 2025-09-08T01:16:53,047 | ^~ 2025-09-08T01:16:53,081 rnacounter/rnacounter.c:29641:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:53,081 29641 | *tb = tstate->curexc_traceback; 2025-09-08T01:16:53,081 | ^~ 2025-09-08T01:16:53,115 rnacounter/rnacounter.c:29642:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:53,116 29642 | tstate->curexc_type = 0; 2025-09-08T01:16:53,116 | ^~ 2025-09-08T01:16:53,150 rnacounter/rnacounter.c:29643:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:53,150 29643 | tstate->curexc_value = 0; 2025-09-08T01:16:53,150 | ^~ 2025-09-08T01:16:53,184 rnacounter/rnacounter.c:29644:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:53,185 29644 | tstate->curexc_traceback = 0; 2025-09-08T01:16:53,185 | ^~ 2025-09-08T01:16:53,252 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2025-09-08T01:16:53,302 rnacounter/rnacounter.c:29841:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:53,302 29841 | *type = tstate->exc_type; 2025-09-08T01:16:53,302 | ^~~~~~~~ 2025-09-08T01:16:53,302 | exc_state 2025-09-08T01:16:53,336 rnacounter/rnacounter.c:29842:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:53,336 29842 | *value = tstate->exc_value; 2025-09-08T01:16:53,336 | ^~ 2025-09-08T01:16:53,370 rnacounter/rnacounter.c:29843:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:53,370 29843 | *tb = tstate->exc_traceback; 2025-09-08T01:16:53,370 | ^~ 2025-09-08T01:16:53,370 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2025-09-08T01:16:53,419 rnacounter/rnacounter.c:29855:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:53,420 29855 | tmp_type = tstate->exc_type; 2025-09-08T01:16:53,420 | ^~~~~~~~ 2025-09-08T01:16:53,420 | exc_state 2025-09-08T01:16:53,457 rnacounter/rnacounter.c:29856:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:53,457 29856 | tmp_value = tstate->exc_value; 2025-09-08T01:16:53,457 | ^~ 2025-09-08T01:16:53,488 rnacounter/rnacounter.c:29857:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:53,488 29857 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:16:53,489 | ^~ 2025-09-08T01:16:53,538 rnacounter/rnacounter.c:29858:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:53,538 29858 | tstate->exc_type = type; 2025-09-08T01:16:53,538 | ^~~~~~~~ 2025-09-08T01:16:53,538 | exc_state 2025-09-08T01:16:53,573 rnacounter/rnacounter.c:29859:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:53,573 29859 | tstate->exc_value = value; 2025-09-08T01:16:53,573 | ^~ 2025-09-08T01:16:53,607 rnacounter/rnacounter.c:29860:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:53,608 29860 | tstate->exc_traceback = tb; 2025-09-08T01:16:53,608 | ^~ 2025-09-08T01:16:53,608 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2025-09-08T01:16:53,643 rnacounter/rnacounter.c:29874:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:53,643 29874 | local_type = tstate->curexc_type; 2025-09-08T01:16:53,643 | ^~ 2025-09-08T01:16:53,677 rnacounter/rnacounter.c:29875:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:53,678 29875 | local_value = tstate->curexc_value; 2025-09-08T01:16:53,678 | ^~ 2025-09-08T01:16:53,712 rnacounter/rnacounter.c:29876:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:53,712 29876 | local_tb = tstate->curexc_traceback; 2025-09-08T01:16:53,712 | ^~ 2025-09-08T01:16:53,747 rnacounter/rnacounter.c:29877:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:53,747 29877 | tstate->curexc_type = 0; 2025-09-08T01:16:53,747 | ^~ 2025-09-08T01:16:53,781 rnacounter/rnacounter.c:29878:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:53,782 29878 | tstate->curexc_value = 0; 2025-09-08T01:16:53,782 | ^~ 2025-09-08T01:16:53,816 rnacounter/rnacounter.c:29879:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:53,816 29879 | tstate->curexc_traceback = 0; 2025-09-08T01:16:53,817 | ^~ 2025-09-08T01:16:53,851 rnacounter/rnacounter.c:29885:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:53,851 29885 | if (unlikely(tstate->curexc_type)) 2025-09-08T01:16:53,851 | ^~ 2025-09-08T01:16:53,852 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:16:53,852 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:16:53,852 | ^ 2025-09-08T01:16:53,910 rnacounter/rnacounter.c:29903:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:53,910 29903 | tmp_type = tstate->exc_type; 2025-09-08T01:16:53,910 | ^~~~~~~~ 2025-09-08T01:16:53,910 | exc_state 2025-09-08T01:16:53,945 rnacounter/rnacounter.c:29904:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:53,945 29904 | tmp_value = tstate->exc_value; 2025-09-08T01:16:53,945 | ^~ 2025-09-08T01:16:53,979 rnacounter/rnacounter.c:29905:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:53,979 29905 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:16:53,980 | ^~ 2025-09-08T01:16:54,029 rnacounter/rnacounter.c:29906:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:54,029 29906 | tstate->exc_type = local_type; 2025-09-08T01:16:54,029 | ^~~~~~~~ 2025-09-08T01:16:54,029 | exc_state 2025-09-08T01:16:54,064 rnacounter/rnacounter.c:29907:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:54,064 29907 | tstate->exc_value = local_value; 2025-09-08T01:16:54,064 | ^~ 2025-09-08T01:16:54,099 rnacounter/rnacounter.c:29908:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:54,099 29908 | tstate->exc_traceback = local_tb; 2025-09-08T01:16:54,099 | ^~ 2025-09-08T01:16:54,133 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-08T01:16:54,183 rnacounter/rnacounter.c:30012:22: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-08T01:16:54,183 30012 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2025-09-08T01:16:54,184 | ^~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:54,184 | PyDict_GET_SIZE 2025-09-08T01:16:54,297 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2025-09-08T01:16:54,332 rnacounter/rnacounter.c:30238:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:54,332 30238 | PyObject* tmp_tb = tstate->curexc_traceback; 2025-09-08T01:16:54,332 | ^~ 2025-09-08T01:16:54,368 rnacounter/rnacounter.c:30241:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:54,368 30241 | tstate->curexc_traceback = tb; 2025-09-08T01:16:54,368 | ^~ 2025-09-08T01:16:54,425 rnacounter/rnacounter.c: In function ‘__Pyx_PyIter_Next2’: 2025-09-08T01:16:54,460 rnacounter/rnacounter.c:30286:31: error: ‘_PyObject_NextNotImplemented’ undeclared (first use in this function); did you mean ‘PyObject_HashNotImplemented’? 2025-09-08T01:16:54,460 30286 | if (unlikely(iternext == &_PyObject_NextNotImplemented)) 2025-09-08T01:16:54,460 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:54,460 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:16:54,460 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:16:54,461 | ^ 2025-09-08T01:16:54,494 rnacounter/rnacounter.c: In function ‘__Pyx_IterFinish’: 2025-09-08T01:16:54,530 rnacounter/rnacounter.c:30450:32: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:54,530 30450 | PyObject* exc_type = tstate->curexc_type; 2025-09-08T01:16:54,530 | ^~ 2025-09-08T01:16:54,566 rnacounter/rnacounter.c:30454:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:54,566 30454 | exc_value = tstate->curexc_value; 2025-09-08T01:16:54,566 | ^~ 2025-09-08T01:16:54,602 rnacounter/rnacounter.c:30455:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:54,602 30455 | exc_tb = tstate->curexc_traceback; 2025-09-08T01:16:54,602 | ^~ 2025-09-08T01:16:54,637 rnacounter/rnacounter.c:30456:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:16:54,638 30456 | tstate->curexc_type = 0; 2025-09-08T01:16:54,638 | ^~ 2025-09-08T01:16:54,673 rnacounter/rnacounter.c:30457:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:16:54,673 30457 | tstate->curexc_value = 0; 2025-09-08T01:16:54,673 | ^~ 2025-09-08T01:16:54,709 rnacounter/rnacounter.c:30458:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:16:54,709 30458 | tstate->curexc_traceback = 0; 2025-09-08T01:16:54,709 | ^~ 2025-09-08T01:16:55,194 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2025-09-08T01:16:55,248 rnacounter/rnacounter.c:31802:16: error: implicit declaration of function ‘PyCFunction_Call’; did you mean ‘PyCFunction_New’? [-Wimplicit-function-declaration] 2025-09-08T01:16:55,249 31802 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:16:55,249 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,249 | PyCFunction_New 2025-09-08T01:16:55,290 rnacounter/rnacounter.c:31802:16: error: returning ‘int’ from a function with return type ‘PyObject *’ {aka ‘struct _object *’} makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:55,290 31802 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:16:55,290 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,309 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2025-09-08T01:16:55,361 rnacounter/rnacounter.c:31867:41: error: ‘PyCFunction_Call’ undeclared (first use in this function); did you mean ‘PyCFunction_New’? 2025-09-08T01:16:55,362 31867 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2025-09-08T01:16:55,362 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,362 | PyCFunction_New 2025-09-08T01:16:55,407 rnacounter/rnacounter.c: In function ‘__Pyx_CreateCodeObjectForTraceback’: 2025-09-08T01:16:55,444 rnacounter/rnacounter.c:32043:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:16:55,444 32043 | py_code = __Pyx_PyCode_New( 2025-09-08T01:16:55,444 | ^~~~~~~ 2025-09-08T01:16:55,444 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:55,444 213 | PyCode_New( 2025-09-08T01:16:55,444 | ^~~~~~~~~~ 2025-09-08T01:16:55,481 rnacounter/rnacounter.c:32057:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:16:55,481 32057 | py_line, 2025-09-08T01:16:55,481 | ^~~~~~~ 2025-09-08T01:16:55,482 | | 2025-09-08T01:16:55,482 | int 2025-09-08T01:16:55,482 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:55,482 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:55,482 | ^~~~~ 2025-09-08T01:16:55,482 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:16:55,482 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:55,482 | ~~~~~~~~~~^ 2025-09-08T01:16:55,523 rnacounter/rnacounter.c:32058:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:55,524 32058 | __pyx_empty_bytes /*PyObject *lnotab*/ 2025-09-08T01:16:55,524 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,524 | | 2025-09-08T01:16:55,524 | PyObject * {aka struct _object *} 2025-09-08T01:16:55,524 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:55,524 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:55,524 | ^~~~ 2025-09-08T01:16:55,524 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:16:55,525 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:16:55,525 | ~~~~^ 2025-09-08T01:16:55,566 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:16:55,566 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:16:55,566 | ^~~~~~~~~~ 2025-09-08T01:16:55,566 rnacounter/rnacounter.c:32043:15: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:16:55,566 32043 | py_code = __Pyx_PyCode_New( 2025-09-08T01:16:55,566 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,566 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:16:55,566 213 | PyCode_New( 2025-09-08T01:16:55,567 | ^~~~~~~~~~ 2025-09-08T01:16:55,584 rnacounter/rnacounter.c: In function ‘__Pyx_AddTraceback’: 2025-09-08T01:16:55,621 rnacounter/rnacounter.c:32086:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:16:55,621 32086 | py_frame->f_lineno = py_line; 2025-09-08T01:16:55,621 | ^~ 2025-09-08T01:16:55,623 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_int’: 2025-09-08T01:16:55,660 rnacounter/rnacounter.c:32207:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:16:55,660 32207 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:16:55,660 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,661 In file included from /usr/include/python3.13/longobject.h:107, 2025-09-08T01:16:55,661 from /usr/include/python3.13/Python.h:81: 2025-09-08T01:16:55,661 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:16:55,661 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:16:55,661 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,707 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_long’: 2025-09-08T01:16:55,745 rnacounter/rnacounter.c:32662:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:16:55,745 32662 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:16:55,745 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,745 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:16:55,745 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:16:55,745 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:16:55,755 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2025-09-08T01:16:55,809 rnacounter/rnacounter.c:32694:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:55,810 32694 | tmp_type = tstate->exc_type; 2025-09-08T01:16:55,810 | ^~~~~~~~ 2025-09-08T01:16:55,810 | exc_state 2025-09-08T01:16:55,848 rnacounter/rnacounter.c:32695:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:55,848 32695 | tmp_value = tstate->exc_value; 2025-09-08T01:16:55,848 | ^~ 2025-09-08T01:16:55,886 rnacounter/rnacounter.c:32696:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:55,887 32696 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:16:55,887 | ^~ 2025-09-08T01:16:55,942 rnacounter/rnacounter.c:32697:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:16:55,942 32697 | tstate->exc_type = *type; 2025-09-08T01:16:55,942 | ^~~~~~~~ 2025-09-08T01:16:55,942 | exc_state 2025-09-08T01:16:55,980 rnacounter/rnacounter.c:32698:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:16:55,980 32698 | tstate->exc_value = *value; 2025-09-08T01:16:55,980 | ^~ 2025-09-08T01:16:56,018 rnacounter/rnacounter.c:32699:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:16:56,019 32699 | tstate->exc_traceback = *tb; 2025-09-08T01:16:56,019 | ^~ 2025-09-08T01:16:56,021 In file included from /usr/include/python3.13/Python.h:63: 2025-09-08T01:16:56,021 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_SendEx’: 2025-09-08T01:16:56,100 rnacounter/rnacounter.c:32819:30: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:16:56,100 32819 | Py_XINCREF(tstate->frame); 2025-09-08T01:16:56,100 | ^~ 2025-09-08T01:16:56,101 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-08T01:16:56,101 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-08T01:16:56,101 | ^~~~ 2025-09-08T01:16:56,101 /usr/include/python3.13/object.h:1041:37: note: in expansion of macro ‘_PyObject_CAST’ 2025-09-08T01:16:56,101 1041 | # define Py_XINCREF(op) Py_XINCREF(_PyObject_CAST(op)) 2025-09-08T01:16:56,101 | ^~~~~~~~~~~~~~ 2025-09-08T01:16:56,101 rnacounter/rnacounter.c:32819:13: note: in expansion of macro ‘Py_XINCREF’ 2025-09-08T01:16:56,101 32819 | Py_XINCREF(tstate->frame); 2025-09-08T01:16:56,101 | ^~~~~~~~~~ 2025-09-08T01:16:56,138 rnacounter/rnacounter.c:32821:14: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:16:56,138 32821 | f->f_back = tstate->frame; 2025-09-08T01:16:56,139 | ^~ 2025-09-08T01:16:56,180 rnacounter/rnacounter.c:32821:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:16:56,180 32821 | f->f_back = tstate->frame; 2025-09-08T01:16:56,180 | ^~ 2025-09-08T01:16:56,258 rnacounter/rnacounter.c:32840:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:16:56,258 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,259 | ^~ 2025-09-08T01:16:56,259 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:16:56,259 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:16:56,259 | ^~~~ 2025-09-08T01:16:56,259 rnacounter/rnacounter.c:32840:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:16:56,259 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,259 | ^~~~~~~~ 2025-09-08T01:16:56,300 In file included from /usr/include/python3.13/Python.h:72: 2025-09-08T01:16:56,300 rnacounter/rnacounter.c:32840:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:16:56,301 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,301 | ^~ 2025-09-08T01:16:56,301 /usr/include/python3.13/object.h:1012:41: note: in definition of macro ‘Py_CLEAR’ 2025-09-08T01:16:56,301 1012 | _Py_TYPEOF(op)* _tmp_op_ptr = &(op); \ 2025-09-08T01:16:56,301 | ^~ 2025-09-08T01:16:56,383 rnacounter/rnacounter.c:32840:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:16:56,383 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,383 | ^~ 2025-09-08T01:16:56,383 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:16:56,383 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:16:56,384 | ^~~~ 2025-09-08T01:16:56,384 rnacounter/rnacounter.c:32840:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:16:56,384 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,384 | ^~~~~~~~ 2025-09-08T01:16:56,425 /usr/include/python3.13/object.h:1014:25: warning: comparison between pointer and integer 2025-09-08T01:16:56,425 1014 | if (_tmp_old_op != NULL) { \ 2025-09-08T01:16:56,425 | ^~ 2025-09-08T01:16:56,425 rnacounter/rnacounter.c:32840:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:16:56,425 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,426 | ^~~~~~~~ 2025-09-08T01:16:56,467 /usr/include/python3.13/object.h:1015:26: error: assignment to ‘int’ from ‘void *’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:16:56,467 1015 | *_tmp_op_ptr = _Py_NULL; \ 2025-09-08T01:16:56,467 | ^ 2025-09-08T01:16:56,467 rnacounter/rnacounter.c:32840:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:16:56,467 32840 | Py_CLEAR(f->f_back); 2025-09-08T01:16:56,467 | ^~~~~~~~ 2025-09-08T01:16:57,071 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-08T01:16:57,241 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T01:16:57,253 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T01:16:57,253 exec(compile('"'"''"'"''"'"' 2025-09-08T01:16:57,253 # This is -- a caller that pip uses to run setup.py 2025-09-08T01:16:57,253 # 2025-09-08T01:16:57,253 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T01:16:57,253 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T01:16:57,253 # - It provides a clear error message when setuptools is not installed. 2025-09-08T01:16:57,253 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T01:16:57,253 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T01:16:57,253 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T01:16:57,253 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T01:16:57,253 import os, sys, tokenize, traceback 2025-09-08T01:16:57,253 2025-09-08T01:16:57,253 try: 2025-09-08T01:16:57,253 import setuptools 2025-09-08T01:16:57,253 except ImportError: 2025-09-08T01:16:57,253 print( 2025-09-08T01:16:57,253 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T01:16:57,253 "the build environment with exception:", 2025-09-08T01:16:57,253 file=sys.stderr, 2025-09-08T01:16:57,253 ) 2025-09-08T01:16:57,253 traceback.print_exc() 2025-09-08T01:16:57,253 sys.exit(1) 2025-09-08T01:16:57,253 2025-09-08T01:16:57,253 __file__ = %r 2025-09-08T01:16:57,253 sys.argv[0] = __file__ 2025-09-08T01:16:57,253 2025-09-08T01:16:57,253 if os.path.exists(__file__): 2025-09-08T01:16:57,253 filename = __file__ 2025-09-08T01:16:57,253 with tokenize.open(__file__) as f: 2025-09-08T01:16:57,253 setup_py_code = f.read() 2025-09-08T01:16:57,253 else: 2025-09-08T01:16:57,253 filename = "" 2025-09-08T01:16:57,253 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T01:16:57,253 2025-09-08T01:16:57,253 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T01:16:57,253 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-vez9hf82/rnacounter_cd15de42c8834aada4cdc10ebaf4f8b9/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-v4zh7mg7[/] 2025-09-08T01:16:57,253 [bold magenta]cwd[/]: /tmp/pip-wheel-vez9hf82/rnacounter_cd15de42c8834aada4cdc10ebaf4f8b9/ 2025-09-08T01:16:57,253 Building wheel for rnacounter (setup.py): finished with status 'error' 2025-09-08T01:16:57,254 ERROR: Failed building wheel for rnacounter 2025-09-08T01:16:57,255 Running setup.py clean for rnacounter 2025-09-08T01:16:57,256 Running command python setup.py clean 2025-09-08T01:16:58,144 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:16:58,144 warnings.warn(msg) 2025-09-08T01:16:58,607 running clean 2025-09-08T01:16:58,753 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:16:58,753 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:16:58,754 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T01:16:58,754 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T01:16:58,754 removing 'build' 2025-09-08T01:16:58,890 Failed to build rnacounter 2025-09-08T01:16:58,890 ERROR: Failed to build one or more wheels 2025-09-08T01:16:58,891 Exception information: 2025-09-08T01:16:58,891 Traceback (most recent call last): 2025-09-08T01:16:58,891 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T01:16:58,891 status = _inner_run() 2025-09-08T01:16:58,891 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T01:16:58,891 return self.run(options, args) 2025-09-08T01:16:58,891 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T01:16:58,891 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T01:16:58,891 return func(self, options, args) 2025-09-08T01:16:58,891 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T01:16:58,891 raise CommandError("Failed to build one or more wheels") 2025-09-08T01:16:58,891 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T01:16:58,895 Removed build tracker: '/tmp/pip-build-tracker-ub78d_bb'