2025-09-08T00:49:16,691 Created temporary directory: /tmp/pip-build-tracker-qnywjznx 2025-09-08T00:49:16,691 Initialized build tracking at /tmp/pip-build-tracker-qnywjznx 2025-09-08T00:49:16,692 Created build tracker: /tmp/pip-build-tracker-qnywjznx 2025-09-08T00:49:16,692 Entered build tracker: /tmp/pip-build-tracker-qnywjznx 2025-09-08T00:49:16,692 Created temporary directory: /tmp/pip-wheel-6uclblb0 2025-09-08T00:49:16,695 Created temporary directory: /tmp/pip-ephem-wheel-cache-vhr4_ug2 2025-09-08T00:49:16,753 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T00:49:16,756 2 location(s) to search for versions of rnacounter: 2025-09-08T00:49:16,756 * https://pypi.org/simple/rnacounter/ 2025-09-08T00:49:16,756 * https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:49:16,756 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2025-09-08T00:49:16,756 Getting page https://pypi.org/simple/rnacounter/ 2025-09-08T00:49:16,757 Found index url https://pypi.org/simple/ 2025-09-08T00:49:16,826 Fetched page https://pypi.org/simple/rnacounter/ as application/vnd.pypi.simple.v1+json 2025-09-08T00:49:16,828 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 2025-09-08T00:49:16,828 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 2025-09-08T00:49:16,828 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 2025-09-08T00:49:16,829 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 2025-09-08T00:49:16,829 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 2025-09-08T00:49:16,829 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2 2025-09-08T00:49:16,829 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 2025-09-08T00:49:16,830 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3 2025-09-08T00:49:16,830 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 2025-09-08T00:49:16,830 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4 2025-09-08T00:49:16,830 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 2025-09-08T00:49:16,830 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 2025-09-08T00:49:16,831 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5 2025-09-08T00:49:16,831 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 2025-09-08T00:49:16,831 Fetching project page and analyzing links: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:49:16,831 Getting page https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:49:16,832 Found index url https://www.piwheels.org/simple/ 2025-09-08T00:49:16,928 Fetched page https://www.piwheels.org/simple/rnacounter/ as text/html 2025-09-08T00:49:16,939 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/) 2025-09-08T00:49:16,939 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/) 2025-09-08T00:49:16,939 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/) 2025-09-08T00:49:16,939 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,940 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,941 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,942 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,943 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,944 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/) 2025-09-08T00:49:16,945 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/) 2025-09-08T00:49:16,945 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/) 2025-09-08T00:49:16,945 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/) 2025-09-08T00:49:16,945 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/) 2025-09-08T00:49:16,945 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,946 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/) 2025-09-08T00:49:16,947 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/) 2025-09-08T00:49:16,947 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/) 2025-09-08T00:49:16,947 Skipping link: not a file: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:49:16,947 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2025-09-08T00:49:16,973 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2025-09-08T00:49:16,974 Collecting rnacounter==1.2.1 2025-09-08T00:49:16,975 Created temporary directory: /tmp/pip-unpack-zjcn_1w_ 2025-09-08T00:49:17,196 Downloading rnacounter-1.2.1.tar.gz (174 kB) 2025-09-08T00:49:17,271 Added rnacounter==1.2.1 from https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz to build tracker '/tmp/pip-build-tracker-qnywjznx' 2025-09-08T00:49:17,272 Running setup.py (path:/tmp/pip-wheel-6uclblb0/rnacounter_4612e10f882544c991af4e67621bcc82/setup.py) egg_info for package rnacounter 2025-09-08T00:49:17,273 Created temporary directory: /tmp/pip-pip-egg-info-gvlxv597 2025-09-08T00:49:17,273 Preparing metadata (setup.py): started 2025-09-08T00:49:17,274 Running command python setup.py egg_info 2025-09-08T00:49:18,180 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:49:18,180 warnings.warn(msg) 2025-09-08T00:49:18,642 running egg_info 2025-09-08T00:49:18,716 creating /tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info 2025-09-08T00:49:18,716 writing /tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/PKG-INFO 2025-09-08T00:49:18,717 writing dependency_links to /tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/dependency_links.txt 2025-09-08T00:49:18,718 writing requirements to /tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/requires.txt 2025-09-08T00:49:18,718 writing top-level names to /tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/top_level.txt 2025-09-08T00:49:18,718 writing manifest file '/tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:49:19,091 reading manifest file '/tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:49:19,092 reading manifest template 'MANIFEST.in' 2025-09-08T00:49:19,093 warning: no files found matching 'rnacounter/testfiles/*' 2025-09-08T00:49:19,096 writing manifest file '/tmp/pip-pip-egg-info-gvlxv597/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:49:19,232 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T00:49:19,237 Source in /tmp/pip-wheel-6uclblb0/rnacounter_4612e10f882544c991af4e67621bcc82 has version 1.2.1, which satisfies requirement rnacounter==1.2.1 from https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz 2025-09-08T00:49:19,237 Removed rnacounter==1.2.1 from https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz from build tracker '/tmp/pip-build-tracker-qnywjznx' 2025-09-08T00:49:19,242 Created temporary directory: /tmp/pip-unpack-_udfnjmv 2025-09-08T00:49:19,242 Created temporary directory: /tmp/pip-unpack-7gbbgpqe 2025-09-08T00:49:19,242 Building wheels for collected packages: rnacounter 2025-09-08T00:49:19,243 Created temporary directory: /tmp/pip-wheel-xfwr0ocl 2025-09-08T00:49:19,244 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 2025-09-08T00:49:19,245 Building wheel for rnacounter (setup.py): started 2025-09-08T00:49:19,246 Destination directory: /tmp/pip-wheel-xfwr0ocl 2025-09-08T00:49:19,246 Running command python setup.py bdist_wheel 2025-09-08T00:49:20,146 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:49:20,146 warnings.warn(msg) 2025-09-08T00:49:20,537 running bdist_wheel 2025-09-08T00:49:20,906 running build 2025-09-08T00:49:20,906 running build_py 2025-09-08T00:49:20,984 creating build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:20,985 copying rnacounter/setup.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:20,985 copying rnacounter/main.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:20,986 copying rnacounter/__init__.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:20,986 running egg_info 2025-09-08T00:49:21,063 writing rnacounter.egg-info/PKG-INFO 2025-09-08T00:49:21,064 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2025-09-08T00:49:21,065 writing requirements to rnacounter.egg-info/requires.txt 2025-09-08T00:49:21,065 writing top-level names to rnacounter.egg-info/top_level.txt 2025-09-08T00:49:21,139 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:49:21,141 reading manifest template 'MANIFEST.in' 2025-09-08T00:49:21,142 warning: no files found matching 'rnacounter/testfiles/*' 2025-09-08T00:49:21,145 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:49:21,146 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:21,153 running build_ext 2025-09-08T00:49:21,474 building 'rnacounter/rnacounter' extension 2025-09-08T00:49:21,475 creating build/temp.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:49:21,475 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 2025-09-08T00:49:21,898 rnacounter/rnacounter.c: In function ‘__Pyx_ListComp_Append’: 2025-09-08T00:49:21,898 rnacounter/rnacounter.c:1355:23: error: lvalue required as left operand of assignment 2025-09-08T00:49:21,898 1355 | Py_SIZE(list) = len+1; 2025-09-08T00:49:21,899 | ^ 2025-09-08T00:49:21,899 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Append’: 2025-09-08T00:49:21,900 rnacounter/rnacounter.c:1422:23: error: lvalue required as left operand of assignment 2025-09-08T00:49:21,900 1422 | Py_SIZE(list) = len+1; 2025-09-08T00:49:21,900 | ^ 2025-09-08T00:49:21,908 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Extend’: 2025-09-08T00:49:21,909 rnacounter/rnacounter.c:1479:22: error: implicit declaration of function ‘_PyList_Extend’; did you mean ‘PyList_Extend’? [-Wimplicit-function-declaration] 2025-09-08T00:49:21,909 1479 | PyObject* none = _PyList_Extend((PyListObject*)L, v); 2025-09-08T00:49:21,909 | ^~~~~~~~~~~~~~ 2025-09-08T00:49:21,909 | PyList_Extend 2025-09-08T00:49:21,909 rnacounter/rnacounter.c:1479:22: error: initialization of ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:21,968 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_2parse_bed’: 2025-09-08T00:49:21,972 rnacounter/rnacounter.c:4158:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:21,972 4158 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:21,972 | ^~ 2025-09-08T00:49:21,972 In file included from /usr/include/python3.13/Python.h:76, 2025-09-08T00:49:21,972 from rnacounter/rnacounter.c:16: 2025-09-08T00:49:21,973 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:21,973 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:21,973 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:22,018 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_4join’: 2025-09-08T00:49:22,023 rnacounter/rnacounter.c:5393:9: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:22,023 5393 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:22,024 | ^~ 2025-09-08T00:49:22,024 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:22,024 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:22,024 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:22,059 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_13GenomicObject_2__and__’: 2025-09-08T00:49:22,065 rnacounter/rnacounter.c:6553:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:22,066 6553 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:22,066 | ^~ 2025-09-08T00:49:22,066 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:22,066 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:22,066 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:22,955 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_14parse_args’: 2025-09-08T00:49:22,980 rnacounter/rnacounter.c:22025:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:22,980 22025 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:22,980 | ^~ 2025-09-08T00:49:22,980 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:22,980 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:22,980 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,007 rnacounter/rnacounter.c:22079:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,008 22079 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,008 | ^~ 2025-09-08T00:49:23,008 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,008 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,008 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,035 rnacounter/rnacounter.c:22174:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,036 22174 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,036 | ^~ 2025-09-08T00:49:23,036 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,036 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,036 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,062 rnacounter/rnacounter.c:22223:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,062 22223 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,062 | ^~ 2025-09-08T00:49:23,062 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,062 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,062 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,103 rnacounter/rnacounter.c:22359:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,103 22359 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,103 | ^~ 2025-09-08T00:49:23,103 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,104 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,104 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,158 rnacounter/rnacounter.c:22561:5: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,158 22561 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,158 | ^~ 2025-09-08T00:49:23,158 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,158 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,159 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,185 rnacounter/rnacounter.c:22626:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,186 22626 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:49:23,186 | ^~ 2025-09-08T00:49:23,186 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:49:23,186 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:49:23,186 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,230 rnacounter/rnacounter.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-08T00:49:23,268 rnacounter/rnacounter.c:23181:50: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-08T00:49:23,268 23181 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); 2025-09-08T00:49:23,268 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,268 | PyBUF_C_CONTIGUOUS 2025-09-08T00:49:23,271 rnacounter/rnacounter.c:23181:50: note: each undeclared identifier is reported only once for each function it appears in 2025-09-08T00:49:23,330 rnacounter/rnacounter.c:23221:50: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-08T00:49:23,330 23221 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); 2025-09-08T00:49:23,330 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,330 | PyBUF_F_CONTIGUOUS 2025-09-08T00:49:23,337 rnacounter/rnacounter.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-08T00:49:23,364 rnacounter/rnacounter.c:24227:29: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T00:49:23,365 24227 | if (unlikely(__pyx_v_descr->names == Py_None)) { 2025-09-08T00:49:23,365 | ^~ 2025-09-08T00:49:23,365 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:49:23,365 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:49:23,365 | ^ 2025-09-08T00:49:23,396 rnacounter/rnacounter.c:24231:28: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T00:49:23,396 24231 | __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0; 2025-09-08T00:49:23,396 | ^~ 2025-09-08T00:49:23,430 rnacounter/rnacounter.c:24249:47: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-08T00:49:23,430 24249 | __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;}; 2025-09-08T00:49:23,430 | ^~ 2025-09-08T00:49:23,479 rnacounter/rnacounter.c:24430:79: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-08T00:49:23,479 24430 | (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize); 2025-09-08T00:49:23,479 | ^~ 2025-09-08T00:49:23,527 rnacounter/rnacounter.c: In function ‘__pyx_tp_dealloc_10rnacounter_10rnacounter_Counter’: 2025-09-08T00:49:23,555 rnacounter/rnacounter.c:25051:75: error: implicit declaration of function ‘_PyGC_FINALIZED’ [-Wimplicit-function-declaration] 2025-09-08T00:49:23,555 25051 | if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { 2025-09-08T00:49:23,555 | ^~~~~~~~~~~~~~~ 2025-09-08T00:49:23,664 rnacounter/rnacounter.c: In function ‘__Pyx_InitCachedConstants’: 2025-09-08T00:49:23,697 rnacounter/rnacounter.c:28819:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,697 28819 | __pyx_codeobj__62 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__61, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 66, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__62)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,697 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,697 In file included from /usr/include/python3.13/Python.h:101: 2025-09-08T00:49:23,697 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:23,697 213 | PyCode_New( 2025-09-08T00:49:23,697 | ^~~~~~~~~~ 2025-09-08T00:49:23,733 rnacounter/rnacounter.c:28819:243: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:23,733 28819 | __pyx_codeobj__62 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__61, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 66, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__62)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,733 | ^~ 2025-09-08T00:49:23,733 | | 2025-09-08T00:49:23,733 | int 2025-09-08T00:49:23,734 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,734 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,734 | ^~~~~ 2025-09-08T00:49:23,734 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:23,734 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:23,734 | ~~~~~~~~~~^ 2025-09-08T00:49:23,769 rnacounter/rnacounter.c:28819:247: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:23,769 28819 | __pyx_codeobj__62 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__61, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 66, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__62)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,769 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,769 | | 2025-09-08T00:49:23,770 | PyObject * {aka struct _object *} 2025-09-08T00:49:23,770 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,770 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,770 | ^~~~ 2025-09-08T00:49:23,770 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:23,770 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:23,770 | ~~~~^ 2025-09-08T00:49:23,805 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:23,805 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,805 | ^~~~~~~~~~ 2025-09-08T00:49:23,805 rnacounter/rnacounter.c:28819:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,806 28819 | __pyx_codeobj__62 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__61, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 66, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__62)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,806 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,806 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:23,806 213 | PyCode_New( 2025-09-08T00:49:23,806 | ^~~~~~~~~~ 2025-09-08T00:49:23,838 rnacounter/rnacounter.c:28831:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,838 28831 | __pyx_codeobj__64 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__63, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 86, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__64)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 86; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,838 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,838 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:23,838 213 | PyCode_New( 2025-09-08T00:49:23,838 | ^~~~~~~~~~ 2025-09-08T00:49:23,874 rnacounter/rnacounter.c:28831:244: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:23,874 28831 | __pyx_codeobj__64 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__63, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 86, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__64)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 86; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,874 | ^~ 2025-09-08T00:49:23,874 | | 2025-09-08T00:49:23,874 | int 2025-09-08T00:49:23,874 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,874 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,874 | ^~~~~ 2025-09-08T00:49:23,875 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:23,875 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:23,875 | ~~~~~~~~~~^ 2025-09-08T00:49:23,910 rnacounter/rnacounter.c:28831:248: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:23,910 28831 | __pyx_codeobj__64 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__63, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 86, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__64)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 86; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,910 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,910 | | 2025-09-08T00:49:23,910 | PyObject * {aka struct _object *} 2025-09-08T00:49:23,910 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,910 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,910 | ^~~~ 2025-09-08T00:49:23,911 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:23,911 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:23,911 | ~~~~^ 2025-09-08T00:49:23,946 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:23,946 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:23,946 | ^~~~~~~~~~ 2025-09-08T00:49:23,946 rnacounter/rnacounter.c:28831:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:23,946 28831 | __pyx_codeobj__64 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__63, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 86, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__64)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 86; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,946 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,946 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:23,947 213 | PyCode_New( 2025-09-08T00:49:23,947 | ^~~~~~~~~~ 2025-09-08T00:49:23,978 rnacounter/rnacounter.c:28843:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:23,979 28843 | __pyx_codeobj__66 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__65, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 112, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__66)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:23,979 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:23,979 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:23,979 213 | PyCode_New( 2025-09-08T00:49:23,979 | ^~~~~~~~~~ 2025-09-08T00:49:24,014 rnacounter/rnacounter.c:28843:239: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,015 28843 | __pyx_codeobj__66 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__65, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 112, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__66)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,015 | ^~~ 2025-09-08T00:49:24,015 | | 2025-09-08T00:49:24,015 | int 2025-09-08T00:49:24,015 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,015 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,015 | ^~~~~ 2025-09-08T00:49:24,015 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,015 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,016 | ~~~~~~~~~~^ 2025-09-08T00:49:24,051 rnacounter/rnacounter.c:28843:244: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,051 28843 | __pyx_codeobj__66 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__65, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 112, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__66)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,051 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,051 | | 2025-09-08T00:49:24,051 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,051 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,051 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,051 | ^~~~ 2025-09-08T00:49:24,051 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,051 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,052 | ~~~~^ 2025-09-08T00:49:24,087 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,087 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,087 | ^~~~~~~~~~ 2025-09-08T00:49:24,087 rnacounter/rnacounter.c:28843:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,087 28843 | __pyx_codeobj__66 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__65, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_join, 112, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__66)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,087 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,087 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,087 213 | PyCode_New( 2025-09-08T00:49:24,087 | ^~~~~~~~~~ 2025-09-08T00:49:24,120 rnacounter/rnacounter.c:28855:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:24,120 28855 | __pyx_codeobj__68 = (PyObject*)__Pyx_PyCode_New(4, 0, 54, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__67, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 591, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__68)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 591; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,120 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,120 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,121 213 | PyCode_New( 2025-09-08T00:49:24,121 | ^~~~~~~~~~ 2025-09-08T00:49:24,157 rnacounter/rnacounter.c:28855:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,157 28855 | __pyx_codeobj__68 = (PyObject*)__Pyx_PyCode_New(4, 0, 54, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__67, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 591, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__68)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 591; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,157 | ^~~ 2025-09-08T00:49:24,157 | | 2025-09-08T00:49:24,157 | int 2025-09-08T00:49:24,158 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,158 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,158 | ^~~~~ 2025-09-08T00:49:24,158 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,158 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,158 | ~~~~~~~~~~^ 2025-09-08T00:49:24,194 rnacounter/rnacounter.c:28855:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,195 28855 | __pyx_codeobj__68 = (PyObject*)__Pyx_PyCode_New(4, 0, 54, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__67, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 591, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__68)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 591; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,195 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,195 | | 2025-09-08T00:49:24,195 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,195 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,195 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,195 | ^~~~ 2025-09-08T00:49:24,195 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,195 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,195 | ~~~~^ 2025-09-08T00:49:24,230 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,231 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,231 | ^~~~~~~~~~ 2025-09-08T00:49:24,231 rnacounter/rnacounter.c:28855:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,231 28855 | __pyx_codeobj__68 = (PyObject*)__Pyx_PyCode_New(4, 0, 54, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__67, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 591, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__68)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 591; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,231 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,231 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,231 213 | PyCode_New( 2025-09-08T00:49:24,231 | ^~~~~~~~~~ 2025-09-08T00:49:24,263 rnacounter/rnacounter.c:28867:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:24,263 28867 | __pyx_codeobj__70 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__69, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__70)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,263 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,263 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,264 213 | PyCode_New( 2025-09-08T00:49:24,264 | ^~~~~~~~~~ 2025-09-08T00:49:24,299 rnacounter/rnacounter.c:28867:247: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,299 28867 | __pyx_codeobj__70 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__69, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__70)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,299 | ^~~ 2025-09-08T00:49:24,300 | | 2025-09-08T00:49:24,300 | int 2025-09-08T00:49:24,300 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,300 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,300 | ^~~~~ 2025-09-08T00:49:24,300 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,300 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,300 | ~~~~~~~~~~^ 2025-09-08T00:49:24,335 rnacounter/rnacounter.c:28867:252: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,336 28867 | __pyx_codeobj__70 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__69, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__70)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,336 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,336 | | 2025-09-08T00:49:24,336 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,336 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,336 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,336 | ^~~~ 2025-09-08T00:49:24,336 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,336 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,336 | ~~~~^ 2025-09-08T00:49:24,371 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,372 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,372 | ^~~~~~~~~~ 2025-09-08T00:49:24,372 rnacounter/rnacounter.c:28867:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,372 28867 | __pyx_codeobj__70 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__69, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__70)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,372 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,372 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,372 213 | PyCode_New( 2025-09-08T00:49:24,372 | ^~~~~~~~~~ 2025-09-08T00:49:24,404 rnacounter/rnacounter.c:28879:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:24,404 28879 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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_rnacounter_main, 739, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,404 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,405 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,405 213 | PyCode_New( 2025-09-08T00:49:24,405 | ^~~~~~~~~~ 2025-09-08T00:49:24,440 rnacounter/rnacounter.c:28879:250: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,440 28879 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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_rnacounter_main, 739, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,441 | ^~~ 2025-09-08T00:49:24,441 | | 2025-09-08T00:49:24,441 | int 2025-09-08T00:49:24,441 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,441 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,441 | ^~~~~ 2025-09-08T00:49:24,441 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,441 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,441 | ~~~~~~~~~~^ 2025-09-08T00:49:24,476 rnacounter/rnacounter.c:28879:255: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,477 28879 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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_rnacounter_main, 739, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,477 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,477 | | 2025-09-08T00:49:24,477 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,477 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,477 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,477 | ^~~~ 2025-09-08T00:49:24,477 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,477 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,478 | ~~~~^ 2025-09-08T00:49:24,513 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,513 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,513 | ^~~~~~~~~~ 2025-09-08T00:49:24,513 rnacounter/rnacounter.c:28879:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,513 28879 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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_rnacounter_main, 739, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,513 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,513 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,513 213 | PyCode_New( 2025-09-08T00:49:24,513 | ^~~~~~~~~~ 2025-09-08T00:49:24,545 rnacounter/rnacounter.c:28888:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:24,545 28888 | __pyx_codeobj__74 = (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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__74)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,545 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,546 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,546 213 | PyCode_New( 2025-09-08T00:49:24,546 | ^~~~~~~~~~ 2025-09-08T00:49:24,581 rnacounter/rnacounter.c:28888:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,581 28888 | __pyx_codeobj__74 = (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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__74)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,582 | ^~~ 2025-09-08T00:49:24,582 | | 2025-09-08T00:49:24,582 | int 2025-09-08T00:49:24,582 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,582 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,582 | ^~~~~ 2025-09-08T00:49:24,582 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,582 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,582 | ~~~~~~~~~~^ 2025-09-08T00:49:24,617 rnacounter/rnacounter.c:28888:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,618 28888 | __pyx_codeobj__74 = (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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__74)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,618 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,618 | | 2025-09-08T00:49:24,618 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,618 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,618 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,618 | ^~~~ 2025-09-08T00:49:24,618 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,618 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,618 | ~~~~^ 2025-09-08T00:49:24,654 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,654 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,654 | ^~~~~~~~~~ 2025-09-08T00:49:24,654 rnacounter/rnacounter.c:28888:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,654 28888 | __pyx_codeobj__74 = (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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__74)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,654 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,654 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,654 213 | PyCode_New( 2025-09-08T00:49:24,654 | ^~~~~~~~~~ 2025-09-08T00:49:24,686 rnacounter/rnacounter.c:28900:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:24,687 28900 | __pyx_codeobj__76 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__75, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__76)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,687 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,687 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,687 213 | PyCode_New( 2025-09-08T00:49:24,687 | ^~~~~~~~~~ 2025-09-08T00:49:24,723 rnacounter/rnacounter.c:28900:245: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:24,723 28900 | __pyx_codeobj__76 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__75, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__76)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,723 | ^~~ 2025-09-08T00:49:24,723 | | 2025-09-08T00:49:24,723 | int 2025-09-08T00:49:24,723 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,723 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,723 | ^~~~~ 2025-09-08T00:49:24,723 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:24,723 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,724 | ~~~~~~~~~~^ 2025-09-08T00:49:24,759 rnacounter/rnacounter.c:28900:250: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:24,759 28900 | __pyx_codeobj__76 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__75, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__76)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,759 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,759 | | 2025-09-08T00:49:24,759 | PyObject * {aka struct _object *} 2025-09-08T00:49:24,759 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,759 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,760 | ^~~~ 2025-09-08T00:49:24,760 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:24,760 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:24,760 | ~~~~^ 2025-09-08T00:49:24,795 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:24,795 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:24,795 | ^~~~~~~~~~ 2025-09-08T00:49:24,795 rnacounter/rnacounter.c:28900:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:24,795 28900 | __pyx_codeobj__76 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__75, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__76)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T00:49:24,795 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:24,796 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:24,796 213 | PyCode_New( 2025-09-08T00:49:24,796 | ^~~~~~~~~~ 2025-09-08T00:49:24,798 rnacounter/rnacounter.c: In function ‘PyInit_rnacounter’: 2025-09-08T00:49:24,831 rnacounter/rnacounter.c:29003:47: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,831 29003 | __pyx_type_10rnacounter_10rnacounter_Counter.tp_print = 0; 2025-09-08T00:49:24,831 | ^ 2025-09-08T00:49:24,864 rnacounter/rnacounter.c:29007:53: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,864 29007 | __pyx_type_10rnacounter_10rnacounter_GenomicObject.tp_print = 0; 2025-09-08T00:49:24,864 | ^ 2025-09-08T00:49:24,897 rnacounter/rnacounter.c:29024:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,897 29024 | __pyx_type_10rnacounter_10rnacounter_Exon.tp_print = 0; 2025-09-08T00:49:24,897 | ^ 2025-09-08T00:49:24,930 rnacounter/rnacounter.c:29030:50: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,930 29030 | __pyx_type_10rnacounter_10rnacounter_Transcript.tp_print = 0; 2025-09-08T00:49:24,930 | ^ 2025-09-08T00:49:24,963 rnacounter/rnacounter.c:29035:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,963 29035 | __pyx_type_10rnacounter_10rnacounter_Gene.tp_print = 0; 2025-09-08T00:49:24,963 | ^ 2025-09-08T00:49:24,996 rnacounter/rnacounter.c:29039:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:24,996 29039 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct__parse_gtf.tp_print = 0; 2025-09-08T00:49:24,996 | ^ 2025-09-08T00:49:25,029 rnacounter/rnacounter.c:29042:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,029 29042 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_1_genexpr.tp_print = 0; 2025-09-08T00:49:25,029 | ^ 2025-09-08T00:49:25,061 rnacounter/rnacounter.c:29045:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,062 29045 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_2_genexpr.tp_print = 0; 2025-09-08T00:49:25,062 | ^ 2025-09-08T00:49:25,094 rnacounter/rnacounter.c:29048:65: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,094 29048 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_3_join.tp_print = 0; 2025-09-08T00:49:25,094 | ^ 2025-09-08T00:49:25,127 rnacounter/rnacounter.c:29051:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,127 29051 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_4_genexpr.tp_print = 0; 2025-09-08T00:49:25,127 | ^ 2025-09-08T00:49:25,160 rnacounter/rnacounter.c:29054:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,160 29054 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_5_genexpr.tp_print = 0; 2025-09-08T00:49:25,160 | ^ 2025-09-08T00:49:25,192 rnacounter/rnacounter.c:29057:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,193 29057 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_6_genexpr.tp_print = 0; 2025-09-08T00:49:25,193 | ^ 2025-09-08T00:49:25,225 rnacounter/rnacounter.c:29060:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,225 29060 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_7_process_chunk.tp_print = 0; 2025-09-08T00:49:25,226 | ^ 2025-09-08T00:49:25,258 rnacounter/rnacounter.c:29063:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,258 29063 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_8_genexpr.tp_print = 0; 2025-09-08T00:49:25,258 | ^ 2025-09-08T00:49:25,291 rnacounter/rnacounter.c:29066:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,291 29066 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_9_genexpr.tp_print = 0; 2025-09-08T00:49:25,291 | ^ 2025-09-08T00:49:25,324 rnacounter/rnacounter.c:29069:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,325 29069 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_10_genexpr.tp_print = 0; 2025-09-08T00:49:25,325 | ^ 2025-09-08T00:49:25,358 rnacounter/rnacounter.c:29072:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,358 29072 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_11_genexpr.tp_print = 0; 2025-09-08T00:49:25,358 | ^ 2025-09-08T00:49:25,392 rnacounter/rnacounter.c:29075:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,392 29075 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_12_print_output.tp_print = 0; 2025-09-08T00:49:25,392 | ^ 2025-09-08T00:49:25,425 rnacounter/rnacounter.c:29078:72: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,425 29078 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_13_parse_args.tp_print = 0; 2025-09-08T00:49:25,425 | ^ 2025-09-08T00:49:25,458 rnacounter/rnacounter.c:29081:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,458 29081 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_14_genexpr.tp_print = 0; 2025-09-08T00:49:25,458 | ^ 2025-09-08T00:49:25,491 rnacounter/rnacounter.c:29084:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,491 29084 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_15_genexpr.tp_print = 0; 2025-09-08T00:49:25,491 | ^ 2025-09-08T00:49:25,524 rnacounter/rnacounter.c:29087:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:49:25,524 29087 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_16_genexpr.tp_print = 0; 2025-09-08T00:49:25,524 | ^ 2025-09-08T00:49:25,577 rnacounter/rnacounter.c: In function ‘__Pyx_PyUnicode_Equals’: 2025-09-08T00:49:25,615 rnacounter/rnacounter.c:84:51: error: implicit declaration of function ‘_PyUnicode_Ready’; did you mean ‘PyUnicode_READY’? [-Wimplicit-function-declaration] 2025-09-08T00:49:25,615 84 | 0 : _PyUnicode_Ready((PyObject *)(op))) 2025-09-08T00:49:25,615 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:25,616 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:49:25,616 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:49:25,616 | ^ 2025-09-08T00:49:25,616 rnacounter/rnacounter.c:29599:22: note: in expansion of macro ‘__Pyx_PyUnicode_READY’ 2025-09-08T00:49:25,616 29599 | if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) 2025-09-08T00:49:25,616 | ^~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:25,664 rnacounter/rnacounter.c: In function ‘__Pyx_ErrRestore’: 2025-09-08T00:49:25,697 rnacounter/rnacounter.c:29691:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:25,698 29691 | tmp_type = tstate->curexc_type; 2025-09-08T00:49:25,698 | ^~ 2025-09-08T00:49:25,731 rnacounter/rnacounter.c:29692:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:25,732 29692 | tmp_value = tstate->curexc_value; 2025-09-08T00:49:25,732 | ^~ 2025-09-08T00:49:25,765 rnacounter/rnacounter.c:29693:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:25,766 29693 | tmp_tb = tstate->curexc_traceback; 2025-09-08T00:49:25,766 | ^~ 2025-09-08T00:49:25,799 rnacounter/rnacounter.c:29694:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:25,800 29694 | tstate->curexc_type = type; 2025-09-08T00:49:25,800 | ^~ 2025-09-08T00:49:25,833 rnacounter/rnacounter.c:29695:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:25,834 29695 | tstate->curexc_value = value; 2025-09-08T00:49:25,834 | ^~ 2025-09-08T00:49:25,867 rnacounter/rnacounter.c:29696:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:25,868 29696 | tstate->curexc_traceback = tb; 2025-09-08T00:49:25,868 | ^~ 2025-09-08T00:49:25,868 rnacounter/rnacounter.c: In function ‘__Pyx_ErrFetch’: 2025-09-08T00:49:25,902 rnacounter/rnacounter.c:29707:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:25,902 29707 | *type = tstate->curexc_type; 2025-09-08T00:49:25,902 | ^~ 2025-09-08T00:49:25,936 rnacounter/rnacounter.c:29708:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:25,936 29708 | *value = tstate->curexc_value; 2025-09-08T00:49:25,936 | ^~ 2025-09-08T00:49:25,970 rnacounter/rnacounter.c:29709:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:25,970 29709 | *tb = tstate->curexc_traceback; 2025-09-08T00:49:25,970 | ^~ 2025-09-08T00:49:26,004 rnacounter/rnacounter.c:29710:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:26,004 29710 | tstate->curexc_type = 0; 2025-09-08T00:49:26,004 | ^~ 2025-09-08T00:49:26,038 rnacounter/rnacounter.c:29711:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:26,038 29711 | tstate->curexc_value = 0; 2025-09-08T00:49:26,038 | ^~ 2025-09-08T00:49:26,072 rnacounter/rnacounter.c:29712:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:26,072 29712 | tstate->curexc_traceback = 0; 2025-09-08T00:49:26,072 | ^~ 2025-09-08T00:49:26,138 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2025-09-08T00:49:26,187 rnacounter/rnacounter.c:29909:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:26,187 29909 | *type = tstate->exc_type; 2025-09-08T00:49:26,188 | ^~~~~~~~ 2025-09-08T00:49:26,188 | exc_state 2025-09-08T00:49:26,221 rnacounter/rnacounter.c:29910:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:26,221 29910 | *value = tstate->exc_value; 2025-09-08T00:49:26,221 | ^~ 2025-09-08T00:49:26,255 rnacounter/rnacounter.c:29911:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:26,255 29911 | *tb = tstate->exc_traceback; 2025-09-08T00:49:26,255 | ^~ 2025-09-08T00:49:26,255 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2025-09-08T00:49:26,304 rnacounter/rnacounter.c:29923:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:26,304 29923 | tmp_type = tstate->exc_type; 2025-09-08T00:49:26,304 | ^~~~~~~~ 2025-09-08T00:49:26,304 | exc_state 2025-09-08T00:49:26,337 rnacounter/rnacounter.c:29924:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:26,337 29924 | tmp_value = tstate->exc_value; 2025-09-08T00:49:26,337 | ^~ 2025-09-08T00:49:26,371 rnacounter/rnacounter.c:29925:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:26,371 29925 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:49:26,371 | ^~ 2025-09-08T00:49:26,419 rnacounter/rnacounter.c:29926:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:26,420 29926 | tstate->exc_type = type; 2025-09-08T00:49:26,420 | ^~~~~~~~ 2025-09-08T00:49:26,420 | exc_state 2025-09-08T00:49:26,453 rnacounter/rnacounter.c:29927:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:26,453 29927 | tstate->exc_value = value; 2025-09-08T00:49:26,453 | ^~ 2025-09-08T00:49:26,487 rnacounter/rnacounter.c:29928:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:26,487 29928 | tstate->exc_traceback = tb; 2025-09-08T00:49:26,487 | ^~ 2025-09-08T00:49:26,487 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2025-09-08T00:49:26,521 rnacounter/rnacounter.c:29942:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:26,522 29942 | local_type = tstate->curexc_type; 2025-09-08T00:49:26,522 | ^~ 2025-09-08T00:49:26,556 rnacounter/rnacounter.c:29943:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:26,556 29943 | local_value = tstate->curexc_value; 2025-09-08T00:49:26,556 | ^~ 2025-09-08T00:49:26,591 rnacounter/rnacounter.c:29944:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:26,591 29944 | local_tb = tstate->curexc_traceback; 2025-09-08T00:49:26,591 | ^~ 2025-09-08T00:49:26,625 rnacounter/rnacounter.c:29945:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:26,625 29945 | tstate->curexc_type = 0; 2025-09-08T00:49:26,625 | ^~ 2025-09-08T00:49:26,658 rnacounter/rnacounter.c:29946:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:26,659 29946 | tstate->curexc_value = 0; 2025-09-08T00:49:26,659 | ^~ 2025-09-08T00:49:26,692 rnacounter/rnacounter.c:29947:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:26,692 29947 | tstate->curexc_traceback = 0; 2025-09-08T00:49:26,692 | ^~ 2025-09-08T00:49:26,726 rnacounter/rnacounter.c:29953:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:26,726 29953 | if (unlikely(tstate->curexc_type)) 2025-09-08T00:49:26,726 | ^~ 2025-09-08T00:49:26,726 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:49:26,726 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:49:26,727 | ^ 2025-09-08T00:49:26,787 rnacounter/rnacounter.c:29971:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:26,787 29971 | tmp_type = tstate->exc_type; 2025-09-08T00:49:26,787 | ^~~~~~~~ 2025-09-08T00:49:26,787 | exc_state 2025-09-08T00:49:26,820 rnacounter/rnacounter.c:29972:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:26,821 29972 | tmp_value = tstate->exc_value; 2025-09-08T00:49:26,821 | ^~ 2025-09-08T00:49:26,854 rnacounter/rnacounter.c:29973:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:26,854 29973 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:49:26,854 | ^~ 2025-09-08T00:49:26,903 rnacounter/rnacounter.c:29974:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:26,903 29974 | tstate->exc_type = local_type; 2025-09-08T00:49:26,903 | ^~~~~~~~ 2025-09-08T00:49:26,903 | exc_state 2025-09-08T00:49:26,936 rnacounter/rnacounter.c:29975:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:26,937 29975 | tstate->exc_value = local_value; 2025-09-08T00:49:26,937 | ^~ 2025-09-08T00:49:26,971 rnacounter/rnacounter.c:29976:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:26,971 29976 | tstate->exc_traceback = local_tb; 2025-09-08T00:49:26,971 | ^~ 2025-09-08T00:49:26,998 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-08T00:49:27,048 rnacounter/rnacounter.c:30080:22: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-08T00:49:27,048 30080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2025-09-08T00:49:27,048 | ^~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:27,048 | PyDict_GET_SIZE 2025-09-08T00:49:27,159 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2025-09-08T00:49:27,193 rnacounter/rnacounter.c:30306:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:27,194 30306 | PyObject* tmp_tb = tstate->curexc_traceback; 2025-09-08T00:49:27,194 | ^~ 2025-09-08T00:49:27,228 rnacounter/rnacounter.c:30309:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:27,228 30309 | tstate->curexc_traceback = tb; 2025-09-08T00:49:27,228 | ^~ 2025-09-08T00:49:27,285 rnacounter/rnacounter.c: In function ‘__Pyx_PyIter_Next2’: 2025-09-08T00:49:27,320 rnacounter/rnacounter.c:30354:31: error: ‘_PyObject_NextNotImplemented’ undeclared (first use in this function); did you mean ‘PyObject_HashNotImplemented’? 2025-09-08T00:49:27,320 30354 | if (unlikely(iternext == &_PyObject_NextNotImplemented)) 2025-09-08T00:49:27,320 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:27,320 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:49:27,320 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:49:27,320 | ^ 2025-09-08T00:49:27,365 rnacounter/rnacounter.c: In function ‘__Pyx_IterFinish’: 2025-09-08T00:49:27,400 rnacounter/rnacounter.c:30557:32: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:27,400 30557 | PyObject* exc_type = tstate->curexc_type; 2025-09-08T00:49:27,400 | ^~ 2025-09-08T00:49:27,435 rnacounter/rnacounter.c:30561:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:27,435 30561 | exc_value = tstate->curexc_value; 2025-09-08T00:49:27,435 | ^~ 2025-09-08T00:49:27,470 rnacounter/rnacounter.c:30562:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:27,470 30562 | exc_tb = tstate->curexc_traceback; 2025-09-08T00:49:27,470 | ^~ 2025-09-08T00:49:27,504 rnacounter/rnacounter.c:30563:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:49:27,505 30563 | tstate->curexc_type = 0; 2025-09-08T00:49:27,505 | ^~ 2025-09-08T00:49:27,539 rnacounter/rnacounter.c:30564:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:49:27,539 30564 | tstate->curexc_value = 0; 2025-09-08T00:49:27,540 | ^~ 2025-09-08T00:49:27,574 rnacounter/rnacounter.c:30565:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:49:27,574 30565 | tstate->curexc_traceback = 0; 2025-09-08T00:49:27,574 | ^~ 2025-09-08T00:49:28,063 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2025-09-08T00:49:28,116 rnacounter/rnacounter.c:31909:16: error: implicit declaration of function ‘PyCFunction_Call’; did you mean ‘PyCFunction_New’? [-Wimplicit-function-declaration] 2025-09-08T00:49:28,116 31909 | return PyCFunction_Call(func, arg, kw); 2025-09-08T00:49:28,116 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,116 | PyCFunction_New 2025-09-08T00:49:28,157 rnacounter/rnacounter.c:31909:16: error: returning ‘int’ from a function with return type ‘PyObject *’ {aka ‘struct _object *’} makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:28,157 31909 | return PyCFunction_Call(func, arg, kw); 2025-09-08T00:49:28,157 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,175 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2025-09-08T00:49:28,226 rnacounter/rnacounter.c:31974:41: error: ‘PyCFunction_Call’ undeclared (first use in this function); did you mean ‘PyCFunction_New’? 2025-09-08T00:49:28,227 31974 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2025-09-08T00:49:28,227 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,227 | PyCFunction_New 2025-09-08T00:49:28,271 rnacounter/rnacounter.c: In function ‘__Pyx_CreateCodeObjectForTraceback’: 2025-09-08T00:49:28,307 rnacounter/rnacounter.c:32150:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:49:28,307 32150 | py_code = __Pyx_PyCode_New( 2025-09-08T00:49:28,307 | ^~~~~~~ 2025-09-08T00:49:28,307 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:28,307 213 | PyCode_New( 2025-09-08T00:49:28,308 | ^~~~~~~~~~ 2025-09-08T00:49:28,343 rnacounter/rnacounter.c:32164:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:49:28,343 32164 | py_line, 2025-09-08T00:49:28,344 | ^~~~~~~ 2025-09-08T00:49:28,344 | | 2025-09-08T00:49:28,344 | int 2025-09-08T00:49:28,344 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:28,344 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:28,344 | ^~~~~ 2025-09-08T00:49:28,344 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:49:28,344 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:28,344 | ~~~~~~~~~~^ 2025-09-08T00:49:28,384 rnacounter/rnacounter.c:32165:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:28,384 32165 | __pyx_empty_bytes /*PyObject *lnotab*/ 2025-09-08T00:49:28,384 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,384 | | 2025-09-08T00:49:28,384 | PyObject * {aka struct _object *} 2025-09-08T00:49:28,384 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:28,384 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:28,384 | ^~~~ 2025-09-08T00:49:28,385 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:49:28,385 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:49:28,385 | ~~~~^ 2025-09-08T00:49:28,424 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:49:28,424 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:49:28,424 | ^~~~~~~~~~ 2025-09-08T00:49:28,424 rnacounter/rnacounter.c:32150:15: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:49:28,425 32150 | py_code = __Pyx_PyCode_New( 2025-09-08T00:49:28,425 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,425 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:49:28,425 213 | PyCode_New( 2025-09-08T00:49:28,425 | ^~~~~~~~~~ 2025-09-08T00:49:28,441 rnacounter/rnacounter.c: In function ‘__Pyx_AddTraceback’: 2025-09-08T00:49:28,477 rnacounter/rnacounter.c:32193:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:49:28,477 32193 | py_frame->f_lineno = py_line; 2025-09-08T00:49:28,477 | ^~ 2025-09-08T00:49:28,479 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_int’: 2025-09-08T00:49:28,515 rnacounter/rnacounter.c:32314:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T00:49:28,515 32314 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T00:49:28,515 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,515 In file included from /usr/include/python3.13/longobject.h:107, 2025-09-08T00:49:28,516 from /usr/include/python3.13/Python.h:81: 2025-09-08T00:49:28,516 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T00:49:28,516 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T00:49:28,516 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,561 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_long’: 2025-09-08T00:49:28,597 rnacounter/rnacounter.c:32769:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T00:49:28,597 32769 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T00:49:28,597 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,597 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T00:49:28,597 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T00:49:28,597 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:49:28,606 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2025-09-08T00:49:28,660 rnacounter/rnacounter.c:32801:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:28,660 32801 | tmp_type = tstate->exc_type; 2025-09-08T00:49:28,660 | ^~~~~~~~ 2025-09-08T00:49:28,661 | exc_state 2025-09-08T00:49:28,698 rnacounter/rnacounter.c:32802:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:28,698 32802 | tmp_value = tstate->exc_value; 2025-09-08T00:49:28,698 | ^~ 2025-09-08T00:49:28,735 rnacounter/rnacounter.c:32803:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:28,735 32803 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:49:28,735 | ^~ 2025-09-08T00:49:28,789 rnacounter/rnacounter.c:32804:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:49:28,789 32804 | tstate->exc_type = *type; 2025-09-08T00:49:28,789 | ^~~~~~~~ 2025-09-08T00:49:28,790 | exc_state 2025-09-08T00:49:28,827 rnacounter/rnacounter.c:32805:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:49:28,827 32805 | tstate->exc_value = *value; 2025-09-08T00:49:28,827 | ^~ 2025-09-08T00:49:28,864 rnacounter/rnacounter.c:32806:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:49:28,864 32806 | tstate->exc_traceback = *tb; 2025-09-08T00:49:28,864 | ^~ 2025-09-08T00:49:28,866 In file included from /usr/include/python3.13/Python.h:63: 2025-09-08T00:49:28,866 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_SendEx’: 2025-09-08T00:49:28,946 rnacounter/rnacounter.c:32926:30: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T00:49:28,946 32926 | Py_XINCREF(tstate->frame); 2025-09-08T00:49:28,946 | ^~ 2025-09-08T00:49:28,946 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-08T00:49:28,946 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-08T00:49:28,946 | ^~~~ 2025-09-08T00:49:28,946 /usr/include/python3.13/object.h:1041:37: note: in expansion of macro ‘_PyObject_CAST’ 2025-09-08T00:49:28,946 1041 | # define Py_XINCREF(op) Py_XINCREF(_PyObject_CAST(op)) 2025-09-08T00:49:28,946 | ^~~~~~~~~~~~~~ 2025-09-08T00:49:28,946 rnacounter/rnacounter.c:32926:13: note: in expansion of macro ‘Py_XINCREF’ 2025-09-08T00:49:28,947 32926 | Py_XINCREF(tstate->frame); 2025-09-08T00:49:28,947 | ^~~~~~~~~~ 2025-09-08T00:49:28,982 rnacounter/rnacounter.c:32928:14: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:49:28,983 32928 | f->f_back = tstate->frame; 2025-09-08T00:49:28,983 | ^~ 2025-09-08T00:49:29,024 rnacounter/rnacounter.c:32928:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T00:49:29,024 32928 | f->f_back = tstate->frame; 2025-09-08T00:49:29,024 | ^~ 2025-09-08T00:49:29,103 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:49:29,104 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,104 | ^~ 2025-09-08T00:49:29,104 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T00:49:29,104 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T00:49:29,104 | ^~~~ 2025-09-08T00:49:29,104 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:49:29,104 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,104 | ^~~~~~~~ 2025-09-08T00:49:29,145 In file included from /usr/include/python3.13/Python.h:72: 2025-09-08T00:49:29,145 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:49:29,145 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,145 | ^~ 2025-09-08T00:49:29,145 /usr/include/python3.13/object.h:1012:41: note: in definition of macro ‘Py_CLEAR’ 2025-09-08T00:49:29,146 1012 | _Py_TYPEOF(op)* _tmp_op_ptr = &(op); \ 2025-09-08T00:49:29,146 | ^~ 2025-09-08T00:49:29,228 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:49:29,229 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,229 | ^~ 2025-09-08T00:49:29,229 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T00:49:29,229 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T00:49:29,229 | ^~~~ 2025-09-08T00:49:29,229 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:49:29,229 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,229 | ^~~~~~~~ 2025-09-08T00:49:29,269 /usr/include/python3.13/object.h:1014:25: warning: comparison between pointer and integer 2025-09-08T00:49:29,269 1014 | if (_tmp_old_op != NULL) { \ 2025-09-08T00:49:29,269 | ^~ 2025-09-08T00:49:29,269 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:49:29,269 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,270 | ^~~~~~~~ 2025-09-08T00:49:29,309 /usr/include/python3.13/object.h:1015:26: error: assignment to ‘int’ from ‘void *’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:49:29,310 1015 | *_tmp_op_ptr = _Py_NULL; \ 2025-09-08T00:49:29,310 | ^ 2025-09-08T00:49:29,310 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:49:29,310 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:49:29,310 | ^~~~~~~~ 2025-09-08T00:49:29,901 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-08T00:49:30,070 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T00:49:30,082 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T00:49:30,082 exec(compile('"'"''"'"''"'"' 2025-09-08T00:49:30,082 # This is -- a caller that pip uses to run setup.py 2025-09-08T00:49:30,082 # 2025-09-08T00:49:30,082 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T00:49:30,082 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T00:49:30,082 # - It provides a clear error message when setuptools is not installed. 2025-09-08T00:49:30,082 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T00:49:30,082 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T00:49:30,082 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T00:49:30,082 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T00:49:30,082 import os, sys, tokenize, traceback 2025-09-08T00:49:30,082 2025-09-08T00:49:30,082 try: 2025-09-08T00:49:30,082 import setuptools 2025-09-08T00:49:30,082 except ImportError: 2025-09-08T00:49:30,082 print( 2025-09-08T00:49:30,082 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T00:49:30,082 "the build environment with exception:", 2025-09-08T00:49:30,082 file=sys.stderr, 2025-09-08T00:49:30,082 ) 2025-09-08T00:49:30,082 traceback.print_exc() 2025-09-08T00:49:30,082 sys.exit(1) 2025-09-08T00:49:30,082 2025-09-08T00:49:30,082 __file__ = %r 2025-09-08T00:49:30,082 sys.argv[0] = __file__ 2025-09-08T00:49:30,082 2025-09-08T00:49:30,082 if os.path.exists(__file__): 2025-09-08T00:49:30,082 filename = __file__ 2025-09-08T00:49:30,082 with tokenize.open(__file__) as f: 2025-09-08T00:49:30,082 setup_py_code = f.read() 2025-09-08T00:49:30,082 else: 2025-09-08T00:49:30,082 filename = "" 2025-09-08T00:49:30,082 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T00:49:30,082 2025-09-08T00:49:30,082 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T00:49:30,082 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-6uclblb0/rnacounter_4612e10f882544c991af4e67621bcc82/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-xfwr0ocl[/] 2025-09-08T00:49:30,082 [bold magenta]cwd[/]: /tmp/pip-wheel-6uclblb0/rnacounter_4612e10f882544c991af4e67621bcc82/ 2025-09-08T00:49:30,082 Building wheel for rnacounter (setup.py): finished with status 'error' 2025-09-08T00:49:30,083 ERROR: Failed building wheel for rnacounter 2025-09-08T00:49:30,083 Running setup.py clean for rnacounter 2025-09-08T00:49:30,084 Running command python setup.py clean 2025-09-08T00:49:31,252 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:49:31,252 warnings.warn(msg) 2025-09-08T00:49:31,716 running clean 2025-09-08T00:49:31,861 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T00:49:31,862 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T00:49:31,863 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T00:49:31,863 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T00:49:31,863 removing 'build' 2025-09-08T00:49:31,998 Failed to build rnacounter 2025-09-08T00:49:31,999 ERROR: Failed to build one or more wheels 2025-09-08T00:49:32,000 Exception information: 2025-09-08T00:49:32,000 Traceback (most recent call last): 2025-09-08T00:49:32,000 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T00:49:32,000 status = _inner_run() 2025-09-08T00:49:32,000 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T00:49:32,000 return self.run(options, args) 2025-09-08T00:49:32,000 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T00:49:32,000 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T00:49:32,000 return func(self, options, args) 2025-09-08T00:49:32,000 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T00:49:32,000 raise CommandError("Failed to build one or more wheels") 2025-09-08T00:49:32,000 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T00:49:32,004 Removed build tracker: '/tmp/pip-build-tracker-qnywjznx'