2025-09-08T00:44:59,702 Created temporary directory: /tmp/pip-build-tracker-8fvu207i 2025-09-08T00:44:59,703 Initialized build tracking at /tmp/pip-build-tracker-8fvu207i 2025-09-08T00:44:59,703 Created build tracker: /tmp/pip-build-tracker-8fvu207i 2025-09-08T00:44:59,703 Entered build tracker: /tmp/pip-build-tracker-8fvu207i 2025-09-08T00:44:59,704 Created temporary directory: /tmp/pip-wheel-8e7yzb6c 2025-09-08T00:44:59,707 Created temporary directory: /tmp/pip-ephem-wheel-cache-ftmu2x6r 2025-09-08T00:44:59,763 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T00:44:59,765 2 location(s) to search for versions of rnacounter: 2025-09-08T00:44:59,765 * https://pypi.org/simple/rnacounter/ 2025-09-08T00:44:59,765 * https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:44:59,766 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2025-09-08T00:44:59,766 Getting page https://pypi.org/simple/rnacounter/ 2025-09-08T00:44:59,767 Found index url https://pypi.org/simple/ 2025-09-08T00:44:59,837 Fetched page https://pypi.org/simple/rnacounter/ as application/vnd.pypi.simple.v1+json 2025-09-08T00:44:59,839 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 2025-09-08T00:44:59,840 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 2025-09-08T00:44:59,840 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 2025-09-08T00:44:59,840 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 2025-09-08T00:44:59,840 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 2025-09-08T00:44:59,841 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2 2025-09-08T00:44:59,841 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 2025-09-08T00:44:59,841 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3 2025-09-08T00:44:59,841 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 2025-09-08T00:44:59,841 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4 2025-09-08T00:44:59,842 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 2025-09-08T00:44:59,842 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 2025-09-08T00:44:59,842 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5 2025-09-08T00:44:59,842 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 2025-09-08T00:44:59,843 Fetching project page and analyzing links: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:44:59,843 Getting page https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:44:59,844 Found index url https://www.piwheels.org/simple/ 2025-09-08T00:44:59,941 Fetched page https://www.piwheels.org/simple/rnacounter/ as text/html 2025-09-08T00:44:59,954 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/) 2025-09-08T00:44:59,954 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/) 2025-09-08T00:44:59,954 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,955 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,956 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,957 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,958 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,959 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/) 2025-09-08T00:44:59,960 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/) 2025-09-08T00:44:59,960 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/) 2025-09-08T00:44:59,960 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,961 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/) 2025-09-08T00:44:59,962 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/) 2025-09-08T00:44:59,962 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/) 2025-09-08T00:44:59,962 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/) 2025-09-08T00:44:59,962 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/) 2025-09-08T00:44:59,962 Skipping link: not a file: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T00:44:59,962 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2025-09-08T00:44:59,986 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2025-09-08T00:44:59,987 Collecting rnacounter==1.2 2025-09-08T00:44:59,988 Created temporary directory: /tmp/pip-unpack-csbyp0fp 2025-09-08T00:45:00,207 Downloading rnacounter-1.2.tar.gz (174 kB) 2025-09-08T00:45:00,288 Added rnacounter==1.2 from https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz to build tracker '/tmp/pip-build-tracker-8fvu207i' 2025-09-08T00:45:00,289 Running setup.py (path:/tmp/pip-wheel-8e7yzb6c/rnacounter_0c94b17d39f14b02905697f02519a30e/setup.py) egg_info for package rnacounter 2025-09-08T00:45:00,289 Created temporary directory: /tmp/pip-pip-egg-info-9t3d892y 2025-09-08T00:45:00,289 Preparing metadata (setup.py): started 2025-09-08T00:45:00,290 Running command python setup.py egg_info 2025-09-08T00:45:01,200 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:45:01,200 warnings.warn(msg) 2025-09-08T00:45:01,662 running egg_info 2025-09-08T00:45:01,736 creating /tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info 2025-09-08T00:45:01,736 writing /tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/PKG-INFO 2025-09-08T00:45:01,738 writing dependency_links to /tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/dependency_links.txt 2025-09-08T00:45:01,738 writing requirements to /tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/requires.txt 2025-09-08T00:45:01,739 writing top-level names to /tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/top_level.txt 2025-09-08T00:45:01,739 writing manifest file '/tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:45:02,108 reading manifest file '/tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:45:02,109 reading manifest template 'MANIFEST.in' 2025-09-08T00:45:02,110 warning: no files found matching 'rnacounter/testfiles/*' 2025-09-08T00:45:02,113 writing manifest file '/tmp/pip-pip-egg-info-9t3d892y/rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:45:02,251 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T00:45:02,255 Source in /tmp/pip-wheel-8e7yzb6c/rnacounter_0c94b17d39f14b02905697f02519a30e has version 1.2, which satisfies requirement rnacounter==1.2 from https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz 2025-09-08T00:45:02,256 Removed rnacounter==1.2 from https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz from build tracker '/tmp/pip-build-tracker-8fvu207i' 2025-09-08T00:45:02,260 Created temporary directory: /tmp/pip-unpack-ppcvcrpx 2025-09-08T00:45:02,260 Created temporary directory: /tmp/pip-unpack-mtq6ahy1 2025-09-08T00:45:02,261 Building wheels for collected packages: rnacounter 2025-09-08T00:45:02,262 Created temporary directory: /tmp/pip-wheel-q6a1cgqm 2025-09-08T00:45:02,262 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 2025-09-08T00:45:02,263 Building wheel for rnacounter (setup.py): started 2025-09-08T00:45:02,264 Destination directory: /tmp/pip-wheel-q6a1cgqm 2025-09-08T00:45:02,264 Running command python setup.py bdist_wheel 2025-09-08T00:45:03,141 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:45:03,141 warnings.warn(msg) 2025-09-08T00:45:03,527 running bdist_wheel 2025-09-08T00:45:03,892 running build 2025-09-08T00:45:03,892 running build_py 2025-09-08T00:45:03,970 creating build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:03,970 copying rnacounter/setup.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:03,971 copying rnacounter/main.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:03,971 copying rnacounter/__init__.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:03,972 running egg_info 2025-09-08T00:45:04,047 writing rnacounter.egg-info/PKG-INFO 2025-09-08T00:45:04,048 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2025-09-08T00:45:04,049 writing requirements to rnacounter.egg-info/requires.txt 2025-09-08T00:45:04,049 writing top-level names to rnacounter.egg-info/top_level.txt 2025-09-08T00:45:04,131 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:45:04,133 reading manifest template 'MANIFEST.in' 2025-09-08T00:45:04,134 warning: no files found matching 'rnacounter/testfiles/*' 2025-09-08T00:45:04,138 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T00:45:04,139 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:04,145 running build_ext 2025-09-08T00:45:04,468 building 'rnacounter/rnacounter' extension 2025-09-08T00:45:04,468 creating build/temp.linux-armv7l-cpython-313/rnacounter 2025-09-08T00:45:04,469 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 2025-09-08T00:45:04,880 rnacounter/rnacounter.c: In function ‘__Pyx_ListComp_Append’: 2025-09-08T00:45:04,880 rnacounter/rnacounter.c:1355:23: error: lvalue required as left operand of assignment 2025-09-08T00:45:04,881 1355 | Py_SIZE(list) = len+1; 2025-09-08T00:45:04,881 | ^ 2025-09-08T00:45:04,881 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Append’: 2025-09-08T00:45:04,882 rnacounter/rnacounter.c:1422:23: error: lvalue required as left operand of assignment 2025-09-08T00:45:04,882 1422 | Py_SIZE(list) = len+1; 2025-09-08T00:45:04,882 | ^ 2025-09-08T00:45:04,890 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Extend’: 2025-09-08T00:45:04,891 rnacounter/rnacounter.c:1479:22: error: implicit declaration of function ‘_PyList_Extend’; did you mean ‘PyList_Extend’? [-Wimplicit-function-declaration] 2025-09-08T00:45:04,891 1479 | PyObject* none = _PyList_Extend((PyListObject*)L, v); 2025-09-08T00:45:04,891 | ^~~~~~~~~~~~~~ 2025-09-08T00:45:04,891 | PyList_Extend 2025-09-08T00:45:04,891 rnacounter/rnacounter.c:1479:22: error: initialization of ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:04,951 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_2parse_bed’: 2025-09-08T00:45:04,954 rnacounter/rnacounter.c:4158:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:04,954 4158 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:04,955 | ^~ 2025-09-08T00:45:04,955 In file included from /usr/include/python3.13/Python.h:76, 2025-09-08T00:45:04,955 from rnacounter/rnacounter.c:16: 2025-09-08T00:45:04,955 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:04,955 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:04,955 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:05,001 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_4join’: 2025-09-08T00:45:05,006 rnacounter/rnacounter.c:5393:9: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:05,006 5393 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:05,006 | ^~ 2025-09-08T00:45:05,006 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:05,006 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:05,006 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:05,042 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_13GenomicObject_2__and__’: 2025-09-08T00:45:05,048 rnacounter/rnacounter.c:6553:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:05,048 6553 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:05,049 | ^~ 2025-09-08T00:45:05,049 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:05,049 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:05,049 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:05,948 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_14parse_args’: 2025-09-08T00:45:05,972 rnacounter/rnacounter.c:22025:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:05,973 22025 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:05,973 | ^~ 2025-09-08T00:45:05,973 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:05,973 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:05,973 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:05,999 rnacounter/rnacounter.c:22079:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:05,999 22079 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:05,999 | ^~ 2025-09-08T00:45:06,000 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,000 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,000 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,027 rnacounter/rnacounter.c:22174:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,027 22174 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:06,027 | ^~ 2025-09-08T00:45:06,027 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,028 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,028 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,054 rnacounter/rnacounter.c:22223:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,054 22223 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:06,054 | ^~ 2025-09-08T00:45:06,054 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,054 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,054 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,095 rnacounter/rnacounter.c:22359:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,095 22359 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:06,095 | ^~ 2025-09-08T00:45:06,095 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,095 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,095 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,150 rnacounter/rnacounter.c:22561:5: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,150 22561 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:06,150 | ^~ 2025-09-08T00:45:06,150 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,151 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,151 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,177 rnacounter/rnacounter.c:22626:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,178 22626 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T00:45:06,178 | ^~ 2025-09-08T00:45:06,178 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T00:45:06,178 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T00:45:06,178 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,222 rnacounter/rnacounter.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-08T00:45:06,260 rnacounter/rnacounter.c:23181:50: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-08T00:45:06,260 23181 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); 2025-09-08T00:45:06,260 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,260 | PyBUF_C_CONTIGUOUS 2025-09-08T00:45:06,263 rnacounter/rnacounter.c:23181:50: note: each undeclared identifier is reported only once for each function it appears in 2025-09-08T00:45:06,322 rnacounter/rnacounter.c:23221:50: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-08T00:45:06,322 23221 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); 2025-09-08T00:45:06,323 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,323 | PyBUF_F_CONTIGUOUS 2025-09-08T00:45:06,330 rnacounter/rnacounter.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-08T00:45:06,357 rnacounter/rnacounter.c:24227:29: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T00:45:06,357 24227 | if (unlikely(__pyx_v_descr->names == Py_None)) { 2025-09-08T00:45:06,357 | ^~ 2025-09-08T00:45:06,357 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:45:06,357 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:45:06,358 | ^ 2025-09-08T00:45:06,388 rnacounter/rnacounter.c:24231:28: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T00:45:06,389 24231 | __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0; 2025-09-08T00:45:06,389 | ^~ 2025-09-08T00:45:06,422 rnacounter/rnacounter.c:24249:47: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-08T00:45:06,422 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;}; 2025-09-08T00:45:06,423 | ^~ 2025-09-08T00:45:06,471 rnacounter/rnacounter.c:24430:79: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-08T00:45:06,472 24430 | (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize); 2025-09-08T00:45:06,472 | ^~ 2025-09-08T00:45:06,520 rnacounter/rnacounter.c: In function ‘__pyx_tp_dealloc_10rnacounter_10rnacounter_Counter’: 2025-09-08T00:45:06,549 rnacounter/rnacounter.c:25051:75: error: implicit declaration of function ‘_PyGC_FINALIZED’ [-Wimplicit-function-declaration] 2025-09-08T00:45:06,549 25051 | if (unlikely(Py_TYPE(o)->tp_finalize) && (!PyType_IS_GC(Py_TYPE(o)) || !_PyGC_FINALIZED(o))) { 2025-09-08T00:45:06,549 | ^~~~~~~~~~~~~~~ 2025-09-08T00:45:06,664 rnacounter/rnacounter.c: In function ‘__Pyx_InitCachedConstants’: 2025-09-08T00:45:06,698 rnacounter/rnacounter.c:28819:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,698 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;} 2025-09-08T00:45:06,699 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,699 In file included from /usr/include/python3.13/Python.h:101: 2025-09-08T00:45:06,699 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:06,699 213 | PyCode_New( 2025-09-08T00:45:06,699 | ^~~~~~~~~~ 2025-09-08T00:45:06,736 rnacounter/rnacounter.c:28819:243: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:06,736 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;} 2025-09-08T00:45:06,736 | ^~ 2025-09-08T00:45:06,736 | | 2025-09-08T00:45:06,736 | int 2025-09-08T00:45:06,736 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,736 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,736 | ^~~~~ 2025-09-08T00:45:06,737 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:06,737 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:06,737 | ~~~~~~~~~~^ 2025-09-08T00:45:06,773 rnacounter/rnacounter.c:28819:247: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:06,773 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;} 2025-09-08T00:45:06,773 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,773 | | 2025-09-08T00:45:06,773 | PyObject * {aka struct _object *} 2025-09-08T00:45:06,773 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,773 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,774 | ^~~~ 2025-09-08T00:45:06,774 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:06,774 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:06,774 | ~~~~^ 2025-09-08T00:45:06,810 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:06,810 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,810 | ^~~~~~~~~~ 2025-09-08T00:45:06,810 rnacounter/rnacounter.c:28819:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,810 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;} 2025-09-08T00:45:06,810 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,811 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:06,811 213 | PyCode_New( 2025-09-08T00:45:06,811 | ^~~~~~~~~~ 2025-09-08T00:45:06,843 rnacounter/rnacounter.c:28831:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,843 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;} 2025-09-08T00:45:06,843 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,843 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:06,843 213 | PyCode_New( 2025-09-08T00:45:06,843 | ^~~~~~~~~~ 2025-09-08T00:45:06,879 rnacounter/rnacounter.c:28831:244: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:06,879 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;} 2025-09-08T00:45:06,879 | ^~ 2025-09-08T00:45:06,879 | | 2025-09-08T00:45:06,879 | int 2025-09-08T00:45:06,879 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,879 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,879 | ^~~~~ 2025-09-08T00:45:06,879 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:06,880 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:06,880 | ~~~~~~~~~~^ 2025-09-08T00:45:06,915 rnacounter/rnacounter.c:28831:248: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:06,915 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;} 2025-09-08T00:45:06,915 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,915 | | 2025-09-08T00:45:06,915 | PyObject * {aka struct _object *} 2025-09-08T00:45:06,915 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,915 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,915 | ^~~~ 2025-09-08T00:45:06,916 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:06,916 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:06,916 | ~~~~^ 2025-09-08T00:45:06,951 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:06,951 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:06,951 | ^~~~~~~~~~ 2025-09-08T00:45:06,951 rnacounter/rnacounter.c:28831:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:06,951 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;} 2025-09-08T00:45:06,951 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,951 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:06,952 213 | PyCode_New( 2025-09-08T00:45:06,952 | ^~~~~~~~~~ 2025-09-08T00:45:06,983 rnacounter/rnacounter.c:28843:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:06,984 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;} 2025-09-08T00:45:06,984 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:06,984 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:06,984 213 | PyCode_New( 2025-09-08T00:45:06,984 | ^~~~~~~~~~ 2025-09-08T00:45:07,020 rnacounter/rnacounter.c:28843:239: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,020 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;} 2025-09-08T00:45:07,020 | ^~~ 2025-09-08T00:45:07,020 | | 2025-09-08T00:45:07,020 | int 2025-09-08T00:45:07,020 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,020 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,020 | ^~~~~ 2025-09-08T00:45:07,020 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,020 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,021 | ~~~~~~~~~~^ 2025-09-08T00:45:07,056 rnacounter/rnacounter.c:28843:244: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,056 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;} 2025-09-08T00:45:07,056 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,056 | | 2025-09-08T00:45:07,056 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,056 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,056 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,056 | ^~~~ 2025-09-08T00:45:07,057 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,057 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,057 | ~~~~^ 2025-09-08T00:45:07,092 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,092 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,092 | ^~~~~~~~~~ 2025-09-08T00:45:07,092 rnacounter/rnacounter.c:28843:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,092 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;} 2025-09-08T00:45:07,092 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,092 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,093 213 | PyCode_New( 2025-09-08T00:45:07,093 | ^~~~~~~~~~ 2025-09-08T00:45:07,125 rnacounter/rnacounter.c:28855:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:07,125 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;} 2025-09-08T00:45:07,125 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,125 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,125 213 | PyCode_New( 2025-09-08T00:45:07,125 | ^~~~~~~~~~ 2025-09-08T00:45:07,161 rnacounter/rnacounter.c:28855:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,161 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;} 2025-09-08T00:45:07,161 | ^~~ 2025-09-08T00:45:07,161 | | 2025-09-08T00:45:07,161 | int 2025-09-08T00:45:07,161 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,161 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,161 | ^~~~~ 2025-09-08T00:45:07,162 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,162 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,162 | ~~~~~~~~~~^ 2025-09-08T00:45:07,197 rnacounter/rnacounter.c:28855:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,197 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;} 2025-09-08T00:45:07,197 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,197 | | 2025-09-08T00:45:07,197 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,197 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,198 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,198 | ^~~~ 2025-09-08T00:45:07,198 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,198 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,198 | ~~~~^ 2025-09-08T00:45:07,233 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,233 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,233 | ^~~~~~~~~~ 2025-09-08T00:45:07,233 rnacounter/rnacounter.c:28855:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,233 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;} 2025-09-08T00:45:07,234 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,234 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,234 213 | PyCode_New( 2025-09-08T00:45:07,234 | ^~~~~~~~~~ 2025-09-08T00:45:07,266 rnacounter/rnacounter.c:28867:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:07,266 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;} 2025-09-08T00:45:07,266 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,266 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,266 213 | PyCode_New( 2025-09-08T00:45:07,266 | ^~~~~~~~~~ 2025-09-08T00:45:07,302 rnacounter/rnacounter.c:28867:247: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,302 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;} 2025-09-08T00:45:07,302 | ^~~ 2025-09-08T00:45:07,302 | | 2025-09-08T00:45:07,302 | int 2025-09-08T00:45:07,302 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,302 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,303 | ^~~~~ 2025-09-08T00:45:07,303 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,303 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,303 | ~~~~~~~~~~^ 2025-09-08T00:45:07,338 rnacounter/rnacounter.c:28867:252: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,338 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;} 2025-09-08T00:45:07,338 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,338 | | 2025-09-08T00:45:07,338 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,339 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,339 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,339 | ^~~~ 2025-09-08T00:45:07,339 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,339 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,339 | ~~~~^ 2025-09-08T00:45:07,374 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,374 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,374 | ^~~~~~~~~~ 2025-09-08T00:45:07,374 rnacounter/rnacounter.c:28867:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,375 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;} 2025-09-08T00:45:07,375 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,375 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,375 213 | PyCode_New( 2025-09-08T00:45:07,375 | ^~~~~~~~~~ 2025-09-08T00:45:07,407 rnacounter/rnacounter.c:28879:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:07,407 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;} 2025-09-08T00:45:07,407 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,407 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,407 213 | PyCode_New( 2025-09-08T00:45:07,407 | ^~~~~~~~~~ 2025-09-08T00:45:07,443 rnacounter/rnacounter.c:28879:250: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,443 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;} 2025-09-08T00:45:07,443 | ^~~ 2025-09-08T00:45:07,443 | | 2025-09-08T00:45:07,443 | int 2025-09-08T00:45:07,443 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,444 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,444 | ^~~~~ 2025-09-08T00:45:07,444 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,444 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,444 | ~~~~~~~~~~^ 2025-09-08T00:45:07,479 rnacounter/rnacounter.c:28879:255: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,479 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;} 2025-09-08T00:45:07,479 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,480 | | 2025-09-08T00:45:07,480 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,480 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,480 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,480 | ^~~~ 2025-09-08T00:45:07,480 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,480 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,480 | ~~~~^ 2025-09-08T00:45:07,515 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,515 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,516 | ^~~~~~~~~~ 2025-09-08T00:45:07,516 rnacounter/rnacounter.c:28879:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,516 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;} 2025-09-08T00:45:07,516 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,516 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,516 213 | PyCode_New( 2025-09-08T00:45:07,516 | ^~~~~~~~~~ 2025-09-08T00:45:07,548 rnacounter/rnacounter.c:28888:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:07,548 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;} 2025-09-08T00:45:07,548 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,548 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,548 213 | PyCode_New( 2025-09-08T00:45:07,548 | ^~~~~~~~~~ 2025-09-08T00:45:07,584 rnacounter/rnacounter.c:28888:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,584 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;} 2025-09-08T00:45:07,584 | ^~~ 2025-09-08T00:45:07,584 | | 2025-09-08T00:45:07,584 | int 2025-09-08T00:45:07,585 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,585 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,585 | ^~~~~ 2025-09-08T00:45:07,585 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,585 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,585 | ~~~~~~~~~~^ 2025-09-08T00:45:07,620 rnacounter/rnacounter.c:28888:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,620 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;} 2025-09-08T00:45:07,620 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,621 | | 2025-09-08T00:45:07,621 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,621 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,621 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,621 | ^~~~ 2025-09-08T00:45:07,621 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,621 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,621 | ~~~~^ 2025-09-08T00:45:07,656 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,656 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,657 | ^~~~~~~~~~ 2025-09-08T00:45:07,657 rnacounter/rnacounter.c:28888:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,657 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;} 2025-09-08T00:45:07,657 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,657 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,657 213 | PyCode_New( 2025-09-08T00:45:07,657 | ^~~~~~~~~~ 2025-09-08T00:45:07,689 rnacounter/rnacounter.c:28900:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:07,689 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;} 2025-09-08T00:45:07,689 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,689 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,690 213 | PyCode_New( 2025-09-08T00:45:07,690 | ^~~~~~~~~~ 2025-09-08T00:45:07,725 rnacounter/rnacounter.c:28900:245: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:07,725 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;} 2025-09-08T00:45:07,725 | ^~~ 2025-09-08T00:45:07,726 | | 2025-09-08T00:45:07,726 | int 2025-09-08T00:45:07,726 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,726 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,726 | ^~~~~ 2025-09-08T00:45:07,726 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:07,726 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,726 | ~~~~~~~~~~^ 2025-09-08T00:45:07,762 rnacounter/rnacounter.c:28900:250: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:07,762 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;} 2025-09-08T00:45:07,762 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,762 | | 2025-09-08T00:45:07,762 | PyObject * {aka struct _object *} 2025-09-08T00:45:07,762 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,762 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,762 | ^~~~ 2025-09-08T00:45:07,763 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:07,763 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:07,763 | ~~~~^ 2025-09-08T00:45:07,800 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:07,800 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:07,800 | ^~~~~~~~~~ 2025-09-08T00:45:07,800 rnacounter/rnacounter.c:28900:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:07,800 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;} 2025-09-08T00:45:07,800 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:07,801 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:07,801 213 | PyCode_New( 2025-09-08T00:45:07,801 | ^~~~~~~~~~ 2025-09-08T00:45:07,803 rnacounter/rnacounter.c: In function ‘PyInit_rnacounter’: 2025-09-08T00:45:07,839 rnacounter/rnacounter.c:29003:47: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:07,839 29003 | __pyx_type_10rnacounter_10rnacounter_Counter.tp_print = 0; 2025-09-08T00:45:07,839 | ^ 2025-09-08T00:45:07,874 rnacounter/rnacounter.c:29007:53: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:07,875 29007 | __pyx_type_10rnacounter_10rnacounter_GenomicObject.tp_print = 0; 2025-09-08T00:45:07,875 | ^ 2025-09-08T00:45:07,908 rnacounter/rnacounter.c:29024:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:07,908 29024 | __pyx_type_10rnacounter_10rnacounter_Exon.tp_print = 0; 2025-09-08T00:45:07,908 | ^ 2025-09-08T00:45:07,941 rnacounter/rnacounter.c:29030:50: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:07,941 29030 | __pyx_type_10rnacounter_10rnacounter_Transcript.tp_print = 0; 2025-09-08T00:45:07,941 | ^ 2025-09-08T00:45:07,974 rnacounter/rnacounter.c:29035:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:07,974 29035 | __pyx_type_10rnacounter_10rnacounter_Gene.tp_print = 0; 2025-09-08T00:45:07,974 | ^ 2025-09-08T00:45:08,007 rnacounter/rnacounter.c:29039:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,007 29039 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct__parse_gtf.tp_print = 0; 2025-09-08T00:45:08,007 | ^ 2025-09-08T00:45:08,039 rnacounter/rnacounter.c:29042:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,040 29042 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_1_genexpr.tp_print = 0; 2025-09-08T00:45:08,040 | ^ 2025-09-08T00:45:08,072 rnacounter/rnacounter.c:29045:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,072 29045 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_2_genexpr.tp_print = 0; 2025-09-08T00:45:08,073 | ^ 2025-09-08T00:45:08,105 rnacounter/rnacounter.c:29048:65: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,105 29048 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_3_join.tp_print = 0; 2025-09-08T00:45:08,105 | ^ 2025-09-08T00:45:08,138 rnacounter/rnacounter.c:29051:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,138 29051 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_4_genexpr.tp_print = 0; 2025-09-08T00:45:08,138 | ^ 2025-09-08T00:45:08,171 rnacounter/rnacounter.c:29054:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,171 29054 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_5_genexpr.tp_print = 0; 2025-09-08T00:45:08,171 | ^ 2025-09-08T00:45:08,204 rnacounter/rnacounter.c:29057:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,204 29057 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_6_genexpr.tp_print = 0; 2025-09-08T00:45:08,204 | ^ 2025-09-08T00:45:08,237 rnacounter/rnacounter.c:29060:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,237 29060 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_7_process_chunk.tp_print = 0; 2025-09-08T00:45:08,237 | ^ 2025-09-08T00:45:08,269 rnacounter/rnacounter.c:29063:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,270 29063 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_8_genexpr.tp_print = 0; 2025-09-08T00:45:08,270 | ^ 2025-09-08T00:45:08,302 rnacounter/rnacounter.c:29066:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,302 29066 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_9_genexpr.tp_print = 0; 2025-09-08T00:45:08,303 | ^ 2025-09-08T00:45:08,335 rnacounter/rnacounter.c:29069:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,335 29069 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_10_genexpr.tp_print = 0; 2025-09-08T00:45:08,335 | ^ 2025-09-08T00:45:08,368 rnacounter/rnacounter.c:29072:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,368 29072 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_11_genexpr.tp_print = 0; 2025-09-08T00:45:08,368 | ^ 2025-09-08T00:45:08,401 rnacounter/rnacounter.c:29075:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,401 29075 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_12_print_output.tp_print = 0; 2025-09-08T00:45:08,401 | ^ 2025-09-08T00:45:08,434 rnacounter/rnacounter.c:29078:72: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,434 29078 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_13_parse_args.tp_print = 0; 2025-09-08T00:45:08,434 | ^ 2025-09-08T00:45:08,467 rnacounter/rnacounter.c:29081:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,467 29081 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_14_genexpr.tp_print = 0; 2025-09-08T00:45:08,467 | ^ 2025-09-08T00:45:08,500 rnacounter/rnacounter.c:29084:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,500 29084 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_15_genexpr.tp_print = 0; 2025-09-08T00:45:08,500 | ^ 2025-09-08T00:45:08,533 rnacounter/rnacounter.c:29087:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T00:45:08,533 29087 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_16_genexpr.tp_print = 0; 2025-09-08T00:45:08,533 | ^ 2025-09-08T00:45:08,587 rnacounter/rnacounter.c: In function ‘__Pyx_PyUnicode_Equals’: 2025-09-08T00:45:08,624 rnacounter/rnacounter.c:84:51: error: implicit declaration of function ‘_PyUnicode_Ready’; did you mean ‘PyUnicode_READY’? [-Wimplicit-function-declaration] 2025-09-08T00:45:08,625 84 | 0 : _PyUnicode_Ready((PyObject *)(op))) 2025-09-08T00:45:08,625 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:08,625 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:45:08,625 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:45:08,625 | ^ 2025-09-08T00:45:08,625 rnacounter/rnacounter.c:29599:22: note: in expansion of macro ‘__Pyx_PyUnicode_READY’ 2025-09-08T00:45:08,625 29599 | if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) 2025-09-08T00:45:08,625 | ^~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:08,673 rnacounter/rnacounter.c: In function ‘__Pyx_ErrRestore’: 2025-09-08T00:45:08,707 rnacounter/rnacounter.c:29691:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:08,707 29691 | tmp_type = tstate->curexc_type; 2025-09-08T00:45:08,707 | ^~ 2025-09-08T00:45:08,741 rnacounter/rnacounter.c:29692:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:08,741 29692 | tmp_value = tstate->curexc_value; 2025-09-08T00:45:08,741 | ^~ 2025-09-08T00:45:08,775 rnacounter/rnacounter.c:29693:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:08,775 29693 | tmp_tb = tstate->curexc_traceback; 2025-09-08T00:45:08,775 | ^~ 2025-09-08T00:45:08,809 rnacounter/rnacounter.c:29694:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:08,809 29694 | tstate->curexc_type = type; 2025-09-08T00:45:08,809 | ^~ 2025-09-08T00:45:08,843 rnacounter/rnacounter.c:29695:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:08,843 29695 | tstate->curexc_value = value; 2025-09-08T00:45:08,843 | ^~ 2025-09-08T00:45:08,877 rnacounter/rnacounter.c:29696:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:08,877 29696 | tstate->curexc_traceback = tb; 2025-09-08T00:45:08,877 | ^~ 2025-09-08T00:45:08,877 rnacounter/rnacounter.c: In function ‘__Pyx_ErrFetch’: 2025-09-08T00:45:08,911 rnacounter/rnacounter.c:29707:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:08,911 29707 | *type = tstate->curexc_type; 2025-09-08T00:45:08,912 | ^~ 2025-09-08T00:45:08,946 rnacounter/rnacounter.c:29708:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:08,946 29708 | *value = tstate->curexc_value; 2025-09-08T00:45:08,946 | ^~ 2025-09-08T00:45:08,980 rnacounter/rnacounter.c:29709:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:08,981 29709 | *tb = tstate->curexc_traceback; 2025-09-08T00:45:08,981 | ^~ 2025-09-08T00:45:09,016 rnacounter/rnacounter.c:29710:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:09,016 29710 | tstate->curexc_type = 0; 2025-09-08T00:45:09,016 | ^~ 2025-09-08T00:45:09,051 rnacounter/rnacounter.c:29711:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:09,051 29711 | tstate->curexc_value = 0; 2025-09-08T00:45:09,051 | ^~ 2025-09-08T00:45:09,086 rnacounter/rnacounter.c:29712:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:09,086 29712 | tstate->curexc_traceback = 0; 2025-09-08T00:45:09,087 | ^~ 2025-09-08T00:45:09,153 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2025-09-08T00:45:09,202 rnacounter/rnacounter.c:29909:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:09,202 29909 | *type = tstate->exc_type; 2025-09-08T00:45:09,202 | ^~~~~~~~ 2025-09-08T00:45:09,202 | exc_state 2025-09-08T00:45:09,236 rnacounter/rnacounter.c:29910:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:09,236 29910 | *value = tstate->exc_value; 2025-09-08T00:45:09,236 | ^~ 2025-09-08T00:45:09,269 rnacounter/rnacounter.c:29911:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:09,269 29911 | *tb = tstate->exc_traceback; 2025-09-08T00:45:09,270 | ^~ 2025-09-08T00:45:09,270 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2025-09-08T00:45:09,318 rnacounter/rnacounter.c:29923:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:09,318 29923 | tmp_type = tstate->exc_type; 2025-09-08T00:45:09,319 | ^~~~~~~~ 2025-09-08T00:45:09,319 | exc_state 2025-09-08T00:45:09,352 rnacounter/rnacounter.c:29924:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:09,352 29924 | tmp_value = tstate->exc_value; 2025-09-08T00:45:09,352 | ^~ 2025-09-08T00:45:09,386 rnacounter/rnacounter.c:29925:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:09,386 29925 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:45:09,386 | ^~ 2025-09-08T00:45:09,434 rnacounter/rnacounter.c:29926:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:09,434 29926 | tstate->exc_type = type; 2025-09-08T00:45:09,435 | ^~~~~~~~ 2025-09-08T00:45:09,435 | exc_state 2025-09-08T00:45:09,468 rnacounter/rnacounter.c:29927:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:09,468 29927 | tstate->exc_value = value; 2025-09-08T00:45:09,468 | ^~ 2025-09-08T00:45:09,502 rnacounter/rnacounter.c:29928:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:09,502 29928 | tstate->exc_traceback = tb; 2025-09-08T00:45:09,502 | ^~ 2025-09-08T00:45:09,502 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2025-09-08T00:45:09,536 rnacounter/rnacounter.c:29942:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:09,536 29942 | local_type = tstate->curexc_type; 2025-09-08T00:45:09,536 | ^~ 2025-09-08T00:45:09,569 rnacounter/rnacounter.c:29943:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:09,570 29943 | local_value = tstate->curexc_value; 2025-09-08T00:45:09,570 | ^~ 2025-09-08T00:45:09,603 rnacounter/rnacounter.c:29944:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:09,603 29944 | local_tb = tstate->curexc_traceback; 2025-09-08T00:45:09,603 | ^~ 2025-09-08T00:45:09,637 rnacounter/rnacounter.c:29945:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:09,637 29945 | tstate->curexc_type = 0; 2025-09-08T00:45:09,637 | ^~ 2025-09-08T00:45:09,671 rnacounter/rnacounter.c:29946:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:09,671 29946 | tstate->curexc_value = 0; 2025-09-08T00:45:09,671 | ^~ 2025-09-08T00:45:09,704 rnacounter/rnacounter.c:29947:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:09,705 29947 | tstate->curexc_traceback = 0; 2025-09-08T00:45:09,705 | ^~ 2025-09-08T00:45:09,738 rnacounter/rnacounter.c:29953:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:09,738 29953 | if (unlikely(tstate->curexc_type)) 2025-09-08T00:45:09,739 | ^~ 2025-09-08T00:45:09,739 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:45:09,739 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:45:09,739 | ^ 2025-09-08T00:45:09,799 rnacounter/rnacounter.c:29971:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:09,799 29971 | tmp_type = tstate->exc_type; 2025-09-08T00:45:09,799 | ^~~~~~~~ 2025-09-08T00:45:09,799 | exc_state 2025-09-08T00:45:09,833 rnacounter/rnacounter.c:29972:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:09,833 29972 | tmp_value = tstate->exc_value; 2025-09-08T00:45:09,833 | ^~ 2025-09-08T00:45:09,866 rnacounter/rnacounter.c:29973:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:09,867 29973 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:45:09,867 | ^~ 2025-09-08T00:45:09,915 rnacounter/rnacounter.c:29974:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:09,915 29974 | tstate->exc_type = local_type; 2025-09-08T00:45:09,915 | ^~~~~~~~ 2025-09-08T00:45:09,915 | exc_state 2025-09-08T00:45:09,949 rnacounter/rnacounter.c:29975:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:09,949 29975 | tstate->exc_value = local_value; 2025-09-08T00:45:09,949 | ^~ 2025-09-08T00:45:09,983 rnacounter/rnacounter.c:29976:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:09,983 29976 | tstate->exc_traceback = local_tb; 2025-09-08T00:45:09,983 | ^~ 2025-09-08T00:45:10,010 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-08T00:45:10,059 rnacounter/rnacounter.c:30080:22: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-08T00:45:10,059 30080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2025-09-08T00:45:10,059 | ^~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:10,059 | PyDict_GET_SIZE 2025-09-08T00:45:10,170 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2025-09-08T00:45:10,205 rnacounter/rnacounter.c:30306:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:10,205 30306 | PyObject* tmp_tb = tstate->curexc_traceback; 2025-09-08T00:45:10,205 | ^~ 2025-09-08T00:45:10,239 rnacounter/rnacounter.c:30309:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:10,240 30309 | tstate->curexc_traceback = tb; 2025-09-08T00:45:10,240 | ^~ 2025-09-08T00:45:10,297 rnacounter/rnacounter.c: In function ‘__Pyx_PyIter_Next2’: 2025-09-08T00:45:10,331 rnacounter/rnacounter.c:30354:31: error: ‘_PyObject_NextNotImplemented’ undeclared (first use in this function); did you mean ‘PyObject_HashNotImplemented’? 2025-09-08T00:45:10,332 30354 | if (unlikely(iternext == &_PyObject_NextNotImplemented)) 2025-09-08T00:45:10,332 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:10,332 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T00:45:10,332 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T00:45:10,332 | ^ 2025-09-08T00:45:10,377 rnacounter/rnacounter.c: In function ‘__Pyx_IterFinish’: 2025-09-08T00:45:10,412 rnacounter/rnacounter.c:30557:32: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:10,412 30557 | PyObject* exc_type = tstate->curexc_type; 2025-09-08T00:45:10,412 | ^~ 2025-09-08T00:45:10,447 rnacounter/rnacounter.c:30561:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:10,447 30561 | exc_value = tstate->curexc_value; 2025-09-08T00:45:10,447 | ^~ 2025-09-08T00:45:10,481 rnacounter/rnacounter.c:30562:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:10,482 30562 | exc_tb = tstate->curexc_traceback; 2025-09-08T00:45:10,482 | ^~ 2025-09-08T00:45:10,516 rnacounter/rnacounter.c:30563:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T00:45:10,516 30563 | tstate->curexc_type = 0; 2025-09-08T00:45:10,516 | ^~ 2025-09-08T00:45:10,551 rnacounter/rnacounter.c:30564:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T00:45:10,551 30564 | tstate->curexc_value = 0; 2025-09-08T00:45:10,551 | ^~ 2025-09-08T00:45:10,586 rnacounter/rnacounter.c:30565:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T00:45:10,586 30565 | tstate->curexc_traceback = 0; 2025-09-08T00:45:10,586 | ^~ 2025-09-08T00:45:11,073 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2025-09-08T00:45:11,126 rnacounter/rnacounter.c:31909:16: error: implicit declaration of function ‘PyCFunction_Call’; did you mean ‘PyCFunction_New’? [-Wimplicit-function-declaration] 2025-09-08T00:45:11,126 31909 | return PyCFunction_Call(func, arg, kw); 2025-09-08T00:45:11,126 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,126 | PyCFunction_New 2025-09-08T00:45:11,166 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] 2025-09-08T00:45:11,167 31909 | return PyCFunction_Call(func, arg, kw); 2025-09-08T00:45:11,167 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,185 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2025-09-08T00:45:11,236 rnacounter/rnacounter.c:31974:41: error: ‘PyCFunction_Call’ undeclared (first use in this function); did you mean ‘PyCFunction_New’? 2025-09-08T00:45:11,236 31974 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2025-09-08T00:45:11,236 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,237 | PyCFunction_New 2025-09-08T00:45:11,280 rnacounter/rnacounter.c: In function ‘__Pyx_CreateCodeObjectForTraceback’: 2025-09-08T00:45:11,317 rnacounter/rnacounter.c:32150:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T00:45:11,317 32150 | py_code = __Pyx_PyCode_New( 2025-09-08T00:45:11,317 | ^~~~~~~ 2025-09-08T00:45:11,317 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:11,317 213 | PyCode_New( 2025-09-08T00:45:11,317 | ^~~~~~~~~~ 2025-09-08T00:45:11,353 rnacounter/rnacounter.c:32164:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T00:45:11,353 32164 | py_line, 2025-09-08T00:45:11,353 | ^~~~~~~ 2025-09-08T00:45:11,353 | | 2025-09-08T00:45:11,353 | int 2025-09-08T00:45:11,353 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:11,354 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:11,354 | ^~~~~ 2025-09-08T00:45:11,354 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T00:45:11,354 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:11,354 | ~~~~~~~~~~^ 2025-09-08T00:45:11,393 rnacounter/rnacounter.c:32165:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:11,393 32165 | __pyx_empty_bytes /*PyObject *lnotab*/ 2025-09-08T00:45:11,394 | ^~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,394 | | 2025-09-08T00:45:11,394 | PyObject * {aka struct _object *} 2025-09-08T00:45:11,394 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:11,394 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:11,394 | ^~~~ 2025-09-08T00:45:11,394 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T00:45:11,394 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T00:45:11,394 | ~~~~^ 2025-09-08T00:45:11,434 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T00:45:11,434 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T00:45:11,434 | ^~~~~~~~~~ 2025-09-08T00:45:11,434 rnacounter/rnacounter.c:32150:15: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T00:45:11,434 32150 | py_code = __Pyx_PyCode_New( 2025-09-08T00:45:11,434 | ^~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,434 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T00:45:11,435 213 | PyCode_New( 2025-09-08T00:45:11,435 | ^~~~~~~~~~ 2025-09-08T00:45:11,451 rnacounter/rnacounter.c: In function ‘__Pyx_AddTraceback’: 2025-09-08T00:45:11,487 rnacounter/rnacounter.c:32193:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:45:11,487 32193 | py_frame->f_lineno = py_line; 2025-09-08T00:45:11,487 | ^~ 2025-09-08T00:45:11,489 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_int’: 2025-09-08T00:45:11,525 rnacounter/rnacounter.c:32314:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T00:45:11,525 32314 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T00:45:11,525 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,525 In file included from /usr/include/python3.13/longobject.h:107, 2025-09-08T00:45:11,525 from /usr/include/python3.13/Python.h:81: 2025-09-08T00:45:11,525 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T00:45:11,525 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T00:45:11,526 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,570 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_long’: 2025-09-08T00:45:11,607 rnacounter/rnacounter.c:32769:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T00:45:11,607 32769 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T00:45:11,607 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,607 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T00:45:11,607 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T00:45:11,607 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T00:45:11,616 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2025-09-08T00:45:11,670 rnacounter/rnacounter.c:32801:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:11,670 32801 | tmp_type = tstate->exc_type; 2025-09-08T00:45:11,670 | ^~~~~~~~ 2025-09-08T00:45:11,670 | exc_state 2025-09-08T00:45:11,707 rnacounter/rnacounter.c:32802:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:11,708 32802 | tmp_value = tstate->exc_value; 2025-09-08T00:45:11,708 | ^~ 2025-09-08T00:45:11,745 rnacounter/rnacounter.c:32803:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:11,745 32803 | tmp_tb = tstate->exc_traceback; 2025-09-08T00:45:11,745 | ^~ 2025-09-08T00:45:11,799 rnacounter/rnacounter.c:32804:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T00:45:11,799 32804 | tstate->exc_type = *type; 2025-09-08T00:45:11,799 | ^~~~~~~~ 2025-09-08T00:45:11,799 | exc_state 2025-09-08T00:45:11,836 rnacounter/rnacounter.c:32805:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T00:45:11,837 32805 | tstate->exc_value = *value; 2025-09-08T00:45:11,837 | ^~ 2025-09-08T00:45:11,874 rnacounter/rnacounter.c:32806:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T00:45:11,874 32806 | tstate->exc_traceback = *tb; 2025-09-08T00:45:11,874 | ^~ 2025-09-08T00:45:11,876 In file included from /usr/include/python3.13/Python.h:63: 2025-09-08T00:45:11,876 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_SendEx’: 2025-09-08T00:45:11,954 rnacounter/rnacounter.c:32926:30: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T00:45:11,954 32926 | Py_XINCREF(tstate->frame); 2025-09-08T00:45:11,954 | ^~ 2025-09-08T00:45:11,954 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-08T00:45:11,954 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-08T00:45:11,954 | ^~~~ 2025-09-08T00:45:11,955 /usr/include/python3.13/object.h:1041:37: note: in expansion of macro ‘_PyObject_CAST’ 2025-09-08T00:45:11,955 1041 | # define Py_XINCREF(op) Py_XINCREF(_PyObject_CAST(op)) 2025-09-08T00:45:11,955 | ^~~~~~~~~~~~~~ 2025-09-08T00:45:11,955 rnacounter/rnacounter.c:32926:13: note: in expansion of macro ‘Py_XINCREF’ 2025-09-08T00:45:11,955 32926 | Py_XINCREF(tstate->frame); 2025-09-08T00:45:11,955 | ^~~~~~~~~~ 2025-09-08T00:45:11,990 rnacounter/rnacounter.c:32928:14: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:45:11,990 32928 | f->f_back = tstate->frame; 2025-09-08T00:45:11,990 | ^~ 2025-09-08T00:45:12,031 rnacounter/rnacounter.c:32928:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T00:45:12,031 32928 | f->f_back = tstate->frame; 2025-09-08T00:45:12,031 | ^~ 2025-09-08T00:45:12,108 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:45:12,108 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,108 | ^~ 2025-09-08T00:45:12,108 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T00:45:12,108 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T00:45:12,108 | ^~~~ 2025-09-08T00:45:12,108 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:45:12,108 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,108 | ^~~~~~~~ 2025-09-08T00:45:12,148 In file included from /usr/include/python3.13/Python.h:72: 2025-09-08T00:45:12,148 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:45:12,148 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,148 | ^~ 2025-09-08T00:45:12,149 /usr/include/python3.13/object.h:1012:41: note: in definition of macro ‘Py_CLEAR’ 2025-09-08T00:45:12,149 1012 | _Py_TYPEOF(op)* _tmp_op_ptr = &(op); \ 2025-09-08T00:45:12,149 | ^~ 2025-09-08T00:45:12,229 rnacounter/rnacounter.c:32947:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T00:45:12,229 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,229 | ^~ 2025-09-08T00:45:12,229 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T00:45:12,229 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T00:45:12,229 | ^~~~ 2025-09-08T00:45:12,229 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:45:12,230 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,230 | ^~~~~~~~ 2025-09-08T00:45:12,269 /usr/include/python3.13/object.h:1014:25: warning: comparison between pointer and integer 2025-09-08T00:45:12,269 1014 | if (_tmp_old_op != NULL) { \ 2025-09-08T00:45:12,270 | ^~ 2025-09-08T00:45:12,270 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:45:12,270 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,270 | ^~~~~~~~ 2025-09-08T00:45:12,310 /usr/include/python3.13/object.h:1015:26: error: assignment to ‘int’ from ‘void *’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T00:45:12,310 1015 | *_tmp_op_ptr = _Py_NULL; \ 2025-09-08T00:45:12,310 | ^ 2025-09-08T00:45:12,310 rnacounter/rnacounter.c:32947:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T00:45:12,310 32947 | Py_CLEAR(f->f_back); 2025-09-08T00:45:12,310 | ^~~~~~~~ 2025-09-08T00:45:12,906 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-08T00:45:13,077 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T00:45:13,090 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T00:45:13,090 exec(compile('"'"''"'"''"'"' 2025-09-08T00:45:13,090 # This is -- a caller that pip uses to run setup.py 2025-09-08T00:45:13,090 # 2025-09-08T00:45:13,090 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T00:45:13,090 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T00:45:13,090 # - It provides a clear error message when setuptools is not installed. 2025-09-08T00:45:13,090 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T00:45:13,090 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T00:45:13,090 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T00:45:13,090 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T00:45:13,090 import os, sys, tokenize, traceback 2025-09-08T00:45:13,090 2025-09-08T00:45:13,090 try: 2025-09-08T00:45:13,090 import setuptools 2025-09-08T00:45:13,090 except ImportError: 2025-09-08T00:45:13,090 print( 2025-09-08T00:45:13,090 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T00:45:13,090 "the build environment with exception:", 2025-09-08T00:45:13,090 file=sys.stderr, 2025-09-08T00:45:13,090 ) 2025-09-08T00:45:13,090 traceback.print_exc() 2025-09-08T00:45:13,090 sys.exit(1) 2025-09-08T00:45:13,090 2025-09-08T00:45:13,090 __file__ = %r 2025-09-08T00:45:13,090 sys.argv[0] = __file__ 2025-09-08T00:45:13,090 2025-09-08T00:45:13,090 if os.path.exists(__file__): 2025-09-08T00:45:13,090 filename = __file__ 2025-09-08T00:45:13,090 with tokenize.open(__file__) as f: 2025-09-08T00:45:13,090 setup_py_code = f.read() 2025-09-08T00:45:13,090 else: 2025-09-08T00:45:13,090 filename = "" 2025-09-08T00:45:13,090 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T00:45:13,090 2025-09-08T00:45:13,090 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T00:45:13,090 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-8e7yzb6c/rnacounter_0c94b17d39f14b02905697f02519a30e/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-q6a1cgqm[/] 2025-09-08T00:45:13,090 [bold magenta]cwd[/]: /tmp/pip-wheel-8e7yzb6c/rnacounter_0c94b17d39f14b02905697f02519a30e/ 2025-09-08T00:45:13,090 Building wheel for rnacounter (setup.py): finished with status 'error' 2025-09-08T00:45:13,091 ERROR: Failed building wheel for rnacounter 2025-09-08T00:45:13,092 Running setup.py clean for rnacounter 2025-09-08T00:45:13,093 Running command python setup.py clean 2025-09-08T00:45:13,987 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T00:45:13,987 warnings.warn(msg) 2025-09-08T00:45:14,443 running clean 2025-09-08T00:45:14,587 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T00:45:14,587 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T00:45:14,588 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T00:45:14,588 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T00:45:14,588 removing 'build' 2025-09-08T00:45:14,724 Failed to build rnacounter 2025-09-08T00:45:14,725 ERROR: Failed to build one or more wheels 2025-09-08T00:45:14,726 Exception information: 2025-09-08T00:45:14,726 Traceback (most recent call last): 2025-09-08T00:45:14,726 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T00:45:14,726 status = _inner_run() 2025-09-08T00:45:14,726 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T00:45:14,726 return self.run(options, args) 2025-09-08T00:45:14,726 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T00:45:14,726 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T00:45:14,726 return func(self, options, args) 2025-09-08T00:45:14,726 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T00:45:14,726 raise CommandError("Failed to build one or more wheels") 2025-09-08T00:45:14,726 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T00:45:14,730 Removed build tracker: '/tmp/pip-build-tracker-8fvu207i'