2025-09-08T01:08:11,786 Created temporary directory: /tmp/pip-build-tracker-j3tzjj52 2025-09-08T01:08:11,787 Initialized build tracking at /tmp/pip-build-tracker-j3tzjj52 2025-09-08T01:08:11,787 Created build tracker: /tmp/pip-build-tracker-j3tzjj52 2025-09-08T01:08:11,787 Entered build tracker: /tmp/pip-build-tracker-j3tzjj52 2025-09-08T01:08:11,787 Created temporary directory: /tmp/pip-wheel-wniar5q9 2025-09-08T01:08:11,791 Created temporary directory: /tmp/pip-ephem-wheel-cache-64yz3lee 2025-09-08T01:08:11,848 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T01:08:11,850 2 location(s) to search for versions of rnacounter: 2025-09-08T01:08:11,850 * https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:11,850 * https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:11,851 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:11,851 Getting page https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:11,852 Found index url https://pypi.org/simple/ 2025-09-08T01:08:11,922 Fetched page https://pypi.org/simple/rnacounter/ as application/vnd.pypi.simple.v1+json 2025-09-08T01:08:11,924 Found link https://files.pythonhosted.org/packages/8f/49/762bb78c6a1215e30ccd9702444375015a50b14847266db0c2f11219e78f/rnacounter-1.1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.2 2025-09-08T01:08:11,924 Found link https://files.pythonhosted.org/packages/04/c4/e2924af98cbf63c98cc5a9d210c3c54d959cf961fba4df5da3972afc84ae/rnacounter-1.1.3.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.1 2025-09-08T01:08:11,925 Found link https://files.pythonhosted.org/packages/39/70/41efc4ca6703ffdbdbab1dcd66976ed9a30c363b6f5ba417501e2dd9fb00/rnacounter-1.1.3.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.2 2025-09-08T01:08:11,925 Found link https://files.pythonhosted.org/packages/b1/1c/9f8deaa78b994019b9024043168567099fe010c79018373e2f6ed60ea646/rnacounter-1.1.3.7.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.7 2025-09-08T01:08:11,925 Found link https://files.pythonhosted.org/packages/14/a1/be9b12f40d130b182ed0d5d01b36f76e6089805a5c945d77941f5eb0928e/rnacounter-1.1.3.10.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.1.3.10 2025-09-08T01:08:11,925 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2 2025-09-08T01:08:11,925 Found link https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2.1 2025-09-08T01:08:11,926 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3 2025-09-08T01:08:11,926 Found link https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3.1 2025-09-08T01:08:11,926 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4 2025-09-08T01:08:11,926 Found link https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4.1 2025-09-08T01:08:11,926 Found link https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4.2 2025-09-08T01:08:11,927 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5 2025-09-08T01:08:11,927 Found link https://files.pythonhosted.org/packages/a2/ea/657e7b7aa7d777173695606509933b52d794b7dbb79501a87bfea2fb511f/rnacounter-1.5.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5.2 2025-09-08T01:08:11,927 Fetching project page and analyzing links: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:11,927 Getting page https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:11,928 Found index url https://www.piwheels.org/simple/ 2025-09-08T01:08:12,019 Fetched page https://www.piwheels.org/simple/rnacounter/ as text/html 2025-09-08T01:08:12,030 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp35-cp35m-linux_armv7l.whl#sha256=1720939a09d8fbca466729cc4db98be3526fe7a3283ce22ef5c5a21d204a6161 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,030 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp35-cp35m-linux_armv6l.whl#sha256=1720939a09d8fbca466729cc4db98be3526fe7a3283ce22ef5c5a21d204a6161 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,030 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp34-cp34m-linux_armv7l.whl#sha256=e384cbf3852a44dffbf3a6887901acb36b9b30bd5c7e1a3585b2fe39d868d67a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,030 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5.2-cp34-cp34m-linux_armv6l.whl#sha256=e384cbf3852a44dffbf3a6887901acb36b9b30bd5c7e1a3585b2fe39d868d67a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,030 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp35-cp35m-linux_armv7l.whl#sha256=02c416ec8854b92c815224212889f47dbd376e9797f66a0fb19531508b6bc793 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp35-cp35m-linux_armv6l.whl#sha256=02c416ec8854b92c815224212889f47dbd376e9797f66a0fb19531508b6bc793 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp34-cp34m-linux_armv7l.whl#sha256=ee88d3438f69ffa3b1868868fce8191565f303aee8dd3ff0f34c3a62886a495c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.5-cp34-cp34m-linux_armv6l.whl#sha256=ee88d3438f69ffa3b1868868fce8191565f303aee8dd3ff0f34c3a62886a495c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp34-cp34m-linux_armv7l.whl#sha256=078f497ded7b5492884f2136fa32e9948422bd185ba0345389b2b0d9fa7ab06e (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp34-cp34m-linux_armv6l.whl#sha256=078f497ded7b5492884f2136fa32e9948422bd185ba0345389b2b0d9fa7ab06e (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp35-cp35m-linux_armv6l.whl#sha256=8dffc574db1608136d619621a8809fb0e4d5d3f830e30f94cc2567f4b0a72c55 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,031 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.2-cp35-cp35m-linux_armv7l.whl#sha256=8dffc574db1608136d619621a8809fb0e4d5d3f830e30f94cc2567f4b0a72c55 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp35-cp35m-linux_armv7l.whl#sha256=35acff814eef7a87f368a8ed7c27f0be20add0cd4a9b4aa8ca756d84f216f218 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp35-cp35m-linux_armv6l.whl#sha256=35acff814eef7a87f368a8ed7c27f0be20add0cd4a9b4aa8ca756d84f216f218 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp34-cp34m-linux_armv7l.whl#sha256=627ec3e6dccdbc30b6697dd277204e300f58ecc971782b1231b09d84a4c1ef94 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4.1-cp34-cp34m-linux_armv6l.whl#sha256=627ec3e6dccdbc30b6697dd277204e300f58ecc971782b1231b09d84a4c1ef94 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp34-cp34m-linux_armv7l.whl#sha256=9213623d552d14ff1971589aae10e5f886bcfb42045418cc5871a76607eb25b7 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp34-cp34m-linux_armv6l.whl#sha256=9213623d552d14ff1971589aae10e5f886bcfb42045418cc5871a76607eb25b7 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,032 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp35-cp35m-linux_armv6l.whl#sha256=14bd0bb3f4379d3d334abacfbbbf7ed43ad60736fa69f394c1eda0385dac9193 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.4-cp35-cp35m-linux_armv7l.whl#sha256=14bd0bb3f4379d3d334abacfbbbf7ed43ad60736fa69f394c1eda0385dac9193 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3.1-cp35-cp35m-linux_armv6l.whl#sha256=a5e2657cda5fa5a9283a186329fadd8db71987a54d71f713970a85b732030278 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3.1-cp35-cp35m-linux_armv7l.whl#sha256=a5e2657cda5fa5a9283a186329fadd8db71987a54d71f713970a85b732030278 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp35-cp35m-linux_armv6l.whl#sha256=b0a053ced5ce83115199785a117fc7820b20daffef5c19acafc83d0425aca0e1 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp35-cp35m-linux_armv7l.whl#sha256=b0a053ced5ce83115199785a117fc7820b20daffef5c19acafc83d0425aca0e1 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp34-cp34m-linux_armv7l.whl#sha256=7d3a7695b9d615f45d66d1d00f595ec7b65bbc53dc4ef98292fe909a75adf063 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,033 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.3-cp34-cp34m-linux_armv6l.whl#sha256=7d3a7695b9d615f45d66d1d00f595ec7b65bbc53dc4ef98292fe909a75adf063 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp35-cp35m-linux_armv7l.whl#sha256=b963649459fb2ab742b717d9b68c590d8ce6333d770e20648104b1e30b3ea97c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp35-cp35m-linux_armv6l.whl#sha256=b963649459fb2ab742b717d9b68c590d8ce6333d770e20648104b1e30b3ea97c (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp34-cp34m-linux_armv7l.whl#sha256=2179418dc1805676ef1838a927c0bbcc2a131b63bd87636aecec3fa865b161d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2.1-cp34-cp34m-linux_armv6l.whl#sha256=2179418dc1805676ef1838a927c0bbcc2a131b63bd87636aecec3fa865b161d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp34-cp34m-linux_armv7l.whl#sha256=8ed62342f5d7481f7393010ff34b0286db7f26ea914710a1f81e583b478bb68a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp34-cp34m-linux_armv6l.whl#sha256=8ed62342f5d7481f7393010ff34b0286db7f26ea914710a1f81e583b478bb68a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp35-cp35m-linux_armv7l.whl#sha256=6271c54eb4c54d72f9499294fc50f1644dbd248414d993f053106a876d2e9400 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,034 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.2-cp35-cp35m-linux_armv6l.whl#sha256=6271c54eb4c54d72f9499294fc50f1644dbd248414d993f053106a876d2e9400 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,035 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.10-cp34-cp34m-linux_armv7l.whl#sha256=c27c6c537f58aaa7ad6d853e9791f08485abe8fd219501a30647ef13d19a633a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,035 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.10-cp34-cp34m-linux_armv6l.whl#sha256=c27c6c537f58aaa7ad6d853e9791f08485abe8fd219501a30647ef13d19a633a (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,035 Skipping link: No binaries permitted for rnacounter: 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https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp35-cp35m-linux_armv6l.whl#sha256=8863095125d87f061f7651061bc503fbb2c1c613417b578294b555b7bcbdeeba (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,035 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp34-cp34m-linux_armv7l.whl#sha256=368b4bcbb3bbab49c3600537626272135f936e694d4d17911afd7d83cdb31ee6 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.7-cp34-cp34m-linux_armv6l.whl#sha256=368b4bcbb3bbab49c3600537626272135f936e694d4d17911afd7d83cdb31ee6 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp34-cp34m-linux_armv7l.whl#sha256=fb039ca19afdc360ee5843812cf53fbca3ac952fe26a759e4c3700f3b460fc48 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp34-cp34m-linux_armv6l.whl#sha256=fb039ca19afdc360ee5843812cf53fbca3ac952fe26a759e4c3700f3b460fc48 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp35-cp35m-linux_armv7l.whl#sha256=51ed8c80ea67e82dc8bdaf5636d930011f8ce97bd9cc30432eedabb4dc8c9c95 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.2-cp35-cp35m-linux_armv6l.whl#sha256=51ed8c80ea67e82dc8bdaf5636d930011f8ce97bd9cc30432eedabb4dc8c9c95 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp35-cp35m-linux_armv7l.whl#sha256=534e0f91ccc8a7b74d0e8966764195b4b7e008408e132f2714d3790552ffae89 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp35-cp35m-linux_armv6l.whl#sha256=534e0f91ccc8a7b74d0e8966764195b4b7e008408e132f2714d3790552ffae89 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,036 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp34-cp34m-linux_armv7l.whl#sha256=699103109ceb69845e93941543cff532f3d26934d4a5ceb71af07f8f0c972407 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.3.1-cp34-cp34m-linux_armv6l.whl#sha256=699103109ceb69845e93941543cff532f3d26934d4a5ceb71af07f8f0c972407 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp34-cp34m-linux_armv7l.whl#sha256=e9936c67b8b3ee724e15ef197fef27eb2f5516ba9e9681ca399c5914b4fa01d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp34-cp34m-linux_armv6l.whl#sha256=e9936c67b8b3ee724e15ef197fef27eb2f5516ba9e9681ca399c5914b4fa01d9 (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp35-cp35m-linux_armv6l.whl#sha256=edb76e1344212be1373b20323904b92e0429f1b336a75b9b74a852152217fbab (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: No binaries permitted for rnacounter: https://archive1.piwheels.org/simple/rnacounter/rnacounter-1.1.2-cp35-cp35m-linux_armv7l.whl#sha256=edb76e1344212be1373b20323904b92e0429f1b336a75b9b74a852152217fbab (from https://www.piwheels.org/simple/rnacounter/) 2025-09-08T01:08:12,037 Skipping link: not a file: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:12,037 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:12,061 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2025-09-08T01:08:12,062 Collecting rnacounter==1.4.1 2025-09-08T01:08:12,063 Created temporary directory: /tmp/pip-unpack-f3axpzhg 2025-09-08T01:08:12,210 Downloading rnacounter-1.4.1.tar.gz (301 kB) 2025-09-08T01:08:12,300 Added rnacounter==1.4.1 from https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz to build tracker '/tmp/pip-build-tracker-j3tzjj52' 2025-09-08T01:08:12,301 Running setup.py (path:/tmp/pip-wheel-wniar5q9/rnacounter_04f7123f5e924fa58d9d3e9bb146f78e/setup.py) egg_info for package rnacounter 2025-09-08T01:08:12,301 Created temporary directory: /tmp/pip-pip-egg-info-jli_sb9l 2025-09-08T01:08:12,301 Preparing metadata (setup.py): started 2025-09-08T01:08:12,302 Running command python setup.py egg_info 2025-09-08T01:08:13,245 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:13,246 warnings.warn(msg) 2025-09-08T01:08:13,718 running egg_info 2025-09-08T01:08:13,790 creating /tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info 2025-09-08T01:08:13,791 writing /tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/PKG-INFO 2025-09-08T01:08:13,792 writing dependency_links to /tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/dependency_links.txt 2025-09-08T01:08:13,793 writing requirements to /tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/requires.txt 2025-09-08T01:08:13,793 writing top-level names to /tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/top_level.txt 2025-09-08T01:08:13,793 writing manifest file '/tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:14,164 reading manifest file '/tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:14,164 reading manifest template 'MANIFEST.in' 2025-09-08T01:08:14,169 writing manifest file '/tmp/pip-pip-egg-info-jli_sb9l/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:14,306 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T01:08:14,311 Source in /tmp/pip-wheel-wniar5q9/rnacounter_04f7123f5e924fa58d9d3e9bb146f78e has version 1.4.1, which satisfies requirement rnacounter==1.4.1 from https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz 2025-09-08T01:08:14,311 Removed rnacounter==1.4.1 from https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz from build tracker '/tmp/pip-build-tracker-j3tzjj52' 2025-09-08T01:08:14,316 Created temporary directory: /tmp/pip-unpack-inmxy6fh 2025-09-08T01:08:14,316 Created temporary directory: /tmp/pip-unpack-g_immx_4 2025-09-08T01:08:14,317 Building wheels for collected packages: rnacounter 2025-09-08T01:08:14,318 Created temporary directory: /tmp/pip-wheel-y9hecv0v 2025-09-08T01:08:14,319 DEPRECATION: Building 'rnacounter' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'rnacounter'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T01:08:14,320 Building wheel for rnacounter (setup.py): started 2025-09-08T01:08:14,321 Destination directory: /tmp/pip-wheel-y9hecv0v 2025-09-08T01:08:14,321 Running command python setup.py bdist_wheel 2025-09-08T01:08:15,224 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:15,224 warnings.warn(msg) 2025-09-08T01:08:15,612 running bdist_wheel 2025-09-08T01:08:15,978 running build 2025-09-08T01:08:15,979 running build_py 2025-09-08T01:08:16,056 creating build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,056 copying rnacounter/setup.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,057 copying rnacounter/main.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,058 copying rnacounter/draft_nocython.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,058 copying rnacounter/__init__.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,059 creating build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:16,059 copying testfiles/__init__.py -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:16,060 running egg_info 2025-09-08T01:08:16,134 writing rnacounter.egg-info/PKG-INFO 2025-09-08T01:08:16,136 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2025-09-08T01:08:16,136 writing requirements to rnacounter.egg-info/requires.txt 2025-09-08T01:08:16,137 writing top-level names to rnacounter.egg-info/top_level.txt 2025-09-08T01:08:16,214 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:16,216 reading manifest template 'MANIFEST.in' 2025-09-08T01:08:16,220 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:16,222 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,229 copying testfiles/gapdhKO.bam -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:16,230 copying testfiles/gapdhKO.bam.bai -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:16,231 copying testfiles/mm9_3genes_renamed.gtf -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:16,232 running build_ext 2025-09-08T01:08:16,585 building 'rnacounter/rnacounter' extension 2025-09-08T01:08:16,586 creating build/temp.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:16,586 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/local/lib/python3.13/dist-packages/numpy/_core/include -I/usr/include/python3.13 -c rnacounter/rnacounter.c -o build/temp.linux-armv7l-cpython-313/rnacounter/rnacounter.o 2025-09-08T01:08:17,021 rnacounter/rnacounter.c: In function ‘__Pyx_ListComp_Append’: 2025-09-08T01:08:17,021 rnacounter/rnacounter.c:1341:23: error: lvalue required as left operand of assignment 2025-09-08T01:08:17,021 1341 | Py_SIZE(list) = len+1; 2025-09-08T01:08:17,022 | ^ 2025-09-08T01:08:17,022 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Append’: 2025-09-08T01:08:17,023 rnacounter/rnacounter.c:1406:23: error: lvalue required as left operand of assignment 2025-09-08T01:08:17,023 1406 | Py_SIZE(list) = len+1; 2025-09-08T01:08:17,023 | ^ 2025-09-08T01:08:17,031 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Extend’: 2025-09-08T01:08:17,032 rnacounter/rnacounter.c:1463:22: error: implicit declaration of function ‘_PyList_Extend’; did you mean ‘PyList_Extend’? [-Wimplicit-function-declaration] 2025-09-08T01:08:17,032 1463 | PyObject* none = _PyList_Extend((PyListObject*)L, v); 2025-09-08T01:08:17,032 | ^~~~~~~~~~~~~~ 2025-09-08T01:08:17,032 | PyList_Extend 2025-09-08T01:08:17,032 rnacounter/rnacounter.c:1463:22: error: initialization of ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:17,091 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_2parse_bed’: 2025-09-08T01:08:17,095 rnacounter/rnacounter.c:4159:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:17,095 4159 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:17,095 | ^~ 2025-09-08T01:08:17,095 In file included from /usr/include/python3.13/Python.h:76, 2025-09-08T01:08:17,095 from rnacounter/rnacounter.c:16: 2025-09-08T01:08:17,096 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:17,096 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:17,096 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:17,141 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_4join’: 2025-09-08T01:08:17,146 rnacounter/rnacounter.c:5394:9: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:17,146 5394 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:17,146 | ^~ 2025-09-08T01:08:17,147 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:17,147 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:17,147 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,162 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_16parse_args’: 2025-09-08T01:08:18,187 rnacounter/rnacounter.c:22604:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,188 22604 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:18,188 | ^~ 2025-09-08T01:08:18,188 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:18,188 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:18,188 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,215 rnacounter/rnacounter.c:22653:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,215 22653 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:18,215 | ^~ 2025-09-08T01:08:18,215 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:18,215 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:18,215 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,257 rnacounter/rnacounter.c:22789:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,257 22789 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:18,257 | ^~ 2025-09-08T01:08:18,258 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:18,258 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:18,258 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,369 rnacounter/rnacounter.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-08T01:08:18,408 rnacounter/rnacounter.c:23795:50: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-08T01:08:18,408 23795 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:08:18,408 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,408 | PyBUF_C_CONTIGUOUS 2025-09-08T01:08:18,411 rnacounter/rnacounter.c:23795:50: note: each undeclared identifier is reported only once for each function it appears in 2025-09-08T01:08:18,471 rnacounter/rnacounter.c:23835:50: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-08T01:08:18,472 23835 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:08:18,472 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,472 | PyBUF_F_CONTIGUOUS 2025-09-08T01:08:18,479 rnacounter/rnacounter.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-08T01:08:18,507 rnacounter/rnacounter.c:24841:29: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:08:18,507 24841 | if (unlikely(__pyx_v_descr->names == Py_None)) { 2025-09-08T01:08:18,507 | ^~ 2025-09-08T01:08:18,507 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:18,508 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:18,508 | ^ 2025-09-08T01:08:18,540 rnacounter/rnacounter.c:24845:28: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:08:18,540 24845 | __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0; 2025-09-08T01:08:18,540 | ^~ 2025-09-08T01:08:18,575 rnacounter/rnacounter.c:24863:47: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-08T01:08:18,575 24863 | __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(__pyx_t_3 == NULL)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; 2025-09-08T01:08:18,575 | ^~ 2025-09-08T01:08:18,625 rnacounter/rnacounter.c:25044:79: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-08T01:08:18,625 25044 | (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize); 2025-09-08T01:08:18,626 | ^~ 2025-09-08T01:08:18,674 rnacounter/rnacounter.c: In function ‘__pyx_tp_dealloc_10rnacounter_10rnacounter_GenomicObject’: 2025-09-08T01:08:18,703 rnacounter/rnacounter.c:25672:45: error: implicit declaration of function ‘_PyGC_FINALIZED’ [-Wimplicit-function-declaration] 2025-09-08T01:08:18,703 25672 | if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { 2025-09-08T01:08:18,703 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,806 rnacounter/rnacounter.c: In function ‘__Pyx_InitCachedConstants’: 2025-09-08T01:08:18,839 rnacounter/rnacounter.c:29392:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,839 29392 | __pyx_codeobj__69 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__68, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__69)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:18,839 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,840 In file included from /usr/include/python3.13/Python.h:101: 2025-09-08T01:08:18,840 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:18,840 213 | PyCode_New( 2025-09-08T01:08:18,840 | ^~~~~~~~~~ 2025-09-08T01:08:18,877 rnacounter/rnacounter.c:29392:243: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:18,877 29392 | __pyx_codeobj__69 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__68, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__69)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:18,877 | ^~ 2025-09-08T01:08:18,877 | | 2025-09-08T01:08:18,877 | int 2025-09-08T01:08:18,877 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:18,877 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:18,877 | ^~~~~ 2025-09-08T01:08:18,877 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:18,878 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:18,878 | ~~~~~~~~~~^ 2025-09-08T01:08:18,914 rnacounter/rnacounter.c:29392:247: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:18,914 29392 | __pyx_codeobj__69 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__68, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__69)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:18,914 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,914 | | 2025-09-08T01:08:18,914 | PyObject * {aka struct _object *} 2025-09-08T01:08:18,914 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:18,914 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:18,915 | ^~~~ 2025-09-08T01:08:18,915 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:18,915 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:18,915 | ~~~~^ 2025-09-08T01:08:18,951 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:18,951 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:18,951 | ^~~~~~~~~~ 2025-09-08T01:08:18,951 rnacounter/rnacounter.c:29392:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:18,951 29392 | __pyx_codeobj__69 = (PyObject*)__Pyx_PyCode_New(2, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__68, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_gtf, 68, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__69)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:18,951 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,952 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:18,952 213 | PyCode_New( 2025-09-08T01:08:18,952 | ^~~~~~~~~~ 2025-09-08T01:08:18,985 rnacounter/rnacounter.c:29404:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,985 29404 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:18,985 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:18,985 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:18,985 213 | PyCode_New( 2025-09-08T01:08:18,985 | ^~~~~~~~~~ 2025-09-08T01:08:19,022 rnacounter/rnacounter.c:29404:244: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,022 29404 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,022 | ^~ 2025-09-08T01:08:19,022 | | 2025-09-08T01:08:19,022 | int 2025-09-08T01:08:19,022 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,022 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,022 | ^~~~~ 2025-09-08T01:08:19,023 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,023 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,023 | ~~~~~~~~~~^ 2025-09-08T01:08:19,059 rnacounter/rnacounter.c:29404:248: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,059 29404 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,059 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,059 | | 2025-09-08T01:08:19,059 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,059 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,060 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,060 | ^~~~ 2025-09-08T01:08:19,060 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,060 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,060 | ~~~~^ 2025-09-08T01:08:19,096 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,096 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,096 | ^~~~~~~~~~ 2025-09-08T01:08:19,096 rnacounter/rnacounter.c:29404:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,097 29404 | __pyx_codeobj__71 = (PyObject*)__Pyx_PyCode_New(2, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__70, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_bed, 88, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__71)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,097 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,097 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,097 213 | PyCode_New( 2025-09-08T01:08:19,097 | ^~~~~~~~~~ 2025-09-08T01:08:19,130 rnacounter/rnacounter.c:29416:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,130 29416 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 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_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,130 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,130 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,130 213 | PyCode_New( 2025-09-08T01:08:19,130 | ^~~~~~~~~~ 2025-09-08T01:08:19,167 rnacounter/rnacounter.c:29416:239: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,167 29416 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 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_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,167 | ^~~ 2025-09-08T01:08:19,167 | | 2025-09-08T01:08:19,167 | int 2025-09-08T01:08:19,167 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,167 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,168 | ^~~~~ 2025-09-08T01:08:19,168 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,168 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,168 | ~~~~~~~~~~^ 2025-09-08T01:08:19,204 rnacounter/rnacounter.c:29416:244: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,204 29416 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 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_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,204 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,204 | | 2025-09-08T01:08:19,205 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,205 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,205 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,205 | ^~~~ 2025-09-08T01:08:19,205 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,205 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,205 | ~~~~^ 2025-09-08T01:08:19,241 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,242 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,242 | ^~~~~~~~~~ 2025-09-08T01:08:19,242 rnacounter/rnacounter.c:29416:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,242 29416 | __pyx_codeobj__73 = (PyObject*)__Pyx_PyCode_New(1, 0, 18, 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_join, 113, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__73)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,242 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,242 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,242 213 | PyCode_New( 2025-09-08T01:08:19,242 | ^~~~~~~~~~ 2025-09-08T01:08:19,275 rnacounter/rnacounter.c:29428:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,276 29428 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(4, 0, 55, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 584, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 584; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,276 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,276 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,276 213 | PyCode_New( 2025-09-08T01:08:19,276 | ^~~~~~~~~~ 2025-09-08T01:08:19,313 rnacounter/rnacounter.c:29428:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,313 29428 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(4, 0, 55, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 584, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 584; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,313 | ^~~ 2025-09-08T01:08:19,313 | | 2025-09-08T01:08:19,313 | int 2025-09-08T01:08:19,313 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,313 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,313 | ^~~~~ 2025-09-08T01:08:19,313 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,314 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,314 | ~~~~~~~~~~^ 2025-09-08T01:08:19,350 rnacounter/rnacounter.c:29428:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,350 29428 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(4, 0, 55, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 584, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 584; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,350 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,350 | | 2025-09-08T01:08:19,350 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,350 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,351 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,351 | ^~~~ 2025-09-08T01:08:19,351 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,351 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,351 | ~~~~^ 2025-09-08T01:08:19,387 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,387 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,387 | ^~~~~~~~~~ 2025-09-08T01:08:19,387 rnacounter/rnacounter.c:29428:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,387 29428 | __pyx_codeobj__75 = (PyObject*)__Pyx_PyCode_New(4, 0, 55, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__74, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_process_chunk, 584, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__75)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 584; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,388 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,388 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,388 213 | PyCode_New( 2025-09-08T01:08:19,388 | ^~~~~~~~~~ 2025-09-08T01:08:19,421 rnacounter/rnacounter.c:29440:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,421 29440 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,421 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,421 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,421 213 | PyCode_New( 2025-09-08T01:08:19,421 | ^~~~~~~~~~ 2025-09-08T01:08:19,458 rnacounter/rnacounter.c:29440:247: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,458 29440 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,458 | ^~~ 2025-09-08T01:08:19,458 | | 2025-09-08T01:08:19,458 | int 2025-09-08T01:08:19,459 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,459 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,459 | ^~~~~ 2025-09-08T01:08:19,459 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,459 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,459 | ~~~~~~~~~~^ 2025-09-08T01:08:19,495 rnacounter/rnacounter.c:29440:252: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,495 29440 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,495 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,496 | | 2025-09-08T01:08:19,496 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,496 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,496 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,496 | ^~~~ 2025-09-08T01:08:19,496 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,496 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,496 | ~~~~^ 2025-09-08T01:08:19,532 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,533 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,533 | ^~~~~~~~~~ 2025-09-08T01:08:19,533 rnacounter/rnacounter.c:29440:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,533 29440 | __pyx_codeobj__77 = (PyObject*)__Pyx_PyCode_New(7, 0, 14, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__76, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_print_output, 719, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__77)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 719; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,533 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,533 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,533 213 | PyCode_New( 2025-09-08T01:08:19,533 | ^~~~~~~~~~ 2025-09-08T01:08:19,566 rnacounter/rnacounter.c:29452:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,566 29452 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__79, __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__80)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,566 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,567 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,567 213 | PyCode_New( 2025-09-08T01:08:19,567 | ^~~~~~~~~~ 2025-09-08T01:08:19,603 rnacounter/rnacounter.c:29452:250: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,604 29452 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__79, __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__80)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,604 | ^~~ 2025-09-08T01:08:19,604 | | 2025-09-08T01:08:19,604 | int 2025-09-08T01:08:19,604 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,604 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,604 | ^~~~~ 2025-09-08T01:08:19,604 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,604 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,604 | ~~~~~~~~~~^ 2025-09-08T01:08:19,641 rnacounter/rnacounter.c:29452:255: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,641 29452 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__79, __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__80)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,641 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,641 | | 2025-09-08T01:08:19,641 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,641 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,641 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,641 | ^~~~ 2025-09-08T01:08:19,642 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,642 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,642 | ~~~~^ 2025-09-08T01:08:19,678 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,678 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,678 | ^~~~~~~~~~ 2025-09-08T01:08:19,678 rnacounter/rnacounter.c:29452:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,678 29452 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 25, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__79, __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__80)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 739; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,678 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,679 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,679 213 | PyCode_New( 2025-09-08T01:08:19,679 | ^~~~~~~~~~ 2025-09-08T01:08:19,711 rnacounter/rnacounter.c:29461:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,712 29461 | __pyx_codeobj__81 = (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, 833, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 833; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,712 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,712 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,712 213 | PyCode_New( 2025-09-08T01:08:19,712 | ^~~~~~~~~~ 2025-09-08T01:08:19,749 rnacounter/rnacounter.c:29461:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,749 29461 | __pyx_codeobj__81 = (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, 833, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 833; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,749 | ^~~ 2025-09-08T01:08:19,749 | | 2025-09-08T01:08:19,749 | int 2025-09-08T01:08:19,749 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,749 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,749 | ^~~~~ 2025-09-08T01:08:19,750 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,750 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,750 | ~~~~~~~~~~^ 2025-09-08T01:08:19,786 rnacounter/rnacounter.c:29461:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,786 29461 | __pyx_codeobj__81 = (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, 833, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 833; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,786 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,786 | | 2025-09-08T01:08:19,786 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,787 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,787 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,787 | ^~~~ 2025-09-08T01:08:19,787 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,787 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,787 | ~~~~^ 2025-09-08T01:08:19,823 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,823 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,824 | ^~~~~~~~~~ 2025-09-08T01:08:19,824 rnacounter/rnacounter.c:29461:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,824 29461 | __pyx_codeobj__81 = (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, 833, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 833; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,824 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,824 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,824 213 | PyCode_New( 2025-09-08T01:08:19,824 | ^~~~~~~~~~ 2025-09-08T01:08:19,857 rnacounter/rnacounter.c:29473:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,857 29473 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__82, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 836, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 836; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,857 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,857 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,857 213 | PyCode_New( 2025-09-08T01:08:19,858 | ^~~~~~~~~~ 2025-09-08T01:08:19,894 rnacounter/rnacounter.c:29473:240: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:19,894 29473 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__82, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 836, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 836; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,894 | ^~~ 2025-09-08T01:08:19,895 | | 2025-09-08T01:08:19,895 | int 2025-09-08T01:08:19,895 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,895 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,895 | ^~~~~ 2025-09-08T01:08:19,895 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:19,895 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,895 | ~~~~~~~~~~^ 2025-09-08T01:08:19,931 rnacounter/rnacounter.c:29473:245: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:19,932 29473 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__82, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 836, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 836; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,932 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,932 | | 2025-09-08T01:08:19,932 | PyObject * {aka struct _object *} 2025-09-08T01:08:19,932 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,932 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,932 | ^~~~ 2025-09-08T01:08:19,932 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:19,932 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:19,933 | ~~~~^ 2025-09-08T01:08:19,969 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:19,969 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:19,969 | ^~~~~~~~~~ 2025-09-08T01:08:19,969 rnacounter/rnacounter.c:29473:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:19,969 29473 | __pyx_codeobj__83 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__82, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_errmsg, 836, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 836; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:19,969 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:19,970 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:19,970 213 | PyCode_New( 2025-09-08T01:08:19,970 | ^~~~~~~~~~ 2025-09-08T01:08:20,003 rnacounter/rnacounter.c:29485:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:20,003 29485 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 840, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 840; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:20,003 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,003 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,003 213 | PyCode_New( 2025-09-08T01:08:20,003 | ^~~~~~~~~~ 2025-09-08T01:08:20,040 rnacounter/rnacounter.c:29485:245: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:20,040 29485 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 840, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 840; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:20,040 | ^~~ 2025-09-08T01:08:20,040 | | 2025-09-08T01:08:20,040 | int 2025-09-08T01:08:20,040 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,040 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,040 | ^~~~~ 2025-09-08T01:08:20,041 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:20,041 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,041 | ~~~~~~~~~~^ 2025-09-08T01:08:20,077 rnacounter/rnacounter.c:29485:250: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:20,077 29485 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 840, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 840; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:20,077 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,077 | | 2025-09-08T01:08:20,078 | PyObject * {aka struct _object *} 2025-09-08T01:08:20,078 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,078 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,078 | ^~~~ 2025-09-08T01:08:20,078 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:20,078 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,078 | ~~~~^ 2025-09-08T01:08:20,114 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:20,115 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,115 | ^~~~~~~~~~ 2025-09-08T01:08:20,115 rnacounter/rnacounter.c:29485:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,115 29485 | __pyx_codeobj__85 = (PyObject*)__Pyx_PyCode_New(1, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__84, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_Users_delafont_repos_rnacounter, __pyx_n_s_parse_args, 840, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 840; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:20,115 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,115 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,115 213 | PyCode_New( 2025-09-08T01:08:20,115 | ^~~~~~~~~~ 2025-09-08T01:08:20,118 rnacounter/rnacounter.c: In function ‘PyInit_rnacounter’: 2025-09-08T01:08:20,152 rnacounter/rnacounter.c:29589:53: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,152 29589 | __pyx_type_10rnacounter_10rnacounter_GenomicObject.tp_print = 0; 2025-09-08T01:08:20,152 | ^ 2025-09-08T01:08:20,186 rnacounter/rnacounter.c:29606:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,186 29606 | __pyx_type_10rnacounter_10rnacounter_Exon.tp_print = 0; 2025-09-08T01:08:20,186 | ^ 2025-09-08T01:08:20,220 rnacounter/rnacounter.c:29612:50: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,220 29612 | __pyx_type_10rnacounter_10rnacounter_Transcript.tp_print = 0; 2025-09-08T01:08:20,220 | ^ 2025-09-08T01:08:20,254 rnacounter/rnacounter.c:29617:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,254 29617 | __pyx_type_10rnacounter_10rnacounter_Gene.tp_print = 0; 2025-09-08T01:08:20,254 | ^ 2025-09-08T01:08:20,288 rnacounter/rnacounter.c:29621:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,288 29621 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct__parse_gtf.tp_print = 0; 2025-09-08T01:08:20,288 | ^ 2025-09-08T01:08:20,322 rnacounter/rnacounter.c:29624:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,322 29624 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_1_genexpr.tp_print = 0; 2025-09-08T01:08:20,322 | ^ 2025-09-08T01:08:20,356 rnacounter/rnacounter.c:29627:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,356 29627 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_2_genexpr.tp_print = 0; 2025-09-08T01:08:20,356 | ^ 2025-09-08T01:08:20,389 rnacounter/rnacounter.c:29630:65: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,390 29630 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_3_join.tp_print = 0; 2025-09-08T01:08:20,390 | ^ 2025-09-08T01:08:20,423 rnacounter/rnacounter.c:29633:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,423 29633 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_4_genexpr.tp_print = 0; 2025-09-08T01:08:20,424 | ^ 2025-09-08T01:08:20,457 rnacounter/rnacounter.c:29636:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,457 29636 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_5_genexpr.tp_print = 0; 2025-09-08T01:08:20,457 | ^ 2025-09-08T01:08:20,491 rnacounter/rnacounter.c:29639:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,491 29639 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_6_genexpr.tp_print = 0; 2025-09-08T01:08:20,491 | ^ 2025-09-08T01:08:20,525 rnacounter/rnacounter.c:29642:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,525 29642 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_7_process_chunk.tp_print = 0; 2025-09-08T01:08:20,525 | ^ 2025-09-08T01:08:20,559 rnacounter/rnacounter.c:29645:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,559 29645 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_8_genexpr.tp_print = 0; 2025-09-08T01:08:20,559 | ^ 2025-09-08T01:08:20,592 rnacounter/rnacounter.c:29648:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,593 29648 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_9_genexpr.tp_print = 0; 2025-09-08T01:08:20,593 | ^ 2025-09-08T01:08:20,626 rnacounter/rnacounter.c:29651:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,627 29651 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_10_genexpr.tp_print = 0; 2025-09-08T01:08:20,627 | ^ 2025-09-08T01:08:20,660 rnacounter/rnacounter.c:29654:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,660 29654 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_11_genexpr.tp_print = 0; 2025-09-08T01:08:20,661 | ^ 2025-09-08T01:08:20,694 rnacounter/rnacounter.c:29657:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,694 29657 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_12_print_output.tp_print = 0; 2025-09-08T01:08:20,694 | ^ 2025-09-08T01:08:20,728 rnacounter/rnacounter.c:29660:72: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,728 29660 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_13_parse_args.tp_print = 0; 2025-09-08T01:08:20,728 | ^ 2025-09-08T01:08:20,762 rnacounter/rnacounter.c:29663:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,762 29663 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_14_genexpr.tp_print = 0; 2025-09-08T01:08:20,762 | ^ 2025-09-08T01:08:20,796 rnacounter/rnacounter.c:29666:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,796 29666 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_15_genexpr.tp_print = 0; 2025-09-08T01:08:20,796 | ^ 2025-09-08T01:08:20,830 rnacounter/rnacounter.c:29669:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:20,830 29669 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_16_genexpr.tp_print = 0; 2025-09-08T01:08:20,830 | ^ 2025-09-08T01:08:20,885 rnacounter/rnacounter.c: In function ‘__Pyx_PyUnicode_Equals’: 2025-09-08T01:08:20,924 rnacounter/rnacounter.c:84:51: error: implicit declaration of function ‘_PyUnicode_Ready’; did you mean ‘PyUnicode_READY’? [-Wimplicit-function-declaration] 2025-09-08T01:08:20,924 84 | 0 : _PyUnicode_Ready((PyObject *)(op))) 2025-09-08T01:08:20,924 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,924 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:20,924 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:20,924 | ^ 2025-09-08T01:08:20,924 rnacounter/rnacounter.c:30193:22: note: in expansion of macro ‘__Pyx_PyUnicode_READY’ 2025-09-08T01:08:20,924 30193 | if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) 2025-09-08T01:08:20,925 | ^~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,973 rnacounter/rnacounter.c: In function ‘__Pyx_ErrRestore’: 2025-09-08T01:08:21,008 rnacounter/rnacounter.c:30285:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,008 30285 | tmp_type = tstate->curexc_type; 2025-09-08T01:08:21,009 | ^~ 2025-09-08T01:08:21,043 rnacounter/rnacounter.c:30286:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:21,043 30286 | tmp_value = tstate->curexc_value; 2025-09-08T01:08:21,044 | ^~ 2025-09-08T01:08:21,078 rnacounter/rnacounter.c:30287:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:21,079 30287 | tmp_tb = tstate->curexc_traceback; 2025-09-08T01:08:21,079 | ^~ 2025-09-08T01:08:21,113 rnacounter/rnacounter.c:30288:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,114 30288 | tstate->curexc_type = type; 2025-09-08T01:08:21,114 | ^~ 2025-09-08T01:08:21,149 rnacounter/rnacounter.c:30289:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:21,149 30289 | tstate->curexc_value = value; 2025-09-08T01:08:21,149 | ^~ 2025-09-08T01:08:21,184 rnacounter/rnacounter.c:30290:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:21,184 30290 | tstate->curexc_traceback = tb; 2025-09-08T01:08:21,184 | ^~ 2025-09-08T01:08:21,184 rnacounter/rnacounter.c: In function ‘__Pyx_ErrFetch’: 2025-09-08T01:08:21,219 rnacounter/rnacounter.c:30301:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,219 30301 | *type = tstate->curexc_type; 2025-09-08T01:08:21,219 | ^~ 2025-09-08T01:08:21,254 rnacounter/rnacounter.c:30302:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:21,254 30302 | *value = tstate->curexc_value; 2025-09-08T01:08:21,254 | ^~ 2025-09-08T01:08:21,289 rnacounter/rnacounter.c:30303:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:21,289 30303 | *tb = tstate->curexc_traceback; 2025-09-08T01:08:21,289 | ^~ 2025-09-08T01:08:21,324 rnacounter/rnacounter.c:30304:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,324 30304 | tstate->curexc_type = 0; 2025-09-08T01:08:21,325 | ^~ 2025-09-08T01:08:21,359 rnacounter/rnacounter.c:30305:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:21,360 30305 | tstate->curexc_value = 0; 2025-09-08T01:08:21,360 | ^~ 2025-09-08T01:08:21,394 rnacounter/rnacounter.c:30306:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:21,395 30306 | tstate->curexc_traceback = 0; 2025-09-08T01:08:21,395 | ^~ 2025-09-08T01:08:21,469 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2025-09-08T01:08:21,520 rnacounter/rnacounter.c:30503:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:21,520 30503 | *type = tstate->exc_type; 2025-09-08T01:08:21,520 | ^~~~~~~~ 2025-09-08T01:08:21,520 | exc_state 2025-09-08T01:08:21,555 rnacounter/rnacounter.c:30504:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:21,555 30504 | *value = tstate->exc_value; 2025-09-08T01:08:21,555 | ^~ 2025-09-08T01:08:21,589 rnacounter/rnacounter.c:30505:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:21,589 30505 | *tb = tstate->exc_traceback; 2025-09-08T01:08:21,590 | ^~ 2025-09-08T01:08:21,590 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2025-09-08T01:08:21,640 rnacounter/rnacounter.c:30517:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:21,640 30517 | tmp_type = tstate->exc_type; 2025-09-08T01:08:21,640 | ^~~~~~~~ 2025-09-08T01:08:21,640 | exc_state 2025-09-08T01:08:21,674 rnacounter/rnacounter.c:30518:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:21,675 30518 | tmp_value = tstate->exc_value; 2025-09-08T01:08:21,675 | ^~ 2025-09-08T01:08:21,709 rnacounter/rnacounter.c:30519:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:21,709 30519 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:21,709 | ^~ 2025-09-08T01:08:21,759 rnacounter/rnacounter.c:30520:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:21,759 30520 | tstate->exc_type = type; 2025-09-08T01:08:21,759 | ^~~~~~~~ 2025-09-08T01:08:21,759 | exc_state 2025-09-08T01:08:21,794 rnacounter/rnacounter.c:30521:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:21,794 30521 | tstate->exc_value = value; 2025-09-08T01:08:21,794 | ^~ 2025-09-08T01:08:21,828 rnacounter/rnacounter.c:30522:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:21,829 30522 | tstate->exc_traceback = tb; 2025-09-08T01:08:21,829 | ^~ 2025-09-08T01:08:21,829 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2025-09-08T01:08:21,864 rnacounter/rnacounter.c:30536:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,864 30536 | local_type = tstate->curexc_type; 2025-09-08T01:08:21,864 | ^~ 2025-09-08T01:08:21,898 rnacounter/rnacounter.c:30537:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:21,899 30537 | local_value = tstate->curexc_value; 2025-09-08T01:08:21,899 | ^~ 2025-09-08T01:08:21,933 rnacounter/rnacounter.c:30538:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:21,933 30538 | local_tb = tstate->curexc_traceback; 2025-09-08T01:08:21,933 | ^~ 2025-09-08T01:08:21,968 rnacounter/rnacounter.c:30539:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:21,968 30539 | tstate->curexc_type = 0; 2025-09-08T01:08:21,968 | ^~ 2025-09-08T01:08:22,003 rnacounter/rnacounter.c:30540:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,003 30540 | tstate->curexc_value = 0; 2025-09-08T01:08:22,003 | ^~ 2025-09-08T01:08:22,037 rnacounter/rnacounter.c:30541:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,037 30541 | tstate->curexc_traceback = 0; 2025-09-08T01:08:22,038 | ^~ 2025-09-08T01:08:22,072 rnacounter/rnacounter.c:30547:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,072 30547 | if (unlikely(tstate->curexc_type)) 2025-09-08T01:08:22,072 | ^~ 2025-09-08T01:08:22,072 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:22,073 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:22,073 | ^ 2025-09-08T01:08:22,134 rnacounter/rnacounter.c:30565:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:22,135 30565 | tmp_type = tstate->exc_type; 2025-09-08T01:08:22,135 | ^~~~~~~~ 2025-09-08T01:08:22,135 | exc_state 2025-09-08T01:08:22,169 rnacounter/rnacounter.c:30566:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:22,169 30566 | tmp_value = tstate->exc_value; 2025-09-08T01:08:22,169 | ^~ 2025-09-08T01:08:22,204 rnacounter/rnacounter.c:30567:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:22,204 30567 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:22,204 | ^~ 2025-09-08T01:08:22,254 rnacounter/rnacounter.c:30568:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:22,254 30568 | tstate->exc_type = local_type; 2025-09-08T01:08:22,255 | ^~~~~~~~ 2025-09-08T01:08:22,255 | exc_state 2025-09-08T01:08:22,289 rnacounter/rnacounter.c:30569:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:22,289 30569 | tstate->exc_value = local_value; 2025-09-08T01:08:22,289 | ^~ 2025-09-08T01:08:22,324 rnacounter/rnacounter.c:30570:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:22,324 30570 | tstate->exc_traceback = local_tb; 2025-09-08T01:08:22,324 | ^~ 2025-09-08T01:08:22,351 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-08T01:08:22,402 rnacounter/rnacounter.c:30674:22: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-08T01:08:22,402 30674 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2025-09-08T01:08:22,402 | ^~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:22,402 | PyDict_GET_SIZE 2025-09-08T01:08:22,517 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2025-09-08T01:08:22,552 rnacounter/rnacounter.c:30900:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,552 30900 | PyObject* tmp_tb = tstate->curexc_traceback; 2025-09-08T01:08:22,552 | ^~ 2025-09-08T01:08:22,587 rnacounter/rnacounter.c:30903:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,587 30903 | tstate->curexc_traceback = tb; 2025-09-08T01:08:22,587 | ^~ 2025-09-08T01:08:22,645 rnacounter/rnacounter.c: In function ‘__Pyx_PyIter_Next2’: 2025-09-08T01:08:22,680 rnacounter/rnacounter.c:30948:31: error: ‘_PyObject_NextNotImplemented’ undeclared (first use in this function); did you mean ‘PyObject_HashNotImplemented’? 2025-09-08T01:08:22,680 30948 | if (unlikely(iternext == &_PyObject_NextNotImplemented)) 2025-09-08T01:08:22,680 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:22,680 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:22,680 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:22,680 | ^ 2025-09-08T01:08:22,718 rnacounter/rnacounter.c: In function ‘__Pyx_IterFinish’: 2025-09-08T01:08:22,753 rnacounter/rnacounter.c:31112:32: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,753 31112 | PyObject* exc_type = tstate->curexc_type; 2025-09-08T01:08:22,754 | ^~ 2025-09-08T01:08:22,789 rnacounter/rnacounter.c:31116:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,789 31116 | exc_value = tstate->curexc_value; 2025-09-08T01:08:22,789 | ^~ 2025-09-08T01:08:22,825 rnacounter/rnacounter.c:31117:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,825 31117 | exc_tb = tstate->curexc_traceback; 2025-09-08T01:08:22,825 | ^~ 2025-09-08T01:08:22,861 rnacounter/rnacounter.c:31118:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,861 31118 | tstate->curexc_type = 0; 2025-09-08T01:08:22,861 | ^~ 2025-09-08T01:08:22,897 rnacounter/rnacounter.c:31119:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,897 31119 | tstate->curexc_value = 0; 2025-09-08T01:08:22,897 | ^~ 2025-09-08T01:08:22,932 rnacounter/rnacounter.c:31120:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,933 31120 | tstate->curexc_traceback = 0; 2025-09-08T01:08:22,933 | ^~ 2025-09-08T01:08:23,424 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2025-09-08T01:08:23,479 rnacounter/rnacounter.c:32464:16: error: implicit declaration of function ‘PyCFunction_Call’; did you mean ‘PyCFunction_New’? [-Wimplicit-function-declaration] 2025-09-08T01:08:23,479 32464 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:08:23,479 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,479 | PyCFunction_New 2025-09-08T01:08:23,521 rnacounter/rnacounter.c:32464:16: error: returning ‘int’ from a function with return type ‘PyObject *’ {aka ‘struct _object *’} makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:23,521 32464 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:08:23,521 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,539 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2025-09-08T01:08:23,592 rnacounter/rnacounter.c:32529:41: error: ‘PyCFunction_Call’ undeclared (first use in this function); did you mean ‘PyCFunction_New’? 2025-09-08T01:08:23,592 32529 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2025-09-08T01:08:23,592 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,592 | PyCFunction_New 2025-09-08T01:08:23,637 rnacounter/rnacounter.c: In function ‘__Pyx_CreateCodeObjectForTraceback’: 2025-09-08T01:08:23,674 rnacounter/rnacounter.c:32705:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:23,674 32705 | py_code = __Pyx_PyCode_New( 2025-09-08T01:08:23,675 | ^~~~~~~ 2025-09-08T01:08:23,675 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:23,675 213 | PyCode_New( 2025-09-08T01:08:23,675 | ^~~~~~~~~~ 2025-09-08T01:08:23,712 rnacounter/rnacounter.c:32719:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:23,712 32719 | py_line, 2025-09-08T01:08:23,712 | ^~~~~~~ 2025-09-08T01:08:23,712 | | 2025-09-08T01:08:23,712 | int 2025-09-08T01:08:23,712 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:23,712 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:23,712 | ^~~~~ 2025-09-08T01:08:23,712 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:23,713 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:23,713 | ~~~~~~~~~~^ 2025-09-08T01:08:23,753 rnacounter/rnacounter.c:32720:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:23,753 32720 | __pyx_empty_bytes /*PyObject *lnotab*/ 2025-09-08T01:08:23,753 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,753 | | 2025-09-08T01:08:23,754 | PyObject * {aka struct _object *} 2025-09-08T01:08:23,754 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:23,754 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:23,754 | ^~~~ 2025-09-08T01:08:23,754 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:23,754 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:23,754 | ~~~~^ 2025-09-08T01:08:23,795 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:23,795 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:23,795 | ^~~~~~~~~~ 2025-09-08T01:08:23,795 rnacounter/rnacounter.c:32705:15: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:23,795 32705 | py_code = __Pyx_PyCode_New( 2025-09-08T01:08:23,795 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,795 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:23,795 213 | PyCode_New( 2025-09-08T01:08:23,795 | ^~~~~~~~~~ 2025-09-08T01:08:23,812 rnacounter/rnacounter.c: In function ‘__Pyx_AddTraceback’: 2025-09-08T01:08:23,849 rnacounter/rnacounter.c:32748:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:23,849 32748 | py_frame->f_lineno = py_line; 2025-09-08T01:08:23,849 | ^~ 2025-09-08T01:08:23,851 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_int’: 2025-09-08T01:08:23,888 rnacounter/rnacounter.c:32869:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:08:23,888 32869 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:08:23,888 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,888 In file included from /usr/include/python3.13/longobject.h:107, 2025-09-08T01:08:23,889 from /usr/include/python3.13/Python.h:81: 2025-09-08T01:08:23,889 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:08:23,889 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:08:23,889 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,935 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_long’: 2025-09-08T01:08:23,972 rnacounter/rnacounter.c:33324:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:08:23,972 33324 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:08:23,972 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,972 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:08:23,973 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:08:23,973 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:23,981 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2025-09-08T01:08:24,037 rnacounter/rnacounter.c:33356:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:24,037 33356 | tmp_type = tstate->exc_type; 2025-09-08T01:08:24,037 | ^~~~~~~~ 2025-09-08T01:08:24,037 | exc_state 2025-09-08T01:08:24,075 rnacounter/rnacounter.c:33357:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:24,076 33357 | tmp_value = tstate->exc_value; 2025-09-08T01:08:24,076 | ^~ 2025-09-08T01:08:24,114 rnacounter/rnacounter.c:33358:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:24,114 33358 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:24,114 | ^~ 2025-09-08T01:08:24,169 rnacounter/rnacounter.c:33359:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:24,170 33359 | tstate->exc_type = *type; 2025-09-08T01:08:24,170 | ^~~~~~~~ 2025-09-08T01:08:24,170 | exc_state 2025-09-08T01:08:24,208 rnacounter/rnacounter.c:33360:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:24,208 33360 | tstate->exc_value = *value; 2025-09-08T01:08:24,208 | ^~ 2025-09-08T01:08:24,247 rnacounter/rnacounter.c:33361:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:24,247 33361 | tstate->exc_traceback = *tb; 2025-09-08T01:08:24,247 | ^~ 2025-09-08T01:08:24,249 In file included from /usr/include/python3.13/Python.h:63: 2025-09-08T01:08:24,249 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_SendEx’: 2025-09-08T01:08:24,329 rnacounter/rnacounter.c:33481:30: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:08:24,329 33481 | Py_XINCREF(tstate->frame); 2025-09-08T01:08:24,329 | ^~ 2025-09-08T01:08:24,329 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-08T01:08:24,329 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-08T01:08:24,329 | ^~~~ 2025-09-08T01:08:24,329 /usr/include/python3.13/object.h:1041:37: note: in expansion of macro ‘_PyObject_CAST’ 2025-09-08T01:08:24,329 1041 | # define Py_XINCREF(op) Py_XINCREF(_PyObject_CAST(op)) 2025-09-08T01:08:24,330 | ^~~~~~~~~~~~~~ 2025-09-08T01:08:24,330 rnacounter/rnacounter.c:33481:13: note: in expansion of macro ‘Py_XINCREF’ 2025-09-08T01:08:24,330 33481 | Py_XINCREF(tstate->frame); 2025-09-08T01:08:24,330 | ^~~~~~~~~~ 2025-09-08T01:08:24,366 rnacounter/rnacounter.c:33483:14: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:24,366 33483 | f->f_back = tstate->frame; 2025-09-08T01:08:24,366 | ^~ 2025-09-08T01:08:24,407 rnacounter/rnacounter.c:33483:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:08:24,408 33483 | f->f_back = tstate->frame; 2025-09-08T01:08:24,408 | ^~ 2025-09-08T01:08:24,487 rnacounter/rnacounter.c:33502:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:24,487 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,487 | ^~ 2025-09-08T01:08:24,487 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:08:24,487 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:08:24,487 | ^~~~ 2025-09-08T01:08:24,487 rnacounter/rnacounter.c:33502:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:24,487 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,487 | ^~~~~~~~ 2025-09-08T01:08:24,528 In file included from /usr/include/python3.13/Python.h:72: 2025-09-08T01:08:24,528 rnacounter/rnacounter.c:33502:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:24,528 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,529 | ^~ 2025-09-08T01:08:24,529 /usr/include/python3.13/object.h:1012:41: note: in definition of macro ‘Py_CLEAR’ 2025-09-08T01:08:24,529 1012 | _Py_TYPEOF(op)* _tmp_op_ptr = &(op); \ 2025-09-08T01:08:24,529 | ^~ 2025-09-08T01:08:24,611 rnacounter/rnacounter.c:33502:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:24,611 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,611 | ^~ 2025-09-08T01:08:24,612 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:08:24,612 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:08:24,612 | ^~~~ 2025-09-08T01:08:24,612 rnacounter/rnacounter.c:33502:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:24,612 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,612 | ^~~~~~~~ 2025-09-08T01:08:24,653 /usr/include/python3.13/object.h:1014:25: warning: comparison between pointer and integer 2025-09-08T01:08:24,653 1014 | if (_tmp_old_op != NULL) { \ 2025-09-08T01:08:24,653 | ^~ 2025-09-08T01:08:24,653 rnacounter/rnacounter.c:33502:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:24,653 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,653 | ^~~~~~~~ 2025-09-08T01:08:24,694 /usr/include/python3.13/object.h:1015:26: error: assignment to ‘int’ from ‘void *’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:24,694 1015 | *_tmp_op_ptr = _Py_NULL; \ 2025-09-08T01:08:24,695 | ^ 2025-09-08T01:08:24,695 rnacounter/rnacounter.c:33502:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:24,695 33502 | Py_CLEAR(f->f_back); 2025-09-08T01:08:24,695 | ^~~~~~~~ 2025-09-08T01:08:25,302 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-08T01:08:25,478 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T01:08:25,489 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T01:08:25,489 exec(compile('"'"''"'"''"'"' 2025-09-08T01:08:25,489 # This is -- a caller that pip uses to run setup.py 2025-09-08T01:08:25,489 # 2025-09-08T01:08:25,489 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T01:08:25,489 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T01:08:25,489 # - It provides a clear error message when setuptools is not installed. 2025-09-08T01:08:25,489 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T01:08:25,489 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T01:08:25,489 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T01:08:25,489 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T01:08:25,489 import os, sys, tokenize, traceback 2025-09-08T01:08:25,489 2025-09-08T01:08:25,489 try: 2025-09-08T01:08:25,489 import setuptools 2025-09-08T01:08:25,489 except ImportError: 2025-09-08T01:08:25,489 print( 2025-09-08T01:08:25,489 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T01:08:25,489 "the build environment with exception:", 2025-09-08T01:08:25,489 file=sys.stderr, 2025-09-08T01:08:25,489 ) 2025-09-08T01:08:25,489 traceback.print_exc() 2025-09-08T01:08:25,489 sys.exit(1) 2025-09-08T01:08:25,489 2025-09-08T01:08:25,489 __file__ = %r 2025-09-08T01:08:25,489 sys.argv[0] = __file__ 2025-09-08T01:08:25,489 2025-09-08T01:08:25,489 if os.path.exists(__file__): 2025-09-08T01:08:25,489 filename = __file__ 2025-09-08T01:08:25,489 with tokenize.open(__file__) as f: 2025-09-08T01:08:25,489 setup_py_code = f.read() 2025-09-08T01:08:25,489 else: 2025-09-08T01:08:25,489 filename = "" 2025-09-08T01:08:25,489 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T01:08:25,489 2025-09-08T01:08:25,489 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T01:08:25,489 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-wniar5q9/rnacounter_04f7123f5e924fa58d9d3e9bb146f78e/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-y9hecv0v[/] 2025-09-08T01:08:25,490 [bold magenta]cwd[/]: /tmp/pip-wheel-wniar5q9/rnacounter_04f7123f5e924fa58d9d3e9bb146f78e/ 2025-09-08T01:08:25,490 Building wheel for rnacounter (setup.py): finished with status 'error' 2025-09-08T01:08:25,490 ERROR: Failed building wheel for rnacounter 2025-09-08T01:08:25,491 Running setup.py clean for rnacounter 2025-09-08T01:08:25,492 Running command python setup.py clean 2025-09-08T01:08:26,397 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:26,397 warnings.warn(msg) 2025-09-08T01:08:26,856 running clean 2025-09-08T01:08:27,001 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:08:27,001 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:08:27,002 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T01:08:27,002 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T01:08:27,002 removing 'build' 2025-09-08T01:08:27,138 Failed to build rnacounter 2025-09-08T01:08:27,139 ERROR: Failed to build one or more wheels 2025-09-08T01:08:27,140 Exception information: 2025-09-08T01:08:27,140 Traceback (most recent call last): 2025-09-08T01:08:27,140 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T01:08:27,140 status = _inner_run() 2025-09-08T01:08:27,140 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T01:08:27,140 return self.run(options, args) 2025-09-08T01:08:27,140 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T01:08:27,140 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T01:08:27,140 return func(self, options, args) 2025-09-08T01:08:27,140 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T01:08:27,140 raise CommandError("Failed to build one or more wheels") 2025-09-08T01:08:27,140 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T01:08:27,145 Removed build tracker: '/tmp/pip-build-tracker-j3tzjj52'