2025-09-08T01:08:11,966 Created temporary directory: /tmp/pip-build-tracker-_9juy0qb 2025-09-08T01:08:11,966 Initialized build tracking at /tmp/pip-build-tracker-_9juy0qb 2025-09-08T01:08:11,967 Created build tracker: /tmp/pip-build-tracker-_9juy0qb 2025-09-08T01:08:11,967 Entered build tracker: /tmp/pip-build-tracker-_9juy0qb 2025-09-08T01:08:11,967 Created temporary directory: /tmp/pip-wheel-sltv9vyh 2025-09-08T01:08:11,970 Created temporary directory: /tmp/pip-ephem-wheel-cache-8110jtyn 2025-09-08T01:08:12,026 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T01:08:12,028 2 location(s) to search for versions of rnacounter: 2025-09-08T01:08:12,028 * https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:12,028 * https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:12,028 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:12,029 Getting page https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:12,030 Found index url https://pypi.org/simple/ 2025-09-08T01:08:12,100 Fetched page https://pypi.org/simple/rnacounter/ as application/vnd.pypi.simple.v1+json 2025-09-08T01:08:12,102 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 2025-09-08T01:08:12,102 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 2025-09-08T01:08:12,102 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 2025-09-08T01:08:12,103 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 2025-09-08T01:08:12,103 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 2025-09-08T01:08:12,103 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.2 2025-09-08T01:08:12,103 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 2025-09-08T01:08:12,103 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.3 2025-09-08T01:08:12,104 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 2025-09-08T01:08:12,104 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.4 2025-09-08T01:08:12,104 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 2025-09-08T01:08:12,104 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 2025-09-08T01:08:12,104 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz (from https://pypi.org/simple/rnacounter/), version: 1.5 2025-09-08T01:08:12,105 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 2025-09-08T01:08:12,105 Fetching project page and analyzing links: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:12,105 Getting page https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:12,106 Found index url https://www.piwheels.org/simple/ 2025-09-08T01:08:12,206 Fetched page https://www.piwheels.org/simple/rnacounter/ as text/html 2025-09-08T01:08:12,216 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,217 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,218 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,219 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,220 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/) 2025-09-08T01:08:12,221 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/) 2025-09-08T01:08:12,221 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/) 2025-09-08T01:08:12,221 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,222 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,223 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/) 2025-09-08T01:08:12,224 Skipping link: not a file: https://www.piwheels.org/simple/rnacounter/ 2025-09-08T01:08:12,224 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2025-09-08T01:08:12,249 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2025-09-08T01:08:12,250 Collecting rnacounter==1.3.1 2025-09-08T01:08:12,252 Created temporary directory: /tmp/pip-unpack-7p7ph3w8 2025-09-08T01:08:12,899 Downloading rnacounter-1.3.1.tar.gz (299 kB) 2025-09-08T01:08:12,985 Added rnacounter==1.3.1 from https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz to build tracker '/tmp/pip-build-tracker-_9juy0qb' 2025-09-08T01:08:12,986 Running setup.py (path:/tmp/pip-wheel-sltv9vyh/rnacounter_5b765ec5b5e645e9a323bb8161562f67/setup.py) egg_info for package rnacounter 2025-09-08T01:08:12,987 Created temporary directory: /tmp/pip-pip-egg-info-78_ozia_ 2025-09-08T01:08:12,987 Preparing metadata (setup.py): started 2025-09-08T01:08:12,988 Running command python setup.py egg_info 2025-09-08T01:08:14,204 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:14,204 warnings.warn(msg) 2025-09-08T01:08:14,935 running egg_info 2025-09-08T01:08:15,031 creating /tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info 2025-09-08T01:08:15,031 writing /tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/PKG-INFO 2025-09-08T01:08:15,033 writing dependency_links to /tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/dependency_links.txt 2025-09-08T01:08:15,033 writing requirements to /tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/requires.txt 2025-09-08T01:08:15,034 writing top-level names to /tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/top_level.txt 2025-09-08T01:08:15,034 writing manifest file '/tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:15,890 reading manifest file '/tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:15,891 reading manifest template 'MANIFEST.in' 2025-09-08T01:08:15,895 writing manifest file '/tmp/pip-pip-egg-info-78_ozia_/rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:16,030 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T01:08:16,035 Source in /tmp/pip-wheel-sltv9vyh/rnacounter_5b765ec5b5e645e9a323bb8161562f67 has version 1.3.1, which satisfies requirement rnacounter==1.3.1 from https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz 2025-09-08T01:08:16,035 Removed rnacounter==1.3.1 from https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz from build tracker '/tmp/pip-build-tracker-_9juy0qb' 2025-09-08T01:08:16,040 Created temporary directory: /tmp/pip-unpack-hwmva2h8 2025-09-08T01:08:16,040 Created temporary directory: /tmp/pip-unpack-q28_vumv 2025-09-08T01:08:16,041 Building wheels for collected packages: rnacounter 2025-09-08T01:08:16,042 Created temporary directory: /tmp/pip-wheel-ibik7f1o 2025-09-08T01:08:16,042 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 2025-09-08T01:08:16,043 Building wheel for rnacounter (setup.py): started 2025-09-08T01:08:16,044 Destination directory: /tmp/pip-wheel-ibik7f1o 2025-09-08T01:08:16,044 Running command python setup.py bdist_wheel 2025-09-08T01:08:16,958 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:16,958 warnings.warn(msg) 2025-09-08T01:08:17,355 running bdist_wheel 2025-09-08T01:08:17,719 running build 2025-09-08T01:08:17,720 running build_py 2025-09-08T01:08:17,797 creating build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,797 copying rnacounter/setup.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,798 copying rnacounter/main.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,798 copying rnacounter/draft_nocython.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,799 copying rnacounter/__init__.py -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,800 creating build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:17,800 copying testfiles/__init__.py -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:17,800 running egg_info 2025-09-08T01:08:17,876 writing rnacounter.egg-info/PKG-INFO 2025-09-08T01:08:17,878 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2025-09-08T01:08:17,878 writing requirements to rnacounter.egg-info/requires.txt 2025-09-08T01:08:17,878 writing top-level names to rnacounter.egg-info/top_level.txt 2025-09-08T01:08:17,955 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:17,956 reading manifest template 'MANIFEST.in' 2025-09-08T01:08:17,961 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2025-09-08T01:08:17,963 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:17,969 copying testfiles/gapdhKO.bam -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:17,970 copying testfiles/gapdhKO.bam.bai -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:17,971 copying testfiles/mm9_3genes_renamed.gtf -> build/lib.linux-armv7l-cpython-313/testfiles 2025-09-08T01:08:17,972 running build_ext 2025-09-08T01:08:18,321 building 'rnacounter/rnacounter' extension 2025-09-08T01:08:18,322 creating build/temp.linux-armv7l-cpython-313/rnacounter 2025-09-08T01:08:18,322 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 2025-09-08T01:08:18,746 rnacounter/rnacounter.c: In function ‘__Pyx_ListComp_Append’: 2025-09-08T01:08:18,747 rnacounter/rnacounter.c:1341:23: error: lvalue required as left operand of assignment 2025-09-08T01:08:18,747 1341 | Py_SIZE(list) = len+1; 2025-09-08T01:08:18,747 | ^ 2025-09-08T01:08:18,748 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Append’: 2025-09-08T01:08:18,749 rnacounter/rnacounter.c:1406:23: error: lvalue required as left operand of assignment 2025-09-08T01:08:18,749 1406 | Py_SIZE(list) = len+1; 2025-09-08T01:08:18,749 | ^ 2025-09-08T01:08:18,758 rnacounter/rnacounter.c: In function ‘__Pyx_PyList_Extend’: 2025-09-08T01:08:18,759 rnacounter/rnacounter.c:1463:22: error: implicit declaration of function ‘_PyList_Extend’; did you mean ‘PyList_Extend’? [-Wimplicit-function-declaration] 2025-09-08T01:08:18,759 1463 | PyObject* none = _PyList_Extend((PyListObject*)L, v); 2025-09-08T01:08:18,759 | ^~~~~~~~~~~~~~ 2025-09-08T01:08:18,759 | PyList_Extend 2025-09-08T01:08:18,759 rnacounter/rnacounter.c:1463:22: error: initialization of ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:18,819 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_2parse_bed’: 2025-09-08T01:08:18,823 rnacounter/rnacounter.c:4151:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,823 4151 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:18,823 | ^~ 2025-09-08T01:08:18,824 In file included from /usr/include/python3.13/Python.h:76, 2025-09-08T01:08:18,824 from rnacounter/rnacounter.c:16: 2025-09-08T01:08:18,824 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:18,824 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:18,824 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:18,870 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_4join’: 2025-09-08T01:08:18,875 rnacounter/rnacounter.c:5386:9: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:18,876 5386 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:18,876 | ^~ 2025-09-08T01:08:18,876 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:18,876 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:18,876 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:19,825 rnacounter/rnacounter.c: In function ‘__pyx_pf_10rnacounter_10rnacounter_16parse_args’: 2025-09-08T01:08:19,850 rnacounter/rnacounter.c:22210:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,850 22210 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:19,850 | ^~ 2025-09-08T01:08:19,850 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:19,850 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:19,851 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:19,877 rnacounter/rnacounter.c:22259:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,878 22259 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:19,878 | ^~ 2025-09-08T01:08:19,878 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:19,878 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:19,878 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:19,919 rnacounter/rnacounter.c:22395:3: warning: ‘Py_OptimizeFlag’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:19,920 22395 | if (unlikely(!Py_OptimizeFlag)) { 2025-09-08T01:08:19,920 | ^~ 2025-09-08T01:08:19,920 /usr/include/python3.13/cpython/pydebug.h:13:37: note: declared here 2025-09-08T01:08:19,920 13 | Py_DEPRECATED(3.12) PyAPI_DATA(int) Py_OptimizeFlag; 2025-09-08T01:08:19,920 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:20,030 rnacounter/rnacounter.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-08T01:08:20,069 rnacounter/rnacounter.c:23401:50: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-08T01:08:20,069 23401 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:08:20,069 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,069 | PyBUF_C_CONTIGUOUS 2025-09-08T01:08:20,073 rnacounter/rnacounter.c:23401:50: note: each undeclared identifier is reported only once for each function it appears in 2025-09-08T01:08:20,132 rnacounter/rnacounter.c:23441:50: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-08T01:08:20,133 23441 | __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); 2025-09-08T01:08:20,133 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,133 | PyBUF_F_CONTIGUOUS 2025-09-08T01:08:20,140 rnacounter/rnacounter.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-08T01:08:20,168 rnacounter/rnacounter.c:24447:29: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:08:20,169 24447 | if (unlikely(__pyx_v_descr->names == Py_None)) { 2025-09-08T01:08:20,169 | ^~ 2025-09-08T01:08:20,169 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:20,169 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:20,169 | ^ 2025-09-08T01:08:20,200 rnacounter/rnacounter.c:24451:28: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘names’ 2025-09-08T01:08:20,201 24451 | __pyx_t_1 = __pyx_v_descr->names; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0; 2025-09-08T01:08:20,201 | ^~ 2025-09-08T01:08:20,235 rnacounter/rnacounter.c:24469:47: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-08T01:08:20,235 24469 | __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;}; 2025-09-08T01:08:20,235 | ^~ 2025-09-08T01:08:20,285 rnacounter/rnacounter.c:24650:79: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-08T01:08:20,286 24650 | (__pyx_v_offset[__pyx_t_8]) = ((__pyx_v_offset[__pyx_t_8]) + __pyx_v_child->elsize); 2025-09-08T01:08:20,286 | ^~ 2025-09-08T01:08:20,334 rnacounter/rnacounter.c: In function ‘__pyx_tp_dealloc_10rnacounter_10rnacounter_GenomicObject’: 2025-09-08T01:08:20,363 rnacounter/rnacounter.c:25278:45: error: implicit declaration of function ‘_PyGC_FINALIZED’ [-Wimplicit-function-declaration] 2025-09-08T01:08:20,363 25278 | if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) { 2025-09-08T01:08:20,363 | ^~~~~~~~~~~~~~~ 2025-09-08T01:08:20,465 rnacounter/rnacounter.c: In function ‘__Pyx_InitCachedConstants’: 2025-09-08T01:08:20,498 rnacounter/rnacounter.c:28994:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:20,499 28994 | __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;} 2025-09-08T01:08:20,499 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,499 In file included from /usr/include/python3.13/Python.h:101: 2025-09-08T01:08:20,500 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,500 213 | PyCode_New( 2025-09-08T01:08:20,500 | ^~~~~~~~~~ 2025-09-08T01:08:20,536 rnacounter/rnacounter.c:28994:243: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:20,537 28994 | __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;} 2025-09-08T01:08:20,537 | ^~ 2025-09-08T01:08:20,537 | | 2025-09-08T01:08:20,537 | int 2025-09-08T01:08:20,537 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,537 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,537 | ^~~~~ 2025-09-08T01:08:20,537 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:20,538 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,538 | ~~~~~~~~~~^ 2025-09-08T01:08:20,574 rnacounter/rnacounter.c:28994:247: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:20,575 28994 | __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;} 2025-09-08T01:08:20,575 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,575 | | 2025-09-08T01:08:20,575 | PyObject * {aka struct _object *} 2025-09-08T01:08:20,575 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,575 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,575 | ^~~~ 2025-09-08T01:08:20,575 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:20,575 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,575 | ~~~~^ 2025-09-08T01:08:20,612 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:20,612 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,612 | ^~~~~~~~~~ 2025-09-08T01:08:20,612 rnacounter/rnacounter.c:28994:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,612 28994 | __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;} 2025-09-08T01:08:20,613 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,613 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,613 213 | PyCode_New( 2025-09-08T01:08:20,613 | ^~~~~~~~~~ 2025-09-08T01:08:20,646 rnacounter/rnacounter.c:29006:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:20,646 29006 | __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;} 2025-09-08T01:08:20,646 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,647 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,647 213 | PyCode_New( 2025-09-08T01:08:20,647 | ^~~~~~~~~~ 2025-09-08T01:08:20,683 rnacounter/rnacounter.c:29006:244: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:20,684 29006 | __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;} 2025-09-08T01:08:20,684 | ^~ 2025-09-08T01:08:20,684 | | 2025-09-08T01:08:20,684 | int 2025-09-08T01:08:20,684 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,684 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,684 | ^~~~~ 2025-09-08T01:08:20,684 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:20,685 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,685 | ~~~~~~~~~~^ 2025-09-08T01:08:20,721 rnacounter/rnacounter.c:29006:248: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:20,721 29006 | __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;} 2025-09-08T01:08:20,722 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,722 | | 2025-09-08T01:08:20,722 | PyObject * {aka struct _object *} 2025-09-08T01:08:20,722 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,722 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,722 | ^~~~ 2025-09-08T01:08:20,722 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:20,722 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,722 | ~~~~^ 2025-09-08T01:08:20,759 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:20,759 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,759 | ^~~~~~~~~~ 2025-09-08T01:08:20,759 rnacounter/rnacounter.c:29006:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,760 29006 | __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;} 2025-09-08T01:08:20,760 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,760 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,760 213 | PyCode_New( 2025-09-08T01:08:20,760 | ^~~~~~~~~~ 2025-09-08T01:08:20,793 rnacounter/rnacounter.c:29018:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:20,793 29018 | __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;} 2025-09-08T01:08:20,793 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,794 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,794 213 | PyCode_New( 2025-09-08T01:08:20,794 | ^~~~~~~~~~ 2025-09-08T01:08:20,830 rnacounter/rnacounter.c:29018:239: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:20,831 29018 | __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;} 2025-09-08T01:08:20,831 | ^~~ 2025-09-08T01:08:20,831 | | 2025-09-08T01:08:20,831 | int 2025-09-08T01:08:20,831 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,831 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,831 | ^~~~~ 2025-09-08T01:08:20,831 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:20,832 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,832 | ~~~~~~~~~~^ 2025-09-08T01:08:20,868 rnacounter/rnacounter.c:29018:244: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:20,869 29018 | __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;} 2025-09-08T01:08:20,869 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,869 | | 2025-09-08T01:08:20,869 | PyObject * {aka struct _object *} 2025-09-08T01:08:20,869 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,869 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,869 | ^~~~ 2025-09-08T01:08:20,869 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:20,869 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,869 | ~~~~^ 2025-09-08T01:08:20,906 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:20,906 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,906 | ^~~~~~~~~~ 2025-09-08T01:08:20,906 rnacounter/rnacounter.c:29018:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,907 29018 | __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;} 2025-09-08T01:08:20,907 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,907 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,907 213 | PyCode_New( 2025-09-08T01:08:20,907 | ^~~~~~~~~~ 2025-09-08T01:08:20,940 rnacounter/rnacounter.c:29030:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:20,941 29030 | __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;} 2025-09-08T01:08:20,941 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:20,941 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:20,941 213 | PyCode_New( 2025-09-08T01:08:20,941 | ^~~~~~~~~~ 2025-09-08T01:08:20,978 rnacounter/rnacounter.c:29030:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:20,978 29030 | __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;} 2025-09-08T01:08:20,978 | ^~~ 2025-09-08T01:08:20,978 | | 2025-09-08T01:08:20,978 | int 2025-09-08T01:08:20,978 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:20,978 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:20,979 | ^~~~~ 2025-09-08T01:08:20,979 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:20,979 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:20,979 | ~~~~~~~~~~^ 2025-09-08T01:08:21,016 rnacounter/rnacounter.c:29030:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,016 29030 | __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;} 2025-09-08T01:08:21,016 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,016 | | 2025-09-08T01:08:21,016 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,016 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,016 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,017 | ^~~~ 2025-09-08T01:08:21,017 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,017 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,017 | ~~~~^ 2025-09-08T01:08:21,054 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,054 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,054 | ^~~~~~~~~~ 2025-09-08T01:08:21,054 rnacounter/rnacounter.c:29030:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,054 29030 | __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;} 2025-09-08T01:08:21,054 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,054 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,054 213 | PyCode_New( 2025-09-08T01:08:21,055 | ^~~~~~~~~~ 2025-09-08T01:08:21,088 rnacounter/rnacounter.c:29042:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:21,088 29042 | __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;} 2025-09-08T01:08:21,088 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,088 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,088 213 | PyCode_New( 2025-09-08T01:08:21,088 | ^~~~~~~~~~ 2025-09-08T01:08:21,125 rnacounter/rnacounter.c:29042:247: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:21,125 29042 | __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;} 2025-09-08T01:08:21,126 | ^~~ 2025-09-08T01:08:21,126 | | 2025-09-08T01:08:21,126 | int 2025-09-08T01:08:21,126 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,126 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,126 | ^~~~~ 2025-09-08T01:08:21,126 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:21,126 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,126 | ~~~~~~~~~~^ 2025-09-08T01:08:21,163 rnacounter/rnacounter.c:29042:252: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,163 29042 | __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;} 2025-09-08T01:08:21,163 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,164 | | 2025-09-08T01:08:21,164 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,164 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,164 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,164 | ^~~~ 2025-09-08T01:08:21,164 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,164 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,164 | ~~~~^ 2025-09-08T01:08:21,201 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,201 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,202 | ^~~~~~~~~~ 2025-09-08T01:08:21,202 rnacounter/rnacounter.c:29042:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,202 29042 | __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;} 2025-09-08T01:08:21,202 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,202 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,202 213 | PyCode_New( 2025-09-08T01:08:21,202 | ^~~~~~~~~~ 2025-09-08T01:08:21,238 rnacounter/rnacounter.c:29054:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:21,238 29054 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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;} 2025-09-08T01:08:21,238 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,238 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,239 213 | PyCode_New( 2025-09-08T01:08:21,239 | ^~~~~~~~~~ 2025-09-08T01:08:21,276 rnacounter/rnacounter.c:29054:250: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:21,276 29054 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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;} 2025-09-08T01:08:21,276 | ^~~ 2025-09-08T01:08:21,276 | | 2025-09-08T01:08:21,276 | int 2025-09-08T01:08:21,276 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,276 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,276 | ^~~~~ 2025-09-08T01:08:21,277 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:21,277 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,277 | ~~~~~~~~~~^ 2025-09-08T01:08:21,312 rnacounter/rnacounter.c:29054:255: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,313 29054 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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;} 2025-09-08T01:08:21,313 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,313 | | 2025-09-08T01:08:21,313 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,313 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,313 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,313 | ^~~~ 2025-09-08T01:08:21,313 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,313 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,313 | ~~~~^ 2025-09-08T01:08:21,349 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,349 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,349 | ^~~~~~~~~~ 2025-09-08T01:08:21,349 rnacounter/rnacounter.c:29054:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,349 29054 | __pyx_codeobj__80 = (PyObject*)__Pyx_PyCode_New(3, 0, 20, 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;} 2025-09-08T01:08:21,349 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,349 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,350 213 | PyCode_New( 2025-09-08T01:08:21,350 | ^~~~~~~~~~ 2025-09-08T01:08:21,382 rnacounter/rnacounter.c:29063:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:21,382 29063 | __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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,382 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,382 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,382 213 | PyCode_New( 2025-09-08T01:08:21,382 | ^~~~~~~~~~ 2025-09-08T01:08:21,418 rnacounter/rnacounter.c:29063:248: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:21,418 29063 | __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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,419 | ^~~ 2025-09-08T01:08:21,419 | | 2025-09-08T01:08:21,419 | int 2025-09-08T01:08:21,419 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,419 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,419 | ^~~~~ 2025-09-08T01:08:21,419 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:21,419 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,419 | ~~~~~~~~~~^ 2025-09-08T01:08:21,455 rnacounter/rnacounter.c:29063:253: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,455 29063 | __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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,455 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,455 | | 2025-09-08T01:08:21,455 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,455 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,456 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,456 | ^~~~ 2025-09-08T01:08:21,456 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,456 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,456 | ~~~~^ 2025-09-08T01:08:21,491 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,492 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,492 | ^~~~~~~~~~ 2025-09-08T01:08:21,492 rnacounter/rnacounter.c:29063:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,492 29063 | __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, 824, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__81)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 824; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,492 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,492 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,492 213 | PyCode_New( 2025-09-08T01:08:21,492 | ^~~~~~~~~~ 2025-09-08T01:08:21,525 rnacounter/rnacounter.c:29075:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:21,525 29075 | __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, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,525 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,525 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,525 213 | PyCode_New( 2025-09-08T01:08:21,525 | ^~~~~~~~~~ 2025-09-08T01:08:21,561 rnacounter/rnacounter.c:29075:240: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:21,561 29075 | __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, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,561 | ^~~ 2025-09-08T01:08:21,561 | | 2025-09-08T01:08:21,562 | int 2025-09-08T01:08:21,562 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,562 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,562 | ^~~~~ 2025-09-08T01:08:21,562 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:21,562 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,562 | ~~~~~~~~~~^ 2025-09-08T01:08:21,598 rnacounter/rnacounter.c:29075:245: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,598 29075 | __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, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,598 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,598 | | 2025-09-08T01:08:21,598 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,598 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,598 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,598 | ^~~~ 2025-09-08T01:08:21,599 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,599 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,599 | ~~~~^ 2025-09-08T01:08:21,634 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,634 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,635 | ^~~~~~~~~~ 2025-09-08T01:08:21,635 rnacounter/rnacounter.c:29075:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,635 29075 | __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, 827, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__83)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 827; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,635 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,635 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,635 213 | PyCode_New( 2025-09-08T01:08:21,635 | ^~~~~~~~~~ 2025-09-08T01:08:21,668 rnacounter/rnacounter.c:29087:3: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:21,668 29087 | __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, 831, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 831; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,668 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,668 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,668 213 | PyCode_New( 2025-09-08T01:08:21,668 | ^~~~~~~~~~ 2025-09-08T01:08:21,704 rnacounter/rnacounter.c:29087:245: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:21,704 29087 | __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, 831, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 831; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,704 | ^~~ 2025-09-08T01:08:21,704 | | 2025-09-08T01:08:21,705 | int 2025-09-08T01:08:21,705 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,705 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,705 | ^~~~~ 2025-09-08T01:08:21,705 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:21,705 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,705 | ~~~~~~~~~~^ 2025-09-08T01:08:21,741 rnacounter/rnacounter.c:29087:250: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:21,741 29087 | __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, 831, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 831; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,741 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,741 | | 2025-09-08T01:08:21,741 | PyObject * {aka struct _object *} 2025-09-08T01:08:21,741 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,741 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,741 | ^~~~ 2025-09-08T01:08:21,742 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:21,742 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:21,742 | ~~~~^ 2025-09-08T01:08:21,777 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:21,777 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:21,778 | ^~~~~~~~~~ 2025-09-08T01:08:21,778 rnacounter/rnacounter.c:29087:34: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:21,778 29087 | __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, 831, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__85)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 831; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-08T01:08:21,778 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:21,778 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:21,778 213 | PyCode_New( 2025-09-08T01:08:21,778 | ^~~~~~~~~~ 2025-09-08T01:08:21,781 rnacounter/rnacounter.c: In function ‘PyInit_rnacounter’: 2025-09-08T01:08:21,814 rnacounter/rnacounter.c:29191:53: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,814 29191 | __pyx_type_10rnacounter_10rnacounter_GenomicObject.tp_print = 0; 2025-09-08T01:08:21,814 | ^ 2025-09-08T01:08:21,847 rnacounter/rnacounter.c:29208:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,848 29208 | __pyx_type_10rnacounter_10rnacounter_Exon.tp_print = 0; 2025-09-08T01:08:21,848 | ^ 2025-09-08T01:08:21,881 rnacounter/rnacounter.c:29214:50: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,881 29214 | __pyx_type_10rnacounter_10rnacounter_Transcript.tp_print = 0; 2025-09-08T01:08:21,881 | ^ 2025-09-08T01:08:21,914 rnacounter/rnacounter.c:29219:44: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,914 29219 | __pyx_type_10rnacounter_10rnacounter_Gene.tp_print = 0; 2025-09-08T01:08:21,914 | ^ 2025-09-08T01:08:21,947 rnacounter/rnacounter.c:29223:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,947 29223 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct__parse_gtf.tp_print = 0; 2025-09-08T01:08:21,948 | ^ 2025-09-08T01:08:21,980 rnacounter/rnacounter.c:29226:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:21,981 29226 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_1_genexpr.tp_print = 0; 2025-09-08T01:08:21,981 | ^ 2025-09-08T01:08:22,014 rnacounter/rnacounter.c:29229:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,014 29229 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_2_genexpr.tp_print = 0; 2025-09-08T01:08:22,014 | ^ 2025-09-08T01:08:22,047 rnacounter/rnacounter.c:29232:65: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,047 29232 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_3_join.tp_print = 0; 2025-09-08T01:08:22,047 | ^ 2025-09-08T01:08:22,080 rnacounter/rnacounter.c:29235:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,080 29235 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_4_genexpr.tp_print = 0; 2025-09-08T01:08:22,080 | ^ 2025-09-08T01:08:22,113 rnacounter/rnacounter.c:29238:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,113 29238 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_5_genexpr.tp_print = 0; 2025-09-08T01:08:22,114 | ^ 2025-09-08T01:08:22,146 rnacounter/rnacounter.c:29241:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,147 29241 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_6_genexpr.tp_print = 0; 2025-09-08T01:08:22,147 | ^ 2025-09-08T01:08:22,180 rnacounter/rnacounter.c:29244:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,180 29244 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_7_process_chunk.tp_print = 0; 2025-09-08T01:08:22,180 | ^ 2025-09-08T01:08:22,213 rnacounter/rnacounter.c:29247:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,213 29247 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_8_genexpr.tp_print = 0; 2025-09-08T01:08:22,213 | ^ 2025-09-08T01:08:22,246 rnacounter/rnacounter.c:29250:68: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,246 29250 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_9_genexpr.tp_print = 0; 2025-09-08T01:08:22,247 | ^ 2025-09-08T01:08:22,279 rnacounter/rnacounter.c:29253:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,280 29253 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_10_genexpr.tp_print = 0; 2025-09-08T01:08:22,280 | ^ 2025-09-08T01:08:22,313 rnacounter/rnacounter.c:29256:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,313 29256 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_11_genexpr.tp_print = 0; 2025-09-08T01:08:22,313 | ^ 2025-09-08T01:08:22,346 rnacounter/rnacounter.c:29259:74: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,346 29259 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_12_print_output.tp_print = 0; 2025-09-08T01:08:22,346 | ^ 2025-09-08T01:08:22,379 rnacounter/rnacounter.c:29262:72: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,379 29262 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_13_parse_args.tp_print = 0; 2025-09-08T01:08:22,379 | ^ 2025-09-08T01:08:22,412 rnacounter/rnacounter.c:29265:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,413 29265 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_14_genexpr.tp_print = 0; 2025-09-08T01:08:22,413 | ^ 2025-09-08T01:08:22,446 rnacounter/rnacounter.c:29268:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,446 29268 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_15_genexpr.tp_print = 0; 2025-09-08T01:08:22,446 | ^ 2025-09-08T01:08:22,479 rnacounter/rnacounter.c:29271:69: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2025-09-08T01:08:22,479 29271 | __pyx_type_10rnacounter_10rnacounter___pyx_scope_struct_16_genexpr.tp_print = 0; 2025-09-08T01:08:22,479 | ^ 2025-09-08T01:08:22,534 rnacounter/rnacounter.c: In function ‘__Pyx_PyUnicode_Equals’: 2025-09-08T01:08:22,572 rnacounter/rnacounter.c:84:51: error: implicit declaration of function ‘_PyUnicode_Ready’; did you mean ‘PyUnicode_READY’? [-Wimplicit-function-declaration] 2025-09-08T01:08:22,572 84 | 0 : _PyUnicode_Ready((PyObject *)(op))) 2025-09-08T01:08:22,572 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:22,572 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:22,572 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:22,572 | ^ 2025-09-08T01:08:22,572 rnacounter/rnacounter.c:29795:22: note: in expansion of macro ‘__Pyx_PyUnicode_READY’ 2025-09-08T01:08:22,573 29795 | if (unlikely(__Pyx_PyUnicode_READY(s1) < 0) || unlikely(__Pyx_PyUnicode_READY(s2) < 0)) 2025-09-08T01:08:22,573 | ^~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:22,621 rnacounter/rnacounter.c: In function ‘__Pyx_ErrRestore’: 2025-09-08T01:08:22,655 rnacounter/rnacounter.c:29887:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,655 29887 | tmp_type = tstate->curexc_type; 2025-09-08T01:08:22,655 | ^~ 2025-09-08T01:08:22,689 rnacounter/rnacounter.c:29888:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,690 29888 | tmp_value = tstate->curexc_value; 2025-09-08T01:08:22,690 | ^~ 2025-09-08T01:08:22,724 rnacounter/rnacounter.c:29889:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,724 29889 | tmp_tb = tstate->curexc_traceback; 2025-09-08T01:08:22,724 | ^~ 2025-09-08T01:08:22,758 rnacounter/rnacounter.c:29890:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,758 29890 | tstate->curexc_type = type; 2025-09-08T01:08:22,758 | ^~ 2025-09-08T01:08:22,793 rnacounter/rnacounter.c:29891:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,793 29891 | tstate->curexc_value = value; 2025-09-08T01:08:22,793 | ^~ 2025-09-08T01:08:22,827 rnacounter/rnacounter.c:29892:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,827 29892 | tstate->curexc_traceback = tb; 2025-09-08T01:08:22,827 | ^~ 2025-09-08T01:08:22,827 rnacounter/rnacounter.c: In function ‘__Pyx_ErrFetch’: 2025-09-08T01:08:22,862 rnacounter/rnacounter.c:29903:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,862 29903 | *type = tstate->curexc_type; 2025-09-08T01:08:22,862 | ^~ 2025-09-08T01:08:22,896 rnacounter/rnacounter.c:29904:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,896 29904 | *value = tstate->curexc_value; 2025-09-08T01:08:22,896 | ^~ 2025-09-08T01:08:22,930 rnacounter/rnacounter.c:29905:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:22,931 29905 | *tb = tstate->curexc_traceback; 2025-09-08T01:08:22,931 | ^~ 2025-09-08T01:08:22,965 rnacounter/rnacounter.c:29906:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:22,965 29906 | tstate->curexc_type = 0; 2025-09-08T01:08:22,965 | ^~ 2025-09-08T01:08:22,999 rnacounter/rnacounter.c:29907:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:22,999 29907 | tstate->curexc_value = 0; 2025-09-08T01:08:22,999 | ^~ 2025-09-08T01:08:23,034 rnacounter/rnacounter.c:29908:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:23,034 29908 | tstate->curexc_traceback = 0; 2025-09-08T01:08:23,034 | ^~ 2025-09-08T01:08:23,101 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2025-09-08T01:08:23,150 rnacounter/rnacounter.c:30105:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:23,151 30105 | *type = tstate->exc_type; 2025-09-08T01:08:23,151 | ^~~~~~~~ 2025-09-08T01:08:23,151 | exc_state 2025-09-08T01:08:23,185 rnacounter/rnacounter.c:30106:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:23,185 30106 | *value = tstate->exc_value; 2025-09-08T01:08:23,185 | ^~ 2025-09-08T01:08:23,219 rnacounter/rnacounter.c:30107:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:23,219 30107 | *tb = tstate->exc_traceback; 2025-09-08T01:08:23,219 | ^~ 2025-09-08T01:08:23,219 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2025-09-08T01:08:23,268 rnacounter/rnacounter.c:30119:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:23,268 30119 | tmp_type = tstate->exc_type; 2025-09-08T01:08:23,269 | ^~~~~~~~ 2025-09-08T01:08:23,269 | exc_state 2025-09-08T01:08:23,302 rnacounter/rnacounter.c:30120:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:23,303 30120 | tmp_value = tstate->exc_value; 2025-09-08T01:08:23,303 | ^~ 2025-09-08T01:08:23,336 rnacounter/rnacounter.c:30121:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:23,337 30121 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:23,337 | ^~ 2025-09-08T01:08:23,386 rnacounter/rnacounter.c:30122:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:23,386 30122 | tstate->exc_type = type; 2025-09-08T01:08:23,386 | ^~~~~~~~ 2025-09-08T01:08:23,386 | exc_state 2025-09-08T01:08:23,420 rnacounter/rnacounter.c:30123:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:23,420 30123 | tstate->exc_value = value; 2025-09-08T01:08:23,420 | ^~ 2025-09-08T01:08:23,454 rnacounter/rnacounter.c:30124:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:23,454 30124 | tstate->exc_traceback = tb; 2025-09-08T01:08:23,454 | ^~ 2025-09-08T01:08:23,454 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2025-09-08T01:08:23,488 rnacounter/rnacounter.c:30138:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:23,488 30138 | local_type = tstate->curexc_type; 2025-09-08T01:08:23,488 | ^~ 2025-09-08T01:08:23,522 rnacounter/rnacounter.c:30139:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:23,522 30139 | local_value = tstate->curexc_value; 2025-09-08T01:08:23,522 | ^~ 2025-09-08T01:08:23,556 rnacounter/rnacounter.c:30140:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:23,556 30140 | local_tb = tstate->curexc_traceback; 2025-09-08T01:08:23,557 | ^~ 2025-09-08T01:08:23,590 rnacounter/rnacounter.c:30141:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:23,591 30141 | tstate->curexc_type = 0; 2025-09-08T01:08:23,591 | ^~ 2025-09-08T01:08:23,625 rnacounter/rnacounter.c:30142:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:23,625 30142 | tstate->curexc_value = 0; 2025-09-08T01:08:23,625 | ^~ 2025-09-08T01:08:23,659 rnacounter/rnacounter.c:30143:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:23,659 30143 | tstate->curexc_traceback = 0; 2025-09-08T01:08:23,659 | ^~ 2025-09-08T01:08:23,693 rnacounter/rnacounter.c:30149:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:23,693 30149 | if (unlikely(tstate->curexc_type)) 2025-09-08T01:08:23,693 | ^~ 2025-09-08T01:08:23,693 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:23,693 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:23,693 | ^ 2025-09-08T01:08:23,754 rnacounter/rnacounter.c:30167:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:23,755 30167 | tmp_type = tstate->exc_type; 2025-09-08T01:08:23,755 | ^~~~~~~~ 2025-09-08T01:08:23,755 | exc_state 2025-09-08T01:08:23,788 rnacounter/rnacounter.c:30168:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:23,789 30168 | tmp_value = tstate->exc_value; 2025-09-08T01:08:23,789 | ^~ 2025-09-08T01:08:23,823 rnacounter/rnacounter.c:30169:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:23,823 30169 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:23,823 | ^~ 2025-09-08T01:08:23,872 rnacounter/rnacounter.c:30170:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:23,872 30170 | tstate->exc_type = local_type; 2025-09-08T01:08:23,872 | ^~~~~~~~ 2025-09-08T01:08:23,872 | exc_state 2025-09-08T01:08:23,906 rnacounter/rnacounter.c:30171:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:23,906 30171 | tstate->exc_value = local_value; 2025-09-08T01:08:23,906 | ^~ 2025-09-08T01:08:23,940 rnacounter/rnacounter.c:30172:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:23,940 30172 | tstate->exc_traceback = local_tb; 2025-09-08T01:08:23,940 | ^~ 2025-09-08T01:08:23,967 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-08T01:08:24,017 rnacounter/rnacounter.c:30276:22: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-08T01:08:24,017 30276 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2025-09-08T01:08:24,017 | ^~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:24,017 | PyDict_GET_SIZE 2025-09-08T01:08:24,130 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2025-09-08T01:08:24,164 rnacounter/rnacounter.c:30502:34: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:24,165 30502 | PyObject* tmp_tb = tstate->curexc_traceback; 2025-09-08T01:08:24,165 | ^~ 2025-09-08T01:08:24,200 rnacounter/rnacounter.c:30505:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:24,200 30505 | tstate->curexc_traceback = tb; 2025-09-08T01:08:24,200 | ^~ 2025-09-08T01:08:24,257 rnacounter/rnacounter.c: In function ‘__Pyx_PyIter_Next2’: 2025-09-08T01:08:24,292 rnacounter/rnacounter.c:30550:31: error: ‘_PyObject_NextNotImplemented’ undeclared (first use in this function); did you mean ‘PyObject_HashNotImplemented’? 2025-09-08T01:08:24,292 30550 | if (unlikely(iternext == &_PyObject_NextNotImplemented)) 2025-09-08T01:08:24,292 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:24,292 rnacounter/rnacounter.c:405:43: note: in definition of macro ‘unlikely’ 2025-09-08T01:08:24,292 405 | #define unlikely(x) __builtin_expect(!!(x), 0) 2025-09-08T01:08:24,292 | ^ 2025-09-08T01:08:24,329 rnacounter/rnacounter.c: In function ‘__Pyx_IterFinish’: 2025-09-08T01:08:24,364 rnacounter/rnacounter.c:30714:32: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:24,365 30714 | PyObject* exc_type = tstate->curexc_type; 2025-09-08T01:08:24,365 | ^~ 2025-09-08T01:08:24,400 rnacounter/rnacounter.c:30718:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:24,400 30718 | exc_value = tstate->curexc_value; 2025-09-08T01:08:24,400 | ^~ 2025-09-08T01:08:24,435 rnacounter/rnacounter.c:30719:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:24,435 30719 | exc_tb = tstate->curexc_traceback; 2025-09-08T01:08:24,435 | ^~ 2025-09-08T01:08:24,470 rnacounter/rnacounter.c:30720:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-08T01:08:24,470 30720 | tstate->curexc_type = 0; 2025-09-08T01:08:24,470 | ^~ 2025-09-08T01:08:24,505 rnacounter/rnacounter.c:30721:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-08T01:08:24,505 30721 | tstate->curexc_value = 0; 2025-09-08T01:08:24,505 | ^~ 2025-09-08T01:08:24,540 rnacounter/rnacounter.c:30722:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-08T01:08:24,541 30722 | tstate->curexc_traceback = 0; 2025-09-08T01:08:24,541 | ^~ 2025-09-08T01:08:25,031 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2025-09-08T01:08:25,085 rnacounter/rnacounter.c:32066:16: error: implicit declaration of function ‘PyCFunction_Call’; did you mean ‘PyCFunction_New’? [-Wimplicit-function-declaration] 2025-09-08T01:08:25,085 32066 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:08:25,085 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,085 | PyCFunction_New 2025-09-08T01:08:25,126 rnacounter/rnacounter.c:32066:16: error: returning ‘int’ from a function with return type ‘PyObject *’ {aka ‘struct _object *’} makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:25,126 32066 | return PyCFunction_Call(func, arg, kw); 2025-09-08T01:08:25,126 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,145 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2025-09-08T01:08:25,196 rnacounter/rnacounter.c:32131:41: error: ‘PyCFunction_Call’ undeclared (first use in this function); did you mean ‘PyCFunction_New’? 2025-09-08T01:08:25,197 32131 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2025-09-08T01:08:25,197 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,197 | PyCFunction_New 2025-09-08T01:08:25,241 rnacounter/rnacounter.c: In function ‘__Pyx_CreateCodeObjectForTraceback’: 2025-09-08T01:08:25,278 rnacounter/rnacounter.c:32307:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-08T01:08:25,278 32307 | py_code = __Pyx_PyCode_New( 2025-09-08T01:08:25,278 | ^~~~~~~ 2025-09-08T01:08:25,278 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:25,278 213 | PyCode_New( 2025-09-08T01:08:25,278 | ^~~~~~~~~~ 2025-09-08T01:08:25,314 rnacounter/rnacounter.c:32321:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-08T01:08:25,314 32321 | py_line, 2025-09-08T01:08:25,315 | ^~~~~~~ 2025-09-08T01:08:25,315 | | 2025-09-08T01:08:25,315 | int 2025-09-08T01:08:25,315 rnacounter/rnacounter.c:70:72: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:25,315 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:25,315 | ^~~~~ 2025-09-08T01:08:25,315 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-08T01:08:25,315 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:25,315 | ~~~~~~~~~~^ 2025-09-08T01:08:25,355 rnacounter/rnacounter.c:32322:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:25,355 32322 | __pyx_empty_bytes /*PyObject *lnotab*/ 2025-09-08T01:08:25,355 | ^~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,355 | | 2025-09-08T01:08:25,355 | PyObject * {aka struct _object *} 2025-09-08T01:08:25,356 rnacounter/rnacounter.c:70:79: note: in definition of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:25,356 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:25,356 | ^~~~ 2025-09-08T01:08:25,356 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-08T01:08:25,356 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-08T01:08:25,356 | ~~~~^ 2025-09-08T01:08:25,396 rnacounter/rnacounter.c:70:11: error: too few arguments to function ‘PyCode_New’ 2025-09-08T01:08:25,396 70 | PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) 2025-09-08T01:08:25,396 | ^~~~~~~~~~ 2025-09-08T01:08:25,396 rnacounter/rnacounter.c:32307:15: note: in expansion of macro ‘__Pyx_PyCode_New’ 2025-09-08T01:08:25,396 32307 | py_code = __Pyx_PyCode_New( 2025-09-08T01:08:25,396 | ^~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,396 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-08T01:08:25,396 213 | PyCode_New( 2025-09-08T01:08:25,397 | ^~~~~~~~~~ 2025-09-08T01:08:25,413 rnacounter/rnacounter.c: In function ‘__Pyx_AddTraceback’: 2025-09-08T01:08:25,449 rnacounter/rnacounter.c:32350:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:25,449 32350 | py_frame->f_lineno = py_line; 2025-09-08T01:08:25,449 | ^~ 2025-09-08T01:08:25,451 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_int’: 2025-09-08T01:08:25,487 rnacounter/rnacounter.c:32471:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:08:25,488 32471 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:08:25,488 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,488 In file included from /usr/include/python3.13/longobject.h:107, 2025-09-08T01:08:25,488 from /usr/include/python3.13/Python.h:81: 2025-09-08T01:08:25,488 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:08:25,488 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:08:25,488 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,534 rnacounter/rnacounter.c: In function ‘__Pyx_PyInt_As_long’: 2025-09-08T01:08:25,570 rnacounter/rnacounter.c:32926:27: error: too few arguments to function ‘_PyLong_AsByteArray’ 2025-09-08T01:08:25,570 32926 | int ret = _PyLong_AsByteArray((PyLongObject *)v, 2025-09-08T01:08:25,570 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,570 /usr/include/python3.13/cpython/longobject.h:111:17: note: declared here 2025-09-08T01:08:25,571 111 | PyAPI_FUNC(int) _PyLong_AsByteArray(PyLongObject* v, 2025-09-08T01:08:25,571 | ^~~~~~~~~~~~~~~~~~~ 2025-09-08T01:08:25,579 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2025-09-08T01:08:25,634 rnacounter/rnacounter.c:32958:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:25,634 32958 | tmp_type = tstate->exc_type; 2025-09-08T01:08:25,634 | ^~~~~~~~ 2025-09-08T01:08:25,634 | exc_state 2025-09-08T01:08:25,672 rnacounter/rnacounter.c:32959:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:25,672 32959 | tmp_value = tstate->exc_value; 2025-09-08T01:08:25,672 | ^~ 2025-09-08T01:08:25,710 rnacounter/rnacounter.c:32960:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:25,710 32960 | tmp_tb = tstate->exc_traceback; 2025-09-08T01:08:25,710 | ^~ 2025-09-08T01:08:25,764 rnacounter/rnacounter.c:32961:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-08T01:08:25,764 32961 | tstate->exc_type = *type; 2025-09-08T01:08:25,764 | ^~~~~~~~ 2025-09-08T01:08:25,764 | exc_state 2025-09-08T01:08:25,802 rnacounter/rnacounter.c:32962:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-08T01:08:25,802 32962 | tstate->exc_value = *value; 2025-09-08T01:08:25,802 | ^~ 2025-09-08T01:08:25,840 rnacounter/rnacounter.c:32963:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-08T01:08:25,840 32963 | tstate->exc_traceback = *tb; 2025-09-08T01:08:25,840 | ^~ 2025-09-08T01:08:25,842 In file included from /usr/include/python3.13/Python.h:63: 2025-09-08T01:08:25,842 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_SendEx’: 2025-09-08T01:08:25,920 rnacounter/rnacounter.c:33083:30: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:08:25,921 33083 | Py_XINCREF(tstate->frame); 2025-09-08T01:08:25,921 | ^~ 2025-09-08T01:08:25,921 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-08T01:08:25,921 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-08T01:08:25,921 | ^~~~ 2025-09-08T01:08:25,921 /usr/include/python3.13/object.h:1041:37: note: in expansion of macro ‘_PyObject_CAST’ 2025-09-08T01:08:25,921 1041 | # define Py_XINCREF(op) Py_XINCREF(_PyObject_CAST(op)) 2025-09-08T01:08:25,921 | ^~~~~~~~~~~~~~ 2025-09-08T01:08:25,921 rnacounter/rnacounter.c:33083:13: note: in expansion of macro ‘Py_XINCREF’ 2025-09-08T01:08:25,921 33083 | Py_XINCREF(tstate->frame); 2025-09-08T01:08:25,921 | ^~~~~~~~~~ 2025-09-08T01:08:25,957 rnacounter/rnacounter.c:33085:14: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:25,957 33085 | f->f_back = tstate->frame; 2025-09-08T01:08:25,957 | ^~ 2025-09-08T01:08:25,998 rnacounter/rnacounter.c:33085:31: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-08T01:08:25,998 33085 | f->f_back = tstate->frame; 2025-09-08T01:08:25,998 | ^~ 2025-09-08T01:08:26,076 rnacounter/rnacounter.c:33104:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:26,076 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,076 | ^~ 2025-09-08T01:08:26,076 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:08:26,076 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:08:26,076 | ^~~~ 2025-09-08T01:08:26,076 rnacounter/rnacounter.c:33104:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:26,077 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,077 | ^~~~~~~~ 2025-09-08T01:08:26,117 In file included from /usr/include/python3.13/Python.h:72: 2025-09-08T01:08:26,117 rnacounter/rnacounter.c:33104:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:26,117 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,117 | ^~ 2025-09-08T01:08:26,117 /usr/include/python3.13/object.h:1012:41: note: in definition of macro ‘Py_CLEAR’ 2025-09-08T01:08:26,117 1012 | _Py_TYPEOF(op)* _tmp_op_ptr = &(op); \ 2025-09-08T01:08:26,117 | ^~ 2025-09-08T01:08:26,198 rnacounter/rnacounter.c:33104:23: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-08T01:08:26,198 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,198 | ^~ 2025-09-08T01:08:26,199 /usr/include/python3.13/pyport.h:558:39: note: in definition of macro ‘_Py_TYPEOF’ 2025-09-08T01:08:26,199 558 | # define _Py_TYPEOF(expr) __typeof__(expr) 2025-09-08T01:08:26,199 | ^~~~ 2025-09-08T01:08:26,199 rnacounter/rnacounter.c:33104:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:26,199 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,199 | ^~~~~~~~ 2025-09-08T01:08:26,239 /usr/include/python3.13/object.h:1014:25: warning: comparison between pointer and integer 2025-09-08T01:08:26,239 1014 | if (_tmp_old_op != NULL) { \ 2025-09-08T01:08:26,239 | ^~ 2025-09-08T01:08:26,239 rnacounter/rnacounter.c:33104:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:26,240 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,240 | ^~~~~~~~ 2025-09-08T01:08:26,280 /usr/include/python3.13/object.h:1015:26: error: assignment to ‘int’ from ‘void *’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-08T01:08:26,280 1015 | *_tmp_op_ptr = _Py_NULL; \ 2025-09-08T01:08:26,280 | ^ 2025-09-08T01:08:26,280 rnacounter/rnacounter.c:33104:13: note: in expansion of macro ‘Py_CLEAR’ 2025-09-08T01:08:26,280 33104 | Py_CLEAR(f->f_back); 2025-09-08T01:08:26,281 | ^~~~~~~~ 2025-09-08T01:08:26,878 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-08T01:08:27,048 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T01:08:27,059 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T01:08:27,059 exec(compile('"'"''"'"''"'"' 2025-09-08T01:08:27,059 # This is -- a caller that pip uses to run setup.py 2025-09-08T01:08:27,059 # 2025-09-08T01:08:27,059 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T01:08:27,059 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T01:08:27,059 # - It provides a clear error message when setuptools is not installed. 2025-09-08T01:08:27,059 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T01:08:27,059 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T01:08:27,059 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T01:08:27,059 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T01:08:27,059 import os, sys, tokenize, traceback 2025-09-08T01:08:27,059 2025-09-08T01:08:27,059 try: 2025-09-08T01:08:27,059 import setuptools 2025-09-08T01:08:27,059 except ImportError: 2025-09-08T01:08:27,059 print( 2025-09-08T01:08:27,059 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T01:08:27,059 "the build environment with exception:", 2025-09-08T01:08:27,059 file=sys.stderr, 2025-09-08T01:08:27,059 ) 2025-09-08T01:08:27,059 traceback.print_exc() 2025-09-08T01:08:27,059 sys.exit(1) 2025-09-08T01:08:27,059 2025-09-08T01:08:27,059 __file__ = %r 2025-09-08T01:08:27,059 sys.argv[0] = __file__ 2025-09-08T01:08:27,059 2025-09-08T01:08:27,059 if os.path.exists(__file__): 2025-09-08T01:08:27,059 filename = __file__ 2025-09-08T01:08:27,059 with tokenize.open(__file__) as f: 2025-09-08T01:08:27,059 setup_py_code = f.read() 2025-09-08T01:08:27,059 else: 2025-09-08T01:08:27,059 filename = "" 2025-09-08T01:08:27,059 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T01:08:27,059 2025-09-08T01:08:27,059 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T01:08:27,059 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-sltv9vyh/rnacounter_5b765ec5b5e645e9a323bb8161562f67/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-ibik7f1o[/] 2025-09-08T01:08:27,059 [bold magenta]cwd[/]: /tmp/pip-wheel-sltv9vyh/rnacounter_5b765ec5b5e645e9a323bb8161562f67/ 2025-09-08T01:08:27,059 Building wheel for rnacounter (setup.py): finished with status 'error' 2025-09-08T01:08:27,060 ERROR: Failed building wheel for rnacounter 2025-09-08T01:08:27,061 Running setup.py clean for rnacounter 2025-09-08T01:08:27,062 Running command python setup.py clean 2025-09-08T01:08:28,026 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-08T01:08:28,026 warnings.warn(msg) 2025-09-08T01:08:28,484 running clean 2025-09-08T01:08:28,630 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:08:28,630 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T01:08:28,631 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T01:08:28,631 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T01:08:28,632 removing 'build' 2025-09-08T01:08:28,766 Failed to build rnacounter 2025-09-08T01:08:28,767 ERROR: Failed to build one or more wheels 2025-09-08T01:08:28,768 Exception information: 2025-09-08T01:08:28,768 Traceback (most recent call last): 2025-09-08T01:08:28,768 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T01:08:28,768 status = _inner_run() 2025-09-08T01:08:28,768 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T01:08:28,768 return self.run(options, args) 2025-09-08T01:08:28,768 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T01:08:28,768 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T01:08:28,768 return func(self, options, args) 2025-09-08T01:08:28,768 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T01:08:28,768 raise CommandError("Failed to build one or more wheels") 2025-09-08T01:08:28,768 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T01:08:28,772 Removed build tracker: '/tmp/pip-build-tracker-_9juy0qb'