2021-07-10T02:58:50,089 Created temporary directory: /tmp/pip-ephem-wheel-cache-lhlbt9f4 2021-07-10T02:58:50,092 Created temporary directory: /tmp/pip-req-tracker-ap0ygfxz 2021-07-10T02:58:50,092 Initialized build tracking at /tmp/pip-req-tracker-ap0ygfxz 2021-07-10T02:58:50,092 Created build tracker: /tmp/pip-req-tracker-ap0ygfxz 2021-07-10T02:58:50,092 Entered build tracker: /tmp/pip-req-tracker-ap0ygfxz 2021-07-10T02:58:50,093 Created temporary directory: /tmp/pip-wheel-io6m1ft1 2021-07-10T02:58:50,125 1 location(s) to search for versions of rnacounter: 2021-07-10T02:58:50,125 * https://pypi.org/simple/rnacounter/ 2021-07-10T02:58:50,126 Fetching project page and analyzing links: https://pypi.org/simple/rnacounter/ 2021-07-10T02:58:50,126 Getting page https://pypi.org/simple/rnacounter/ 2021-07-10T02:58:50,128 Found index url https://pypi.org/simple 2021-07-10T02:58:50,221 Found link https://files.pythonhosted.org/packages/8f/49/762bb78c6a1215e30ccd9702444375015a50b14847266db0c2f11219e78f/rnacounter-1.1.2.tar.gz#sha256=7e542679e8e9c80380d63e1a60d9131572a3e0569f6058af572574a7f4d55856 (from https://pypi.org/simple/rnacounter/), version: 1.1.2 2021-07-10T02:58:50,222 Found link https://files.pythonhosted.org/packages/04/c4/e2924af98cbf63c98cc5a9d210c3c54d959cf961fba4df5da3972afc84ae/rnacounter-1.1.3.1.tar.gz#sha256=6f87205f96cbe5e9ae2c0833f75e66f84ab036a389cf229887fbb9ab76bc845a (from https://pypi.org/simple/rnacounter/), version: 1.1.3.1 2021-07-10T02:58:50,222 Found link https://files.pythonhosted.org/packages/39/70/41efc4ca6703ffdbdbab1dcd66976ed9a30c363b6f5ba417501e2dd9fb00/rnacounter-1.1.3.2.tar.gz#sha256=faa4afc97daeea8658666a11a89c5671845acdeee998da950f4afdd887e60119 (from https://pypi.org/simple/rnacounter/), version: 1.1.3.2 2021-07-10T02:58:50,222 Found link https://files.pythonhosted.org/packages/b1/1c/9f8deaa78b994019b9024043168567099fe010c79018373e2f6ed60ea646/rnacounter-1.1.3.7.tar.gz#sha256=95aade7f65f42577e8f6a2ef586b82e298a761d7e74d216d5405d10b626de880 (from https://pypi.org/simple/rnacounter/), version: 1.1.3.7 2021-07-10T02:58:50,223 Found link https://files.pythonhosted.org/packages/14/a1/be9b12f40d130b182ed0d5d01b36f76e6089805a5c945d77941f5eb0928e/rnacounter-1.1.3.10.tar.gz#sha256=0411fcc0609563a01fb0c735dc70293898fb773ae63484ce248395327cbe2716 (from https://pypi.org/simple/rnacounter/), version: 1.1.3.10 2021-07-10T02:58:50,223 Found link https://files.pythonhosted.org/packages/8a/5e/1b112fc6343bf52ace3a9afaa30eabaf4338afadabf1fb97454a7556b835/rnacounter-1.2.tar.gz#sha256=d63cb98d0aa90339c2dbe27741a361f9778e9617585e04a35d078421e364ba0d (from https://pypi.org/simple/rnacounter/), version: 1.2 2021-07-10T02:58:50,223 Found link https://files.pythonhosted.org/packages/05/7d/42ecc29d98f52b77953a55da4836d36d534b317b4d66af971c9008804b61/rnacounter-1.2.1.tar.gz#sha256=cabc26fa3c1166cb190a94a4e0e642dce8747cc00bc07041a34fd895ef154b52 (from https://pypi.org/simple/rnacounter/), version: 1.2.1 2021-07-10T02:58:50,224 Found link https://files.pythonhosted.org/packages/dd/92/d53ee16c942fb78a312c03b22b0ddc08eb00ae4627f9125415a2c650b674/rnacounter-1.3.tar.gz#sha256=c45a5ae11e5a1a259d522054c688396df15d700b8389fca064e8d5fd4ee3e0f8 (from https://pypi.org/simple/rnacounter/), version: 1.3 2021-07-10T02:58:50,224 Found link https://files.pythonhosted.org/packages/49/18/a50e0e2b164272f6d13f458b43d6851766cf121b5672de12078df2bb953a/rnacounter-1.3.1.tar.gz#sha256=6a445bf59d0939a9ddf443a65402b2df6384acbfa9951c313b0c942d33ef23ce (from https://pypi.org/simple/rnacounter/), version: 1.3.1 2021-07-10T02:58:50,224 Found link https://files.pythonhosted.org/packages/ab/bf/54a012d6660528530b8404401bf494bda91947e38aae0d45ba4d721de6d4/rnacounter-1.4.tar.gz#sha256=48ef01f0d77a856dd9e9106a9185e996418366744b0950f8bc33bf2efaedb0b3 (from https://pypi.org/simple/rnacounter/), version: 1.4 2021-07-10T02:58:50,224 Found link https://files.pythonhosted.org/packages/84/c0/8f274da33c177f6a7c6d8632d9e99413c83e6ec688825677acace41cfdb1/rnacounter-1.4.1.tar.gz#sha256=09de574fc0432a31fa66a390e3f74cf5a1fff0b5089f60a70066b75f0da427b2 (from https://pypi.org/simple/rnacounter/), version: 1.4.1 2021-07-10T02:58:50,225 Found link https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz#sha256=b38e8e2da5d5642d19104e94763ec61bc48df4150ccd1d65250d1ac15b0fb8e0 (from https://pypi.org/simple/rnacounter/), version: 1.4.2 2021-07-10T02:58:50,225 Found link https://files.pythonhosted.org/packages/46/ee/29eed438b10276db92163dff3d25bcb91f3f9e99d9a629c35ddb97f27f4d/rnacounter-1.5.tar.gz#sha256=161cf00a14dabb7bd77ec61a2d4ba13f3e88df59b02c8e9742973df7e521fb6a (from https://pypi.org/simple/rnacounter/), version: 1.5 2021-07-10T02:58:50,225 Found link https://files.pythonhosted.org/packages/a2/ea/657e7b7aa7d777173695606509933b52d794b7dbb79501a87bfea2fb511f/rnacounter-1.5.2.tar.gz#sha256=7bcb98bbde40529d94df1fb803a014ad90deff36ed0bc52781b223c7325ec84e (from https://pypi.org/simple/rnacounter/), version: 1.5.2 2021-07-10T02:58:50,226 Skipping link: not a file: https://pypi.org/simple/rnacounter/ 2021-07-10T02:58:50,245 Given no hashes to check 1 links for project 'rnacounter': discarding no candidates 2021-07-10T02:58:50,264 Collecting rnacounter==1.4.2 2021-07-10T02:58:50,265 Created temporary directory: /tmp/pip-unpack-fzyedbyp 2021-07-10T02:58:50,814 Downloading rnacounter-1.4.2.tar.gz (297 kB) 2021-07-10T02:58:50,993 Added rnacounter==1.4.2 from https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz#sha256=b38e8e2da5d5642d19104e94763ec61bc48df4150ccd1d65250d1ac15b0fb8e0 to build tracker '/tmp/pip-req-tracker-ap0ygfxz' 2021-07-10T02:58:50,994 Running setup.py (path:/tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc/setup.py) egg_info for package rnacounter 2021-07-10T02:58:50,994 Created temporary directory: /tmp/pip-pip-egg-info-aimefppv 2021-07-10T02:58:50,995 Running command python setup.py egg_info 2021-07-10T02:58:52,061 running egg_info 2021-07-10T02:58:52,063 creating /tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info 2021-07-10T02:58:52,064 writing /tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/PKG-INFO 2021-07-10T02:58:52,067 writing dependency_links to /tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/dependency_links.txt 2021-07-10T02:58:52,069 writing requirements to /tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/requires.txt 2021-07-10T02:58:52,070 writing top-level names to /tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/top_level.txt 2021-07-10T02:58:52,072 writing manifest file '/tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/SOURCES.txt' 2021-07-10T02:58:52,423 reading manifest file '/tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/SOURCES.txt' 2021-07-10T02:58:52,424 reading manifest template 'MANIFEST.in' 2021-07-10T02:58:52,432 writing manifest file '/tmp/pip-pip-egg-info-aimefppv/rnacounter.egg-info/SOURCES.txt' 2021-07-10T02:58:52,534 Source in /tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc has version 1.4.2, which satisfies requirement rnacounter==1.4.2 from https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz#sha256=b38e8e2da5d5642d19104e94763ec61bc48df4150ccd1d65250d1ac15b0fb8e0 2021-07-10T02:58:52,535 Removed rnacounter==1.4.2 from https://files.pythonhosted.org/packages/45/3a/3cc530b864e9fbd87542c73df418d091aeaeb7b73863fb206e62494d988e/rnacounter-1.4.2.tar.gz#sha256=b38e8e2da5d5642d19104e94763ec61bc48df4150ccd1d65250d1ac15b0fb8e0 from build tracker '/tmp/pip-req-tracker-ap0ygfxz' 2021-07-10T02:58:52,540 Created temporary directory: /tmp/pip-unpack-7m3rxwwq 2021-07-10T02:58:52,541 Building wheels for collected packages: rnacounter 2021-07-10T02:58:52,545 Created temporary directory: /tmp/pip-wheel-pi8wx9nm 2021-07-10T02:58:52,545 Building wheel for rnacounter (setup.py): started 2021-07-10T02:58:52,546 Destination directory: /tmp/pip-wheel-pi8wx9nm 2021-07-10T02:58:52,546 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-pi8wx9nm 2021-07-10T02:58:53,606 running bdist_wheel 2021-07-10T02:58:53,800 running build 2021-07-10T02:58:53,800 running build_py 2021-07-10T02:58:53,941 creating build 2021-07-10T02:58:53,941 creating build/lib.linux-armv7l-3.9 2021-07-10T02:58:53,942 creating build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:53,943 copying rnacounter/draft_nocython.py -> build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:53,947 copying rnacounter/main.py -> build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:53,949 copying rnacounter/setup.py -> build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:53,950 copying rnacounter/__init__.py -> build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:53,953 creating build/lib.linux-armv7l-3.9/testfiles 2021-07-10T02:58:53,954 copying testfiles/__init__.py -> build/lib.linux-armv7l-3.9/testfiles 2021-07-10T02:58:53,955 running egg_info 2021-07-10T02:58:53,969 writing rnacounter.egg-info/PKG-INFO 2021-07-10T02:58:53,971 writing dependency_links to rnacounter.egg-info/dependency_links.txt 2021-07-10T02:58:53,973 writing requirements to rnacounter.egg-info/requires.txt 2021-07-10T02:58:53,974 writing top-level names to rnacounter.egg-info/top_level.txt 2021-07-10T02:58:53,981 reading manifest file 'rnacounter.egg-info/SOURCES.txt' 2021-07-10T02:58:53,983 reading manifest template 'MANIFEST.in' 2021-07-10T02:58:53,991 writing manifest file 'rnacounter.egg-info/SOURCES.txt' 2021-07-10T02:58:53,993 copying rnacounter/rnacounter.c -> build/lib.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:54,031 copying testfiles/gapdhKO.bam -> build/lib.linux-armv7l-3.9/testfiles 2021-07-10T02:58:54,037 copying testfiles/gapdhKO.bam.bai -> build/lib.linux-armv7l-3.9/testfiles 2021-07-10T02:58:54,041 copying testfiles/mm9_3genes_renamed.gtf -> build/lib.linux-armv7l-3.9/testfiles 2021-07-10T02:58:54,045 running build_ext 2021-07-10T02:58:54,050 building 'rnacounter/rnacounter' extension 2021-07-10T02:58:54,051 creating build/temp.linux-armv7l-3.9 2021-07-10T02:58:54,052 creating build/temp.linux-armv7l-3.9/rnacounter 2021-07-10T02:58:54,053 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c rnacounter/rnacounter.c -o build/temp.linux-armv7l-3.9/rnacounter/rnacounter.o 2021-07-10T02:58:54,490 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-10T02:58:54,490 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-10T02:58:54,491 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-10T02:58:54,491 from rnacounter/rnacounter.c:314: 2021-07-10T02:58:54,491 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-10T02:58:54,491 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-10T02:58:54,491 | ^~~~~~~ 2021-07-10T02:58:55,810 rnacounter/rnacounter.c: In function ‘__Pyx_GetException’: 2021-07-10T02:58:55,837 rnacounter/rnacounter.c:28873:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:55,837 28873 | tmp_type = tstate->exc_type; 2021-07-10T02:58:55,838 | ^~~~~~~~ 2021-07-10T02:58:55,838 | curexc_type 2021-07-10T02:58:55,865 rnacounter/rnacounter.c:28874:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:55,865 28874 | tmp_value = tstate->exc_value; 2021-07-10T02:58:55,865 | ^~~~~~~~~ 2021-07-10T02:58:55,866 | curexc_value 2021-07-10T02:58:55,893 rnacounter/rnacounter.c:28875:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:55,893 28875 | tmp_tb = tstate->exc_traceback; 2021-07-10T02:58:55,893 | ^~~~~~~~~~~~~ 2021-07-10T02:58:55,894 | curexc_traceback 2021-07-10T02:58:55,921 rnacounter/rnacounter.c:28876:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:55,921 28876 | tstate->exc_type = local_type; 2021-07-10T02:58:55,921 | ^~~~~~~~ 2021-07-10T02:58:55,921 | curexc_type 2021-07-10T02:58:55,949 rnacounter/rnacounter.c:28877:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:55,949 28877 | tstate->exc_value = local_value; 2021-07-10T02:58:55,949 | ^~~~~~~~~ 2021-07-10T02:58:55,949 | curexc_value 2021-07-10T02:58:55,976 rnacounter/rnacounter.c:28878:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:55,977 28878 | tstate->exc_traceback = local_tb; 2021-07-10T02:58:55,977 | ^~~~~~~~~~~~~ 2021-07-10T02:58:55,977 | curexc_traceback 2021-07-10T02:58:55,984 rnacounter/rnacounter.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-10T02:58:56,000 rnacounter/rnacounter.c:28984:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,000 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,000 | ^ 2021-07-10T02:58:56,000 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,001 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,001 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,001 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,001 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,001 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,019 rnacounter/rnacounter.c:28984:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,019 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,019 | ^ 2021-07-10T02:58:56,020 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,020 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,020 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,020 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T02:58:56,020 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T02:58:56,020 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,038 rnacounter/rnacounter.c:28984:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,038 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,038 | ^ 2021-07-10T02:58:56,038 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,039 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,039 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,039 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,039 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,039 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,057 rnacounter/rnacounter.c:28984:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,057 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,057 | ^ 2021-07-10T02:58:56,057 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,058 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,058 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,058 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,058 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,058 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,075 rnacounter/rnacounter.c:28984:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,076 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,076 | ^ 2021-07-10T02:58:56,076 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,076 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,076 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,076 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T02:58:56,076 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T02:58:56,077 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,094 rnacounter/rnacounter.c:28984:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,094 28984 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,095 | ^ 2021-07-10T02:58:56,095 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,095 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,095 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,095 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,095 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,095 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,117 rnacounter/rnacounter.c:29000:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,117 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,117 | ^ 2021-07-10T02:58:56,117 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,117 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,117 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,117 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,118 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,118 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,135 rnacounter/rnacounter.c:29000:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,135 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,136 | ^ 2021-07-10T02:58:56,136 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,136 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,136 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,136 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T02:58:56,136 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T02:58:56,136 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,154 rnacounter/rnacounter.c:29000:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,154 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,154 | ^ 2021-07-10T02:58:56,155 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,155 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,155 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,155 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,155 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,155 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,173 rnacounter/rnacounter.c:29000:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,173 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,173 | ^ 2021-07-10T02:58:56,173 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,173 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,173 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,174 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,174 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,174 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,191 rnacounter/rnacounter.c:29000:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,192 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,192 | ^ 2021-07-10T02:58:56,192 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,192 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,192 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,192 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-10T02:58:56,192 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-10T02:58:56,193 | ^~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,210 rnacounter/rnacounter.c:29000:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,211 29000 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-10T02:58:56,211 | ^ 2021-07-10T02:58:56,211 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-10T02:58:56,211 from /usr/include/python3.9/Python.h:97, 2021-07-10T02:58:56,211 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,211 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-10T02:58:56,211 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-10T02:58:56,211 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,269 rnacounter/rnacounter.c: In function ‘__Pyx_Raise’: 2021-07-10T02:58:56,284 rnacounter/rnacounter.c:29157:9: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,284 29157 | owned_instance = PyEval_CallObject(type, args); 2021-07-10T02:58:56,285 | ^~~~~~~~~~~~~~ 2021-07-10T02:58:56,285 In file included from /usr/include/python3.9/Python.h:145, 2021-07-10T02:58:56,285 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,285 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-10T02:58:56,285 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-10T02:58:56,285 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,625 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_Call’: 2021-07-10T02:58:56,641 rnacounter/rnacounter.c:30631:2: warning: ‘PyCFunction_Call’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,641 30631 | return PyCFunction_Call(func, arg, kw); 2021-07-10T02:58:56,641 | ^~~~~~ 2021-07-10T02:58:56,641 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T02:58:56,642 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,642 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T02:58:56,642 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T02:58:56,642 | ^~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,642 rnacounter/rnacounter.c: In function ‘__Pyx_CyFunction_init’: 2021-07-10T02:58:56,658 rnacounter/rnacounter.c:30691:5: warning: ‘PyCFunction_Call’ is deprecated [-Wdeprecated-declarations] 2021-07-10T02:58:56,659 30691 | __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; 2021-07-10T02:58:56,659 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,659 In file included from /usr/include/python3.9/Python.h:111, 2021-07-10T02:58:56,659 from rnacounter/rnacounter.c:16: 2021-07-10T02:58:56,659 /usr/include/python3.9/methodobject.h:33:43: note: declared here 2021-07-10T02:58:56,659 33 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyCFunction_Call(PyObject *, PyObject *, PyObject *); 2021-07-10T02:58:56,659 | ^~~~~~~~~~~~~~~~ 2021-07-10T02:58:56,680 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSave’: 2021-07-10T02:58:56,709 rnacounter/rnacounter.c:30760:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:56,709 30760 | *type = tstate->exc_type; 2021-07-10T02:58:56,709 | ^~~~~~~~ 2021-07-10T02:58:56,710 | curexc_type 2021-07-10T02:58:56,739 rnacounter/rnacounter.c:30761:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:56,739 30761 | *value = tstate->exc_value; 2021-07-10T02:58:56,739 | ^~~~~~~~~ 2021-07-10T02:58:56,739 | curexc_value 2021-07-10T02:58:56,768 rnacounter/rnacounter.c:30762:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:56,768 30762 | *tb = tstate->exc_traceback; 2021-07-10T02:58:56,769 | ^~~~~~~~~~~~~ 2021-07-10T02:58:56,769 | curexc_traceback 2021-07-10T02:58:56,769 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionReset’: 2021-07-10T02:58:56,798 rnacounter/rnacounter.c:30774:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:56,799 30774 | tmp_type = tstate->exc_type; 2021-07-10T02:58:56,799 | ^~~~~~~~ 2021-07-10T02:58:56,799 | curexc_type 2021-07-10T02:58:56,828 rnacounter/rnacounter.c:30775:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:56,828 30775 | tmp_value = tstate->exc_value; 2021-07-10T02:58:56,828 | ^~~~~~~~~ 2021-07-10T02:58:56,828 | curexc_value 2021-07-10T02:58:56,858 rnacounter/rnacounter.c:30776:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:56,858 30776 | tmp_tb = tstate->exc_traceback; 2021-07-10T02:58:56,858 | ^~~~~~~~~~~~~ 2021-07-10T02:58:56,858 | curexc_traceback 2021-07-10T02:58:56,887 rnacounter/rnacounter.c:30777:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:56,887 30777 | tstate->exc_type = type; 2021-07-10T02:58:56,887 | ^~~~~~~~ 2021-07-10T02:58:56,888 | curexc_type 2021-07-10T02:58:56,917 rnacounter/rnacounter.c:30778:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:56,917 30778 | tstate->exc_value = value; 2021-07-10T02:58:56,917 | ^~~~~~~~~ 2021-07-10T02:58:56,917 | curexc_value 2021-07-10T02:58:56,946 rnacounter/rnacounter.c:30779:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:56,947 30779 | tstate->exc_traceback = tb; 2021-07-10T02:58:56,947 | ^~~~~~~~~~~~~ 2021-07-10T02:58:56,947 | curexc_traceback 2021-07-10T02:58:57,025 rnacounter/rnacounter.c: In function ‘__Pyx_ExceptionSwap’: 2021-07-10T02:58:57,055 rnacounter/rnacounter.c:31735:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:57,055 31735 | tmp_type = tstate->exc_type; 2021-07-10T02:58:57,056 | ^~~~~~~~ 2021-07-10T02:58:57,056 | curexc_type 2021-07-10T02:58:57,086 rnacounter/rnacounter.c:31736:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:57,086 31736 | tmp_value = tstate->exc_value; 2021-07-10T02:58:57,086 | ^~~~~~~~~ 2021-07-10T02:58:57,086 | curexc_value 2021-07-10T02:58:57,116 rnacounter/rnacounter.c:31737:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:57,116 31737 | tmp_tb = tstate->exc_traceback; 2021-07-10T02:58:57,116 | ^~~~~~~~~~~~~ 2021-07-10T02:58:57,117 | curexc_traceback 2021-07-10T02:58:57,147 rnacounter/rnacounter.c:31738:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-10T02:58:57,147 31738 | tstate->exc_type = *type; 2021-07-10T02:58:57,147 | ^~~~~~~~ 2021-07-10T02:58:57,147 | curexc_type 2021-07-10T02:58:57,177 rnacounter/rnacounter.c:31739:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-10T02:58:57,177 31739 | tstate->exc_value = *value; 2021-07-10T02:58:57,177 | ^~~~~~~~~ 2021-07-10T02:58:57,177 | curexc_value 2021-07-10T02:58:57,207 rnacounter/rnacounter.c:31740:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-10T02:58:57,208 31740 | tstate->exc_traceback = *tb; 2021-07-10T02:58:57,208 | ^~~~~~~~~~~~~ 2021-07-10T02:58:57,208 | curexc_traceback 2021-07-10T02:58:57,297 rnacounter/rnacounter.c: In function ‘__Pyx_Generator_del’: 2021-07-10T02:58:57,328 rnacounter/rnacounter.c:32135:5: error: ‘_Py_DEC_REFTOTAL’ undeclared (first use in this function); did you mean ‘_Py_DECREF’? 2021-07-10T02:58:57,328 32135 | _Py_DEC_REFTOTAL; 2021-07-10T02:58:57,328 | ^~~~~~~~~~~~~~~~ 2021-07-10T02:58:57,328 | _Py_DECREF 2021-07-10T02:58:57,328 rnacounter/rnacounter.c:32135:5: note: each undeclared identifier is reported only once for each function it appears in 2021-07-10T02:58:57,740 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:21, 2021-07-10T02:58:57,741 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-10T02:58:57,741 from rnacounter/rnacounter.c:314: 2021-07-10T02:58:57,741 At top level: 2021-07-10T02:58:57,742 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/__multiarray_api.h:1464:1: warning: ‘_import_array’ defined but not used [-Wunused-function] 2021-07-10T02:58:57,742 1464 | _import_array(void) 2021-07-10T02:58:57,743 | ^~~~~~~~~~~~~ 2021-07-10T02:58:57,757 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-10T02:58:57,865 Building wheel for rnacounter (setup.py): finished with status 'error' 2021-07-10T02:58:57,865 ERROR: Failed building wheel for rnacounter 2021-07-10T02:58:57,866 Running setup.py clean for rnacounter 2021-07-10T02:58:57,866 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-io6m1ft1/rnacounter_7daaf4533cdd49359a0bb1f72b963acc/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' clean --all 2021-07-10T02:58:58,908 running clean 2021-07-10T02:58:58,909 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-10T02:58:58,911 removing 'build/lib.linux-armv7l-3.9' (and everything under it) 2021-07-10T02:58:58,917 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-10T02:58:58,917 'build/scripts-3.9' does not exist -- can't clean it 2021-07-10T02:58:58,918 removing 'build' 2021-07-10T02:58:59,000 Failed to build rnacounter 2021-07-10T02:58:59,001 ERROR: Failed to build one or more wheels 2021-07-10T02:58:59,001 Exception information: 2021-07-10T02:58:59,001 Traceback (most recent call last): 2021-07-10T02:58:59,001 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-10T02:58:59,001 status = self.run(options, args) 2021-07-10T02:58:59,001 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-10T02:58:59,001 return func(self, options, args) 2021-07-10T02:58:59,001 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-10T02:58:59,001 raise CommandError( 2021-07-10T02:58:59,001 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-10T02:58:59,004 Removed build tracker: '/tmp/pip-req-tracker-ap0ygfxz'