2021-07-08T19:48:05,418 Created temporary directory: /tmp/pip-ephem-wheel-cache-6rtke_vt 2021-07-08T19:48:05,421 Created temporary directory: /tmp/pip-req-tracker-h66xav_y 2021-07-08T19:48:05,421 Initialized build tracking at /tmp/pip-req-tracker-h66xav_y 2021-07-08T19:48:05,421 Created build tracker: /tmp/pip-req-tracker-h66xav_y 2021-07-08T19:48:05,421 Entered build tracker: /tmp/pip-req-tracker-h66xav_y 2021-07-08T19:48:05,422 Created temporary directory: /tmp/pip-wheel-9lzv0k24 2021-07-08T19:48:05,454 1 location(s) to search for versions of nwalign: 2021-07-08T19:48:05,454 * https://pypi.org/simple/nwalign/ 2021-07-08T19:48:05,455 Fetching project page and analyzing links: https://pypi.org/simple/nwalign/ 2021-07-08T19:48:05,455 Getting page https://pypi.org/simple/nwalign/ 2021-07-08T19:48:05,457 Found index url https://pypi.org/simple 2021-07-08T19:48:05,547 Found link https://files.pythonhosted.org/packages/c8/26/9ca7ef2ddd1680a8a56c8b9c04f0b97f6c5a4b1fdd32f4795022317823a8/nwalign-0.1.tar.gz#sha256=4faa5fa9e60b19bee52adbf0a511b970bd29ad01d91112088c468c0bd58085cd (from https://pypi.org/simple/nwalign/), version: 0.1 2021-07-08T19:48:05,547 Found link https://files.pythonhosted.org/packages/a1/c8/1e9a68782c95d700d695c8b1f3a8934e1072e8ed60491e430896b834f961/nwalign-0.1.1.tar.gz#sha256=6fad7673d67932c0c670f564f8d9c8c7af264c7300c8038a245014a9d62b50dd (from https://pypi.org/simple/nwalign/), version: 0.1.1 2021-07-08T19:48:05,548 Found link https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz#sha256=46db767c135bd698649657f17fdd091c6eb12acc0061fb0559df94e15ab7b149 (from https://pypi.org/simple/nwalign/), version: 0.1.2 2021-07-08T19:48:05,548 Found link https://files.pythonhosted.org/packages/e4/56/1e74d542efb45570042356a81bbad81cc6adc23bb4d5fcf6fd642ec2658b/nwalign-0.1.3.tar.gz#sha256=4fa6ca37c80650269e58437c4ac7969fa69ef7929ecfff279f6529e9f3a86fd9 (from https://pypi.org/simple/nwalign/), version: 0.1.3 2021-07-08T19:48:05,548 Found link https://files.pythonhosted.org/packages/5d/35/f962c0a6d870ea7ff96ba2465b276054192d36597cee2832972a0736bbb1/nwalign-0.2.tar.gz#sha256=c0984d30a9e7b95ceffda4265c8c2f4faf3ebf41ade008744df870bfa83c0b18 (from https://pypi.org/simple/nwalign/), version: 0.2 2021-07-08T19:48:05,549 Found link https://files.pythonhosted.org/packages/d1/2e/44355ba45f5a7ae0f0e1dcce833952470a95353669307a9a90affcbb757e/nwalign-0.3.0.tar.gz#sha256=8bd5786ad2d43282e5f5163f298cb232a7a154769398189a130eb34e61adc952 (from https://pypi.org/simple/nwalign/), version: 0.3.0 2021-07-08T19:48:05,549 Found link https://files.pythonhosted.org/packages/33/f9/96fdb624719c4122d559af37275c9af258ca9b1b93411e16ef0ec4899c3f/nwalign-0.3.1.tar.gz#sha256=bdbf1948df8421ef744ebf2993341df1f8431bbe41f4ce31241fff88d4d8e781 (from https://pypi.org/simple/nwalign/), version: 0.3.1 2021-07-08T19:48:05,549 Skipping link: not a file: https://pypi.org/simple/nwalign/ 2021-07-08T19:48:05,567 Given no hashes to check 1 links for project 'nwalign': discarding no candidates 2021-07-08T19:48:05,590 Collecting nwalign==0.1.3 2021-07-08T19:48:05,592 Created temporary directory: /tmp/pip-unpack-miyfl4ey 2021-07-08T19:48:05,775 Downloading nwalign-0.1.3.tar.gz (44 kB) 2021-07-08T19:48:05,830 Added nwalign==0.1.3 from https://files.pythonhosted.org/packages/e4/56/1e74d542efb45570042356a81bbad81cc6adc23bb4d5fcf6fd642ec2658b/nwalign-0.1.3.tar.gz#sha256=4fa6ca37c80650269e58437c4ac7969fa69ef7929ecfff279f6529e9f3a86fd9 to build tracker '/tmp/pip-req-tracker-h66xav_y' 2021-07-08T19:48:05,831 Running setup.py (path:/tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532/setup.py) egg_info for package nwalign 2021-07-08T19:48:05,831 Created temporary directory: /tmp/pip-pip-egg-info-ccnvgq7h 2021-07-08T19:48:05,832 Running command python setup.py egg_info 2021-07-08T19:48:06,908 running egg_info 2021-07-08T19:48:06,910 creating /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info 2021-07-08T19:48:06,911 writing /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/PKG-INFO 2021-07-08T19:48:06,913 writing dependency_links to /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/dependency_links.txt 2021-07-08T19:48:06,915 writing entry points to /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/entry_points.txt 2021-07-08T19:48:06,916 writing requirements to /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/requires.txt 2021-07-08T19:48:06,917 writing top-level names to /tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/top_level.txt 2021-07-08T19:48:06,919 writing manifest file '/tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:48:07,135 reading manifest file '/tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:48:07,139 writing manifest file '/tmp/pip-pip-egg-info-ccnvgq7h/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:48:07,237 Source in /tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532 has version 0.1.3, which satisfies requirement nwalign==0.1.3 from https://files.pythonhosted.org/packages/e4/56/1e74d542efb45570042356a81bbad81cc6adc23bb4d5fcf6fd642ec2658b/nwalign-0.1.3.tar.gz#sha256=4fa6ca37c80650269e58437c4ac7969fa69ef7929ecfff279f6529e9f3a86fd9 2021-07-08T19:48:07,238 Removed nwalign==0.1.3 from https://files.pythonhosted.org/packages/e4/56/1e74d542efb45570042356a81bbad81cc6adc23bb4d5fcf6fd642ec2658b/nwalign-0.1.3.tar.gz#sha256=4fa6ca37c80650269e58437c4ac7969fa69ef7929ecfff279f6529e9f3a86fd9 from build tracker '/tmp/pip-req-tracker-h66xav_y' 2021-07-08T19:48:07,242 Created temporary directory: /tmp/pip-unpack-rnezzirj 2021-07-08T19:48:07,243 Building wheels for collected packages: nwalign 2021-07-08T19:48:07,247 Created temporary directory: /tmp/pip-wheel-vunw649p 2021-07-08T19:48:07,247 Building wheel for nwalign (setup.py): started 2021-07-08T19:48:07,248 Destination directory: /tmp/pip-wheel-vunw649p 2021-07-08T19:48:07,248 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532/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-vunw649p 2021-07-08T19:48:08,293 running bdist_wheel 2021-07-08T19:48:08,483 running build 2021-07-08T19:48:08,483 running build_ext 2021-07-08T19:48:08,488 building 'nwalign' extension 2021-07-08T19:48:08,489 creating build 2021-07-08T19:48:08,489 creating build/temp.linux-armv7l-3.9 2021-07-08T19:48:08,490 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 -O3 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/python3/dist-packages/numpy/core/include -I. -I/usr/include/python3.9 -c nwalign.c -o build/temp.linux-armv7l-3.9/nwalign.o 2021-07-08T19:48:08,925 In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822, 2021-07-08T19:48:08,925 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-08T19:48:08,926 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-08T19:48:08,926 from nwalign.c:137: 2021-07-08T19:48:08,926 /usr/lib/python3/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] 2021-07-08T19:48:08,926 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-08T19:48:08,926 | ^~~~~~~ 2021-07-08T19:48:08,979 nwalign.c: In function ‘__pyx_pf_7nwalign_read_matrix’: 2021-07-08T19:48:08,979 nwalign.c:1390:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:08,980 1390 | __pyx_t_6 = PyEval_CallObjectWithKeywords(((PyObject *)((PyObject*)__pyx_ptype_5numpy_ndarray)), ((PyObject *)__pyx_t_2), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 101; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:08,980 | ^~~~~~~~~ 2021-07-08T19:48:08,980 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:08,980 from nwalign.c:4: 2021-07-08T19:48:08,980 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:08,980 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:08,981 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:08,985 nwalign.c:1510:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-08T19:48:08,986 1510 | for (__pyx_t_12 = 0; __pyx_t_12 < __pyx_t_4; __pyx_t_12+=1) { 2021-07-08T19:48:08,986 | ^ 2021-07-08T19:48:08,987 nwalign.c:1573:29: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-08T19:48:08,987 1573 | if (unlikely(!(__pyx_v_ai == __pyx_t_4))) { 2021-07-08T19:48:08,988 | ^~ 2021-07-08T19:48:08,988 nwalign.c:248:41: note: in definition of macro ‘unlikely’ 2021-07-08T19:48:08,988 248 | #define unlikely(x) __builtin_expect(!!(x), 0) 2021-07-08T19:48:08,988 | ^ 2021-07-08T19:48:08,990 nwalign.c:1095:14: warning: variable ‘__pyx_bshape_1_a’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:08,990 1095 | Py_ssize_t __pyx_bshape_1_a = 0; 2021-07-08T19:48:08,990 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:08,991 nwalign.c:1094:14: warning: variable ‘__pyx_bshape_0_a’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:08,991 1094 | Py_ssize_t __pyx_bshape_0_a = 0; 2021-07-08T19:48:08,991 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:08,995 nwalign.c: In function ‘__pyx_f_7nwalign_global_align’: 2021-07-08T19:48:08,996 nwalign.c:2012:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:08,996 2012 | __pyx_t_5 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_4), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:08,996 | ^~~~~~~~~ 2021-07-08T19:48:08,996 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:08,997 from nwalign.c:4: 2021-07-08T19:48:08,997 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:08,997 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:08,997 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:08,999 nwalign.c:2070:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:08,999 2070 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_5, ((PyObject *)__pyx_t_2), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 153; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:08,999 | ^~~~~~~~~ 2021-07-08T19:48:09,000 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,000 from nwalign.c:4: 2021-07-08T19:48:09,000 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,000 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,000 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,002 nwalign.c:2128:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,002 2128 | __pyx_t_4 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_5), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 154; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,003 | ^~~~~~~~~ 2021-07-08T19:48:09,003 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,003 from nwalign.c:4: 2021-07-08T19:48:09,003 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,003 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,003 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,010 nwalign.c:2366:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,010 2366 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_4, ((PyObject *)__pyx_t_2), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 169; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,010 | ^~~~~~~~~ 2021-07-08T19:48:09,010 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,010 from nwalign.c:4: 2021-07-08T19:48:09,011 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,011 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,011 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,013 nwalign.c:2424:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,013 2424 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_5, ((PyObject *)__pyx_t_4), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 170; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,014 | ^~~~~~~~~ 2021-07-08T19:48:09,014 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,014 from nwalign.c:4: 2021-07-08T19:48:09,014 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,014 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,014 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,018 nwalign.c:2616:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:48:09,018 2616 | if (!(__pyx_v_ii == -1)) { 2021-07-08T19:48:09,019 | ^~ 2021-07-08T19:48:09,019 nwalign.c:2617:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:48:09,020 2617 | __pyx_t_25 = (__pyx_v_jj == -1); 2021-07-08T19:48:09,020 | ^~ 2021-07-08T19:48:09,021 nwalign.c:2619:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:48:09,021 2619 | __pyx_t_25 = (__pyx_v_ii == -1); 2021-07-08T19:48:09,021 | ^~ 2021-07-08T19:48:09,022 nwalign.c:2630:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:48:09,023 2630 | __pyx_t_25 = (__pyx_v_ii == -1); 2021-07-08T19:48:09,023 | ^~ 2021-07-08T19:48:09,034 nwalign.c:2640:26: warning: implicit declaration of function ‘PyString_FromStringAndSize’; did you mean ‘PyBytes_FromStringAndSize’? [-Wimplicit-function-declaration] 2021-07-08T19:48:09,034 2640 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2021-07-08T19:48:09,034 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,034 | PyBytes_FromStringAndSize 2021-07-08T19:48:09,035 nwalign.c:2640:24: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,036 2640 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2021-07-08T19:48:09,036 | ^ 2021-07-08T19:48:09,039 nwalign.c:2695:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:48:09,039 2695 | __pyx_t_25 = (__pyx_v_jj == -1); 2021-07-08T19:48:09,039 | ^~ 2021-07-08T19:48:09,040 nwalign.c:2705:24: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,040 2705 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_cj), ((size_t)1)); 2021-07-08T19:48:09,040 | ^ 2021-07-08T19:48:09,047 nwalign.c:3037:14: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,047 3037 | __pyx_v_ai = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2021-07-08T19:48:09,047 | ^ 2021-07-08T19:48:09,048 nwalign.c:3046:14: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,048 3046 | __pyx_v_aj = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2021-07-08T19:48:09,049 | ^ 2021-07-08T19:48:09,063 nwalign.c:3055:21: warning: implicit declaration of function ‘PyString_AS_STRING’; did you mean ‘PyBytes_AS_STRING’? [-Wimplicit-function-declaration] 2021-07-08T19:48:09,063 3055 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2021-07-08T19:48:09,064 | ^~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,064 | PyBytes_AS_STRING 2021-07-08T19:48:09,065 nwalign.c:3055:19: warning: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,065 3055 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2021-07-08T19:48:09,065 | ^ 2021-07-08T19:48:09,067 nwalign.c:3064:19: warning: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:48:09,067 3064 | __pyx_v_align_i = PyString_AS_STRING(__pyx_v_ai); 2021-07-08T19:48:09,067 | ^ 2021-07-08T19:48:09,084 nwalign.c:3268:3: warning: implicit declaration of function ‘_PyString_Resize’ [-Wimplicit-function-declaration] 2021-07-08T19:48:09,085 3268 | _PyString_Resize((&__pyx_v_aj), __pyx_v_align_counter); 2021-07-08T19:48:09,085 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,087 nwalign.c:1824:14: warning: variable ‘__pyx_bshape_1_agap’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,087 1824 | Py_ssize_t __pyx_bshape_1_agap = 0; 2021-07-08T19:48:09,087 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,088 nwalign.c:1823:14: warning: variable ‘__pyx_bshape_0_agap’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,088 1823 | Py_ssize_t __pyx_bshape_0_agap = 0; 2021-07-08T19:48:09,088 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,089 nwalign.c:1819:14: warning: variable ‘__pyx_bshape_1_score’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,089 1819 | Py_ssize_t __pyx_bshape_1_score = 0; 2021-07-08T19:48:09,089 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,090 nwalign.c:1818:14: warning: variable ‘__pyx_bshape_0_score’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,090 1818 | Py_ssize_t __pyx_bshape_0_score = 0; 2021-07-08T19:48:09,090 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,091 nwalign.c:1814:14: warning: variable ‘__pyx_bshape_1_pointer’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,091 1814 | Py_ssize_t __pyx_bshape_1_pointer = 0; 2021-07-08T19:48:09,091 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,092 nwalign.c:1813:14: warning: variable ‘__pyx_bshape_0_pointer’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,092 1813 | Py_ssize_t __pyx_bshape_0_pointer = 0; 2021-07-08T19:48:09,092 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,093 nwalign.c:1809:14: warning: variable ‘__pyx_bshape_1_amatrix’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,093 1809 | Py_ssize_t __pyx_bshape_1_amatrix = 0; 2021-07-08T19:48:09,093 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,094 nwalign.c:1808:14: warning: variable ‘__pyx_bshape_0_amatrix’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:48:09,094 1808 | Py_ssize_t __pyx_bshape_0_amatrix = 0; 2021-07-08T19:48:09,094 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,099 nwalign.c: In function ‘__pyx_pf_7nwalign_main’: 2021-07-08T19:48:09,101 nwalign.c:3568:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,101 3568 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_1, ((PyObject *)__pyx_empty_tuple), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,102 | ^~~~~~~~~ 2021-07-08T19:48:09,102 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,102 from nwalign.c:4: 2021-07-08T19:48:09,102 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,102 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,102 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,104 nwalign.c:3596:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,104 3596 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,104 | ^~~~~~~~~ 2021-07-08T19:48:09,105 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,105 from nwalign.c:4: 2021-07-08T19:48:09,105 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,105 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,105 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,107 nwalign.c:3623:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,107 3623 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 261; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,107 | ^~~~~~~~~ 2021-07-08T19:48:09,108 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,108 from nwalign.c:4: 2021-07-08T19:48:09,108 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,108 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,108 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,110 nwalign.c:3650:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,110 3650 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 262; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,110 | ^~~~~~~~~ 2021-07-08T19:48:09,110 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,111 from nwalign.c:4: 2021-07-08T19:48:09,111 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,111 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,111 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,113 nwalign.c:3677:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,113 3677 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 263; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,113 | ^~~~~~~~~ 2021-07-08T19:48:09,113 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,114 from nwalign.c:4: 2021-07-08T19:48:09,114 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,114 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,114 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,116 nwalign.c:3711:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,116 3711 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 264; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:48:09,116 | ^~~~~~~~~ 2021-07-08T19:48:09,116 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:48:09,116 from nwalign.c:4: 2021-07-08T19:48:09,117 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:48:09,117 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:48:09,117 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,156 nwalign.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-08T19:48:09,159 nwalign.c:5934:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,159 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,159 | ^~ 2021-07-08T19:48:09,159 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,160 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,160 from nwalign.c:4: 2021-07-08T19:48:09,160 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,160 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,160 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,163 nwalign.c:5934:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,164 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,164 | ^~ 2021-07-08T19:48:09,164 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,164 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,164 from nwalign.c:4: 2021-07-08T19:48:09,164 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:48:09,164 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:48:09,164 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,167 nwalign.c:5934:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,167 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,168 | ^~ 2021-07-08T19:48:09,168 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,168 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,168 from nwalign.c:4: 2021-07-08T19:48:09,168 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,168 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,168 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,171 nwalign.c:5934:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,171 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,171 | ^~ 2021-07-08T19:48:09,172 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,172 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,172 from nwalign.c:4: 2021-07-08T19:48:09,172 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,172 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,172 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,175 nwalign.c:5934:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,175 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,175 | ^~ 2021-07-08T19:48:09,175 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,176 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,176 from nwalign.c:4: 2021-07-08T19:48:09,176 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:48:09,176 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:48:09,176 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,179 nwalign.c:5934:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,179 5934 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,179 | ^~ 2021-07-08T19:48:09,179 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,179 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,180 from nwalign.c:4: 2021-07-08T19:48:09,180 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,180 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,180 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,184 nwalign.c:5948:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,184 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,184 | ^~ 2021-07-08T19:48:09,184 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,184 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,184 from nwalign.c:4: 2021-07-08T19:48:09,185 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,185 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,185 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,187 nwalign.c:5948:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,188 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,188 | ^~ 2021-07-08T19:48:09,188 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,188 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,188 from nwalign.c:4: 2021-07-08T19:48:09,188 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:48:09,188 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:48:09,189 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,191 nwalign.c:5948:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,192 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,192 | ^~ 2021-07-08T19:48:09,192 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,192 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,192 from nwalign.c:4: 2021-07-08T19:48:09,192 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,192 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,192 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,195 nwalign.c:5948:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,196 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,196 | ^~ 2021-07-08T19:48:09,196 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,196 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,196 from nwalign.c:4: 2021-07-08T19:48:09,196 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,196 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,196 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,199 nwalign.c:5948:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,199 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,199 | ^~ 2021-07-08T19:48:09,200 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,200 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,200 from nwalign.c:4: 2021-07-08T19:48:09,200 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:48:09,200 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:48:09,200 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,203 nwalign.c:5948:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:48:09,203 5948 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:48:09,203 | ^~ 2021-07-08T19:48:09,204 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:48:09,204 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:48:09,204 from nwalign.c:4: 2021-07-08T19:48:09,204 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:48:09,204 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:48:09,204 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,228 nwalign.c: In function ‘__Pyx_ErrRestore’: 2021-07-08T19:48:09,234 nwalign.c:6454:18: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,234 6454 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2021-07-08T19:48:09,234 | ^~~~~~~~ 2021-07-08T19:48:09,234 | curexc_type 2021-07-08T19:48:09,241 nwalign.c:6454:47: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,241 6454 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2021-07-08T19:48:09,241 | ^~~~~~~~ 2021-07-08T19:48:09,241 | curexc_type 2021-07-08T19:48:09,247 nwalign.c:6455:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,247 6455 | tmp_type = tstate->exc_type; 2021-07-08T19:48:09,247 | ^~~~~~~~ 2021-07-08T19:48:09,247 | curexc_type 2021-07-08T19:48:09,253 nwalign.c:6456:29: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,253 6456 | tmp_value = tstate->exc_value; 2021-07-08T19:48:09,253 | ^~~~~~~~~ 2021-07-08T19:48:09,253 | curexc_value 2021-07-08T19:48:09,259 nwalign.c:6457:26: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,259 6457 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:48:09,259 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,259 | curexc_traceback 2021-07-08T19:48:09,265 nwalign.c:6460:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,265 6460 | tstate->exc_type = 0; 2021-07-08T19:48:09,266 | ^~~~~~~~ 2021-07-08T19:48:09,266 | curexc_type 2021-07-08T19:48:09,271 nwalign.c:6461:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,272 6461 | tstate->exc_value = 0; 2021-07-08T19:48:09,272 | ^~~~~~~~~ 2021-07-08T19:48:09,272 | curexc_value 2021-07-08T19:48:09,278 nwalign.c:6462:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,278 6462 | tstate->exc_traceback = 0; 2021-07-08T19:48:09,278 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,278 | curexc_traceback 2021-07-08T19:48:09,278 nwalign.c: In function ‘__Pyx_GetException’: 2021-07-08T19:48:09,284 nwalign.c:6507:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,285 6507 | tmp_type = tstate->exc_type; 2021-07-08T19:48:09,285 | ^~~~~~~~ 2021-07-08T19:48:09,285 | curexc_type 2021-07-08T19:48:09,290 nwalign.c:6508:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,291 6508 | tmp_value = tstate->exc_value; 2021-07-08T19:48:09,291 | ^~~~~~~~~ 2021-07-08T19:48:09,291 | curexc_value 2021-07-08T19:48:09,297 nwalign.c:6509:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,297 6509 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:48:09,297 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,297 | curexc_traceback 2021-07-08T19:48:09,303 nwalign.c:6510:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,303 6510 | tstate->exc_type = *type; 2021-07-08T19:48:09,303 | ^~~~~~~~ 2021-07-08T19:48:09,303 | curexc_type 2021-07-08T19:48:09,309 nwalign.c:6511:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,309 6511 | tstate->exc_value = *value; 2021-07-08T19:48:09,309 | ^~~~~~~~~ 2021-07-08T19:48:09,309 | curexc_value 2021-07-08T19:48:09,315 nwalign.c:6512:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,315 6512 | tstate->exc_traceback = *tb; 2021-07-08T19:48:09,315 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,315 | curexc_traceback 2021-07-08T19:48:09,316 nwalign.c: In function ‘__Pyx_ExceptionSave’: 2021-07-08T19:48:09,322 nwalign.c:6557:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,322 6557 | *type = tstate->exc_type; 2021-07-08T19:48:09,322 | ^~~~~~~~ 2021-07-08T19:48:09,322 | curexc_type 2021-07-08T19:48:09,328 nwalign.c:6558:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,328 6558 | *value = tstate->exc_value; 2021-07-08T19:48:09,328 | ^~~~~~~~~ 2021-07-08T19:48:09,328 | curexc_value 2021-07-08T19:48:09,334 nwalign.c:6559:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,334 6559 | *tb = tstate->exc_traceback; 2021-07-08T19:48:09,334 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,335 | curexc_traceback 2021-07-08T19:48:09,335 nwalign.c: In function ‘__Pyx_ExceptionReset’: 2021-07-08T19:48:09,341 nwalign.c:6568:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,341 6568 | tmp_type = tstate->exc_type; 2021-07-08T19:48:09,341 | ^~~~~~~~ 2021-07-08T19:48:09,341 | curexc_type 2021-07-08T19:48:09,347 nwalign.c:6569:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,347 6569 | tmp_value = tstate->exc_value; 2021-07-08T19:48:09,347 | ^~~~~~~~~ 2021-07-08T19:48:09,347 | curexc_value 2021-07-08T19:48:09,353 nwalign.c:6570:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,353 6570 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:48:09,353 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,353 | curexc_traceback 2021-07-08T19:48:09,359 nwalign.c:6571:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:48:09,359 6571 | tstate->exc_type = type; 2021-07-08T19:48:09,359 | ^~~~~~~~ 2021-07-08T19:48:09,359 | curexc_type 2021-07-08T19:48:09,365 nwalign.c:6572:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:48:09,365 6572 | tstate->exc_value = value; 2021-07-08T19:48:09,365 | ^~~~~~~~~ 2021-07-08T19:48:09,365 | curexc_value 2021-07-08T19:48:09,371 nwalign.c:6573:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:48:09,371 6573 | tstate->exc_traceback = tb; 2021-07-08T19:48:09,371 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,372 | curexc_traceback 2021-07-08T19:48:09,388 nwalign.c: In function ‘__Pyx_PyInt_AsUnsignedLong’: 2021-07-08T19:48:09,392 nwalign.c:7016:16: warning: operand of ‘?:’ changes signedness from ‘long int’ to ‘long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,392 7016 | PyLong_AsLong(x) : 2021-07-08T19:48:09,392 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,394 nwalign.c: In function ‘__Pyx_PyInt_AsUnsignedLongLong’: 2021-07-08T19:48:09,397 nwalign.c:7047:16: warning: operand of ‘?:’ changes signedness from ‘long long int’ to ‘long long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,398 7047 | PyLong_AsLongLong(x) : 2021-07-08T19:48:09,398 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,400 nwalign.c: In function ‘__Pyx_PyInt_AsLong’: 2021-07-08T19:48:09,403 nwalign.c:7078:16: warning: operand of ‘?:’ changes signedness from ‘long int’ to ‘long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,403 7078 | PyLong_AsLong(x) : 2021-07-08T19:48:09,404 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,405 nwalign.c: In function ‘__Pyx_PyInt_AsLongLong’: 2021-07-08T19:48:09,409 nwalign.c:7109:16: warning: operand of ‘?:’ changes signedness from ‘long long int’ to ‘long long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,409 7109 | PyLong_AsLongLong(x) : 2021-07-08T19:48:09,409 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,411 nwalign.c: In function ‘__Pyx_PyInt_AsSignedLong’: 2021-07-08T19:48:09,415 nwalign.c:7140:16: warning: operand of ‘?:’ changes signedness from ‘long int’ to ‘long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,415 7140 | PyLong_AsLong(x) : 2021-07-08T19:48:09,415 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,417 nwalign.c: In function ‘__Pyx_PyInt_AsSignedLongLong’: 2021-07-08T19:48:09,421 nwalign.c:7171:16: warning: operand of ‘?:’ changes signedness from ‘long long int’ to ‘long long unsigned int’ due to unsignedness of other operand [-Wsign-compare] 2021-07-08T19:48:09,421 7171 | PyLong_AsLongLong(x) : 2021-07-08T19:48:09,421 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,502 At top level: 2021-07-08T19:48:09,505 nwalign.c:4764:13: warning: ‘__pyx_pf_5numpy_7ndarray___releasebuffer__’ defined but not used [-Wunused-function] 2021-07-08T19:48:09,505 4764 | static void __pyx_pf_5numpy_7ndarray___releasebuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info) { 2021-07-08T19:48:09,506 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,508 nwalign.c:3973:12: warning: ‘__pyx_pf_5numpy_7ndarray___getbuffer__’ defined but not used [-Wunused-function] 2021-07-08T19:48:09,508 3973 | static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { 2021-07-08T19:48:09,508 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:48:09,508 nwalign.c:1022:13: warning: ‘__pyx_k_27’ defined but not used [-Wunused-variable] 2021-07-08T19:48:09,508 1022 | static char __pyx_k_27[] = "<"; 2021-07-08T19:48:09,508 | ^~~~~~~~~~ 2021-07-08T19:48:09,508 nwalign.c:1021:13: warning: ‘__pyx_k_26’ defined but not used [-Wunused-variable] 2021-07-08T19:48:09,509 1021 | static char __pyx_k_26[] = ">"; 2021-07-08T19:48:09,509 | ^~~~~~~~~~ 2021-07-08T19:48:09,509 nwalign.c:1015:13: warning: ‘__pyx_k_24’ defined but not used [-Wunused-variable] 2021-07-08T19:48:09,509 1015 | static char __pyx_k_24[] = "^"; 2021-07-08T19:48:09,509 | ^~~~~~~~~~ 2021-07-08T19:48:09,509 nwalign.c:995:13: warning: ‘__pyx_k_4’ defined but not used [-Wunused-variable] 2021-07-08T19:48:09,509 995 | static char __pyx_k_4[] = "<"; 2021-07-08T19:48:09,509 | ^~~~~~~~~ 2021-07-08T19:48:09,510 nwalign.c:994:13: warning: ‘__pyx_k_3’ defined but not used [-Wunused-variable] 2021-07-08T19:48:09,510 994 | static char __pyx_k_3[] = ">"; 2021-07-08T19:48:09,510 | ^~~~~~~~~ 2021-07-08T19:48:09,510 In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:21, 2021-07-08T19:48:09,511 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-08T19:48:09,511 from nwalign.c:137: 2021-07-08T19:48:09,511 /usr/lib/python3/dist-packages/numpy/core/include/numpy/__multiarray_api.h:1463:1: warning: ‘_import_array’ defined but not used [-Wunused-function] 2021-07-08T19:48:09,511 1463 | _import_array(void) 2021-07-08T19:48:09,511 | ^~~~~~~~~~~~~ 2021-07-08T19:48:09,517 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-08T19:48:09,636 Building wheel for nwalign (setup.py): finished with status 'error' 2021-07-08T19:48:09,637 ERROR: Failed building wheel for nwalign 2021-07-08T19:48:09,638 Running setup.py clean for nwalign 2021-07-08T19:48:09,639 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-9lzv0k24/nwalign_ae7d6e23e4af4c2a9b43c3a1e0628532/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 2021-07-08T19:48:10,667 running clean 2021-07-08T19:48:10,670 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-08T19:48:10,671 'build/lib.linux-armv7l-3.9' does not exist -- can't clean it 2021-07-08T19:48:10,671 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-08T19:48:10,671 'build/scripts-3.9' does not exist -- can't clean it 2021-07-08T19:48:10,672 removing 'build' 2021-07-08T19:48:10,762 Failed to build nwalign 2021-07-08T19:48:10,763 ERROR: Failed to build one or more wheels 2021-07-08T19:48:10,763 Exception information: 2021-07-08T19:48:10,763 Traceback (most recent call last): 2021-07-08T19:48:10,763 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-08T19:48:10,763 status = self.run(options, args) 2021-07-08T19:48:10,763 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-08T19:48:10,763 return func(self, options, args) 2021-07-08T19:48:10,763 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-08T19:48:10,763 raise CommandError( 2021-07-08T19:48:10,763 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-08T19:48:10,766 Removed build tracker: '/tmp/pip-req-tracker-h66xav_y'