2021-07-08T19:47:39,553 Created temporary directory: /tmp/pip-ephem-wheel-cache-9r5ubgpk 2021-07-08T19:47:39,555 Created temporary directory: /tmp/pip-req-tracker-9auk3ydd 2021-07-08T19:47:39,556 Initialized build tracking at /tmp/pip-req-tracker-9auk3ydd 2021-07-08T19:47:39,556 Created build tracker: /tmp/pip-req-tracker-9auk3ydd 2021-07-08T19:47:39,556 Entered build tracker: /tmp/pip-req-tracker-9auk3ydd 2021-07-08T19:47:39,557 Created temporary directory: /tmp/pip-wheel-voeytv0u 2021-07-08T19:47:39,590 1 location(s) to search for versions of nwalign: 2021-07-08T19:47:39,590 * https://pypi.org/simple/nwalign/ 2021-07-08T19:47:39,591 Fetching project page and analyzing links: https://pypi.org/simple/nwalign/ 2021-07-08T19:47:39,591 Getting page https://pypi.org/simple/nwalign/ 2021-07-08T19:47:39,593 Found index url https://pypi.org/simple 2021-07-08T19:47:39,683 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 2021-07-08T19:47:39,683 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 2021-07-08T19:47:39,684 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 2021-07-08T19:47:39,684 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 2021-07-08T19:47:39,684 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 2021-07-08T19:47:39,684 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 2021-07-08T19:47:39,685 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 2021-07-08T19:47:39,685 Skipping link: not a file: https://pypi.org/simple/nwalign/ 2021-07-08T19:47:39,702 Given no hashes to check 1 links for project 'nwalign': discarding no candidates 2021-07-08T19:47:39,719 Collecting nwalign==0.1.2 2021-07-08T19:47:39,721 Created temporary directory: /tmp/pip-unpack-nkzt4yq3 2021-07-08T19:47:39,900 Downloading nwalign-0.1.2.tar.gz (42 kB) 2021-07-08T19:47:39,961 Added nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz#sha256=46db767c135bd698649657f17fdd091c6eb12acc0061fb0559df94e15ab7b149 to build tracker '/tmp/pip-req-tracker-9auk3ydd' 2021-07-08T19:47:39,962 Running setup.py (path:/tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db/setup.py) egg_info for package nwalign 2021-07-08T19:47:39,963 Created temporary directory: /tmp/pip-pip-egg-info-z16fdo6z 2021-07-08T19:47:39,963 Running command python setup.py egg_info 2021-07-08T19:47:41,020 running egg_info 2021-07-08T19:47:41,022 creating /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info 2021-07-08T19:47:41,023 writing /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/PKG-INFO 2021-07-08T19:47:41,026 writing dependency_links to /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/dependency_links.txt 2021-07-08T19:47:41,027 writing entry points to /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/entry_points.txt 2021-07-08T19:47:41,029 writing requirements to /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/requires.txt 2021-07-08T19:47:41,030 writing top-level names to /tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/top_level.txt 2021-07-08T19:47:41,031 writing manifest file '/tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:47:41,233 reading manifest file '/tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:47:41,236 writing manifest file '/tmp/pip-pip-egg-info-z16fdo6z/nwalign.egg-info/SOURCES.txt' 2021-07-08T19:47:41,335 Source in /tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db has version 0.1.2, which satisfies requirement nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz#sha256=46db767c135bd698649657f17fdd091c6eb12acc0061fb0559df94e15ab7b149 2021-07-08T19:47:41,336 Removed nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz#sha256=46db767c135bd698649657f17fdd091c6eb12acc0061fb0559df94e15ab7b149 from build tracker '/tmp/pip-req-tracker-9auk3ydd' 2021-07-08T19:47:41,340 Created temporary directory: /tmp/pip-unpack-gw78zgme 2021-07-08T19:47:41,341 Building wheels for collected packages: nwalign 2021-07-08T19:47:41,345 Created temporary directory: /tmp/pip-wheel-4mhq7rjh 2021-07-08T19:47:41,345 Building wheel for nwalign (setup.py): started 2021-07-08T19:47:41,346 Destination directory: /tmp/pip-wheel-4mhq7rjh 2021-07-08T19:47:41,346 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db/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-4mhq7rjh 2021-07-08T19:47:42,390 running bdist_wheel 2021-07-08T19:47:42,593 running build 2021-07-08T19:47:42,593 running build_ext 2021-07-08T19:47:42,598 building 'nwalign' extension 2021-07-08T19:47:42,599 creating build 2021-07-08T19:47:42,599 creating build/temp.linux-armv7l-3.9 2021-07-08T19:47:42,600 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/local/lib/python3.9/dist-packages/numpy/core/include -I. -I/usr/include/python3.9 -c nwalign.c -o build/temp.linux-armv7l-3.9/nwalign.o 2021-07-08T19:47:42,987 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-08T19:47:42,987 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-08T19:47:42,987 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-08T19:47:42,987 from nwalign.c:136: 2021-07-08T19:47:42,987 /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] 2021-07-08T19:47:42,987 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-08T19:47:42,987 | ^~~~~~~ 2021-07-08T19:47:43,037 nwalign.c: In function ‘__pyx_pf_7nwalign_read_matrix’: 2021-07-08T19:47:43,038 nwalign.c:1278:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,038 1278 | __pyx_t_6 = PyEval_CallObjectWithKeywords(((PyObject *)((PyObject*)__pyx_ptype_5numpy_ndarray)), ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,038 | ^~~~~~~~~ 2021-07-08T19:47:43,039 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,039 from nwalign.c:4: 2021-07-08T19:47:43,040 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,040 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,040 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,045 nwalign.c:1398:37: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-08T19:47:43,046 1398 | for (__pyx_t_12 = 0; __pyx_t_12 < __pyx_t_4; __pyx_t_12+=1) { 2021-07-08T19:47:43,046 | ^ 2021-07-08T19:47:43,048 nwalign.c:1461:29: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2021-07-08T19:47:43,048 1461 | if (unlikely(!(__pyx_v_ai == __pyx_t_4))) { 2021-07-08T19:47:43,048 | ^~ 2021-07-08T19:47:43,048 nwalign.c:210:41: note: in definition of macro ‘unlikely’ 2021-07-08T19:47:43,049 210 | #define unlikely(x) __builtin_expect(!!(x), 0) 2021-07-08T19:47:43,049 | ^ 2021-07-08T19:47:43,051 nwalign.c:1046:14: warning: variable ‘__pyx_bshape_1_a’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,052 1046 | Py_ssize_t __pyx_bshape_1_a = 0; 2021-07-08T19:47:43,052 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,052 nwalign.c:1045:14: warning: variable ‘__pyx_bshape_0_a’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,052 1045 | Py_ssize_t __pyx_bshape_0_a = 0; 2021-07-08T19:47:43,052 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,055 nwalign.c: In function ‘__pyx_f_7nwalign_global_align’: 2021-07-08T19:47:43,056 nwalign.c:1879:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,057 1879 | __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 = 148; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,057 | ^~~~~~~~~ 2021-07-08T19:47:43,057 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,057 from nwalign.c:4: 2021-07-08T19:47:43,057 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,057 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,057 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,060 nwalign.c:1937:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,060 1937 | __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 = 149; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,060 | ^~~~~~~~~ 2021-07-08T19:47:43,060 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,060 from nwalign.c:4: 2021-07-08T19:47:43,060 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,060 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,061 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,063 nwalign.c:1995:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,063 1995 | __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 = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,063 | ^~~~~~~~~ 2021-07-08T19:47:43,063 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,063 from nwalign.c:4: 2021-07-08T19:47:43,063 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,064 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,064 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,070 nwalign.c:2233:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,070 2233 | __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 = 165; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,071 | ^~~~~~~~~ 2021-07-08T19:47:43,071 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,071 from nwalign.c:4: 2021-07-08T19:47:43,071 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,071 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,071 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,074 nwalign.c:2291:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,074 2291 | __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 = 166; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,074 | ^~~~~~~~~ 2021-07-08T19:47:43,074 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,074 from nwalign.c:4: 2021-07-08T19:47:43,074 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,075 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,075 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,078 nwalign.c:2483:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:47:43,079 2483 | if (!(__pyx_v_ii == -1)) { 2021-07-08T19:47:43,079 | ^~ 2021-07-08T19:47:43,080 nwalign.c:2484:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:47:43,080 2484 | __pyx_t_25 = (__pyx_v_jj == -1); 2021-07-08T19:47:43,080 | ^~ 2021-07-08T19:47:43,081 nwalign.c:2486:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:47:43,081 2486 | __pyx_t_25 = (__pyx_v_ii == -1); 2021-07-08T19:47:43,081 | ^~ 2021-07-08T19:47:43,082 nwalign.c:2497:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:47:43,082 2497 | __pyx_t_25 = (__pyx_v_ii == -1); 2021-07-08T19:47:43,083 | ^~ 2021-07-08T19:47:43,094 nwalign.c:2507:26: warning: implicit declaration of function ‘PyString_FromStringAndSize’; did you mean ‘PyBytes_FromStringAndSize’? [-Wimplicit-function-declaration] 2021-07-08T19:47:43,094 2507 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2021-07-08T19:47:43,094 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,094 | PyBytes_FromStringAndSize 2021-07-08T19:47:43,095 nwalign.c:2507:24: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,095 2507 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2021-07-08T19:47:43,096 | ^ 2021-07-08T19:47:43,098 nwalign.c:2562:36: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-08T19:47:43,099 2562 | __pyx_t_25 = (__pyx_v_jj == -1); 2021-07-08T19:47:43,099 | ^~ 2021-07-08T19:47:43,100 nwalign.c:2572:24: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,100 2572 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_cj), ((size_t)1)); 2021-07-08T19:47:43,100 | ^ 2021-07-08T19:47:43,106 nwalign.c:2904:14: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,107 2904 | __pyx_v_ai = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2021-07-08T19:47:43,107 | ^ 2021-07-08T19:47:43,108 nwalign.c:2913:14: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,108 2913 | __pyx_v_aj = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2021-07-08T19:47:43,108 | ^ 2021-07-08T19:47:43,123 nwalign.c:2922:21: warning: implicit declaration of function ‘PyString_AS_STRING’; did you mean ‘PyBytes_AS_STRING’? [-Wimplicit-function-declaration] 2021-07-08T19:47:43,123 2922 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2021-07-08T19:47:43,123 | ^~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,123 | PyBytes_AS_STRING 2021-07-08T19:47:43,125 nwalign.c:2922:19: warning: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,125 2922 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2021-07-08T19:47:43,125 | ^ 2021-07-08T19:47:43,126 nwalign.c:2931:19: warning: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2021-07-08T19:47:43,126 2931 | __pyx_v_align_i = PyString_AS_STRING(__pyx_v_ai); 2021-07-08T19:47:43,126 | ^ 2021-07-08T19:47:43,144 nwalign.c:3135:3: warning: implicit declaration of function ‘_PyString_Resize’ [-Wimplicit-function-declaration] 2021-07-08T19:47:43,144 3135 | _PyString_Resize((&__pyx_v_aj), __pyx_v_align_counter); 2021-07-08T19:47:43,144 | ^~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,146 nwalign.c:1691:14: warning: variable ‘__pyx_bshape_1_agap’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,147 1691 | Py_ssize_t __pyx_bshape_1_agap = 0; 2021-07-08T19:47:43,147 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,147 nwalign.c:1690:14: warning: variable ‘__pyx_bshape_0_agap’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,147 1690 | Py_ssize_t __pyx_bshape_0_agap = 0; 2021-07-08T19:47:43,147 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,148 nwalign.c:1686:14: warning: variable ‘__pyx_bshape_1_score’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,148 1686 | Py_ssize_t __pyx_bshape_1_score = 0; 2021-07-08T19:47:43,148 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,149 nwalign.c:1685:14: warning: variable ‘__pyx_bshape_0_score’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,149 1685 | Py_ssize_t __pyx_bshape_0_score = 0; 2021-07-08T19:47:43,149 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,150 nwalign.c:1681:14: warning: variable ‘__pyx_bshape_1_pointer’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,150 1681 | Py_ssize_t __pyx_bshape_1_pointer = 0; 2021-07-08T19:47:43,150 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,151 nwalign.c:1680:14: warning: variable ‘__pyx_bshape_0_pointer’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,151 1680 | Py_ssize_t __pyx_bshape_0_pointer = 0; 2021-07-08T19:47:43,151 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,152 nwalign.c:1676:14: warning: variable ‘__pyx_bshape_1_amatrix’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,152 1676 | Py_ssize_t __pyx_bshape_1_amatrix = 0; 2021-07-08T19:47:43,152 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,153 nwalign.c:1675:14: warning: variable ‘__pyx_bshape_0_amatrix’ set but not used [-Wunused-but-set-variable] 2021-07-08T19:47:43,153 1675 | Py_ssize_t __pyx_bshape_0_amatrix = 0; 2021-07-08T19:47:43,153 | ^~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,159 nwalign.c: In function ‘__pyx_pf_7nwalign_main’: 2021-07-08T19:47:43,160 nwalign.c:3435:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,160 3435 | __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 = 253; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,161 | ^~~~~~~~~ 2021-07-08T19:47:43,161 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,161 from nwalign.c:4: 2021-07-08T19:47:43,161 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,161 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,161 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,163 nwalign.c:3463:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,163 3463 | __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 = 256; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,163 | ^~~~~~~~~ 2021-07-08T19:47:43,164 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,164 from nwalign.c:4: 2021-07-08T19:47:43,164 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,164 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,164 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,166 nwalign.c:3490:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,166 3490 | __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 = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,166 | ^~~~~~~~~ 2021-07-08T19:47:43,166 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,167 from nwalign.c:4: 2021-07-08T19:47:43,167 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,167 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,167 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,169 nwalign.c:3517:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,169 3517 | __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 = 258; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,169 | ^~~~~~~~~ 2021-07-08T19:47:43,169 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,170 from nwalign.c:4: 2021-07-08T19:47:43,170 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,170 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,170 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,172 nwalign.c:3544:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,172 3544 | __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 = 259; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2021-07-08T19:47:43,172 | ^~~~~~~~~ 2021-07-08T19:47:43,172 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,172 from nwalign.c:4: 2021-07-08T19:47:43,173 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,173 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,173 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,175 nwalign.c:3578:3: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,175 3578 | __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;} 2021-07-08T19:47:43,175 | ^~~~~~~~~ 2021-07-08T19:47:43,175 In file included from /usr/include/python3.9/Python.h:145, 2021-07-08T19:47:43,175 from nwalign.c:4: 2021-07-08T19:47:43,175 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-08T19:47:43,175 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-08T19:47:43,176 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,236 nwalign.c: In function ‘__Pyx_ErrRestore’: 2021-07-08T19:47:43,242 nwalign.c:6146:18: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,242 6146 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2021-07-08T19:47:43,242 | ^~~~~~~~ 2021-07-08T19:47:43,242 | curexc_type 2021-07-08T19:47:43,249 nwalign.c:6146:47: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,249 6146 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2021-07-08T19:47:43,249 | ^~~~~~~~ 2021-07-08T19:47:43,249 | curexc_type 2021-07-08T19:47:43,254 nwalign.c:6147:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,255 6147 | tmp_type = tstate->exc_type; 2021-07-08T19:47:43,255 | ^~~~~~~~ 2021-07-08T19:47:43,255 | curexc_type 2021-07-08T19:47:43,260 nwalign.c:6148:29: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,261 6148 | tmp_value = tstate->exc_value; 2021-07-08T19:47:43,261 | ^~~~~~~~~ 2021-07-08T19:47:43,261 | curexc_value 2021-07-08T19:47:43,266 nwalign.c:6149:26: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,266 6149 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:47:43,266 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,267 | curexc_traceback 2021-07-08T19:47:43,272 nwalign.c:6152:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,272 6152 | tstate->exc_type = 0; 2021-07-08T19:47:43,272 | ^~~~~~~~ 2021-07-08T19:47:43,273 | curexc_type 2021-07-08T19:47:43,278 nwalign.c:6153:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,278 6153 | tstate->exc_value = 0; 2021-07-08T19:47:43,278 | ^~~~~~~~~ 2021-07-08T19:47:43,278 | curexc_value 2021-07-08T19:47:43,284 nwalign.c:6154:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,284 6154 | tstate->exc_traceback = 0; 2021-07-08T19:47:43,284 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,284 | curexc_traceback 2021-07-08T19:47:43,287 nwalign.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-08T19:47:43,290 nwalign.c:6255:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,290 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,290 | ^~ 2021-07-08T19:47:43,291 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,291 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,292 from nwalign.c:4: 2021-07-08T19:47:43,292 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,292 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,292 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,295 nwalign.c:6255:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,295 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,296 | ^~ 2021-07-08T19:47:43,296 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,296 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,296 from nwalign.c:4: 2021-07-08T19:47:43,296 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:47:43,296 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:47:43,296 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,299 nwalign.c:6255:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,300 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,300 | ^~ 2021-07-08T19:47:43,300 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,300 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,300 from nwalign.c:4: 2021-07-08T19:47:43,300 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,300 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,300 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,304 nwalign.c:6255:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,304 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,304 | ^~ 2021-07-08T19:47:43,304 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,304 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,304 from nwalign.c:4: 2021-07-08T19:47:43,304 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,304 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,305 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,308 nwalign.c:6255:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,308 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,308 | ^~ 2021-07-08T19:47:43,308 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,308 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,308 from nwalign.c:4: 2021-07-08T19:47:43,308 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:47:43,309 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:47:43,309 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,312 nwalign.c:6255:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,312 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,312 | ^~ 2021-07-08T19:47:43,312 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,312 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,312 from nwalign.c:4: 2021-07-08T19:47:43,312 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,313 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,313 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,317 nwalign.c:6269:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,317 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,317 | ^~ 2021-07-08T19:47:43,317 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,317 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,318 from nwalign.c:4: 2021-07-08T19:47:43,318 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,318 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,318 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,321 nwalign.c:6269:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,321 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,321 | ^~ 2021-07-08T19:47:43,321 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,321 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,322 from nwalign.c:4: 2021-07-08T19:47:43,322 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:47:43,322 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:47:43,322 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,325 nwalign.c:6269:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,325 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,325 | ^~ 2021-07-08T19:47:43,325 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,325 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,326 from nwalign.c:4: 2021-07-08T19:47:43,326 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,326 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,326 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,329 nwalign.c:6269:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,329 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,329 | ^~ 2021-07-08T19:47:43,330 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,330 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,330 from nwalign.c:4: 2021-07-08T19:47:43,330 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,330 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,330 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,333 nwalign.c:6269:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,333 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,333 | ^~ 2021-07-08T19:47:43,334 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,334 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,334 from nwalign.c:4: 2021-07-08T19:47:43,334 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-08T19:47:43,334 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-08T19:47:43,334 | ^~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,337 nwalign.c:6269:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-08T19:47:43,337 6269 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2021-07-08T19:47:43,338 | ^~ 2021-07-08T19:47:43,338 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-08T19:47:43,338 from /usr/include/python3.9/Python.h:97, 2021-07-08T19:47:43,338 from nwalign.c:4: 2021-07-08T19:47:43,338 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-08T19:47:43,338 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-08T19:47:43,338 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,339 nwalign.c: In function ‘__Pyx_GetException’: 2021-07-08T19:47:43,344 nwalign.c:6321:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,344 6321 | tmp_type = tstate->exc_type; 2021-07-08T19:47:43,344 | ^~~~~~~~ 2021-07-08T19:47:43,345 | curexc_type 2021-07-08T19:47:43,350 nwalign.c:6322:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,350 6322 | tmp_value = tstate->exc_value; 2021-07-08T19:47:43,350 | ^~~~~~~~~ 2021-07-08T19:47:43,351 | curexc_value 2021-07-08T19:47:43,356 nwalign.c:6323:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,356 6323 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:47:43,357 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,357 | curexc_traceback 2021-07-08T19:47:43,362 nwalign.c:6324:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,362 6324 | tstate->exc_type = *type; 2021-07-08T19:47:43,363 | ^~~~~~~~ 2021-07-08T19:47:43,363 | curexc_type 2021-07-08T19:47:43,368 nwalign.c:6325:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,368 6325 | tstate->exc_value = *value; 2021-07-08T19:47:43,369 | ^~~~~~~~~ 2021-07-08T19:47:43,369 | curexc_value 2021-07-08T19:47:43,374 nwalign.c:6326:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,374 6326 | tstate->exc_traceback = *tb; 2021-07-08T19:47:43,375 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,375 | curexc_traceback 2021-07-08T19:47:43,375 nwalign.c: In function ‘__Pyx_ExceptionSave’: 2021-07-08T19:47:43,381 nwalign.c:6343:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,381 6343 | *type = tstate->exc_type; 2021-07-08T19:47:43,381 | ^~~~~~~~ 2021-07-08T19:47:43,381 | curexc_type 2021-07-08T19:47:43,387 nwalign.c:6344:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,387 6344 | *value = tstate->exc_value; 2021-07-08T19:47:43,387 | ^~~~~~~~~ 2021-07-08T19:47:43,387 | curexc_value 2021-07-08T19:47:43,393 nwalign.c:6345:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,393 6345 | *tb = tstate->exc_traceback; 2021-07-08T19:47:43,393 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,393 | curexc_traceback 2021-07-08T19:47:43,393 nwalign.c: In function ‘__Pyx_ExceptionReset’: 2021-07-08T19:47:43,399 nwalign.c:6354:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,399 6354 | tmp_type = tstate->exc_type; 2021-07-08T19:47:43,399 | ^~~~~~~~ 2021-07-08T19:47:43,400 | curexc_type 2021-07-08T19:47:43,405 nwalign.c:6355:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,405 6355 | tmp_value = tstate->exc_value; 2021-07-08T19:47:43,406 | ^~~~~~~~~ 2021-07-08T19:47:43,406 | curexc_value 2021-07-08T19:47:43,411 nwalign.c:6356:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,411 6356 | tmp_tb = tstate->exc_traceback; 2021-07-08T19:47:43,412 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,412 | curexc_traceback 2021-07-08T19:47:43,417 nwalign.c:6357:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-08T19:47:43,418 6357 | tstate->exc_type = type; 2021-07-08T19:47:43,418 | ^~~~~~~~ 2021-07-08T19:47:43,418 | curexc_type 2021-07-08T19:47:43,423 nwalign.c:6358:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-08T19:47:43,424 6358 | tstate->exc_value = value; 2021-07-08T19:47:43,424 | ^~~~~~~~~ 2021-07-08T19:47:43,424 | curexc_value 2021-07-08T19:47:43,429 nwalign.c:6359:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-08T19:47:43,430 6359 | tstate->exc_traceback = tb; 2021-07-08T19:47:43,430 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,430 | curexc_traceback 2021-07-08T19:47:43,551 At top level: 2021-07-08T19:47:43,554 nwalign.c:4598:13: warning: ‘__pyx_pf_5numpy_7ndarray___releasebuffer__’ defined but not used [-Wunused-function] 2021-07-08T19:47:43,554 4598 | static void __pyx_pf_5numpy_7ndarray___releasebuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info) { 2021-07-08T19:47:43,554 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,556 nwalign.c:3840:12: warning: ‘__pyx_pf_5numpy_7ndarray___getbuffer__’ defined but not used [-Wunused-function] 2021-07-08T19:47:43,557 3840 | static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { 2021-07-08T19:47:43,557 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-08T19:47:43,557 nwalign.c:976:13: warning: ‘__pyx_k_27’ defined but not used [-Wunused-variable] 2021-07-08T19:47:43,557 976 | static char __pyx_k_27[] = "<"; 2021-07-08T19:47:43,557 | ^~~~~~~~~~ 2021-07-08T19:47:43,557 nwalign.c:975:13: warning: ‘__pyx_k_26’ defined but not used [-Wunused-variable] 2021-07-08T19:47:43,557 975 | static char __pyx_k_26[] = ">"; 2021-07-08T19:47:43,557 | ^~~~~~~~~~ 2021-07-08T19:47:43,558 nwalign.c:969:13: warning: ‘__pyx_k_24’ defined but not used [-Wunused-variable] 2021-07-08T19:47:43,558 969 | static char __pyx_k_24[] = "^"; 2021-07-08T19:47:43,558 | ^~~~~~~~~~ 2021-07-08T19:47:43,558 nwalign.c:949:13: warning: ‘__pyx_k_4’ defined but not used [-Wunused-variable] 2021-07-08T19:47:43,558 949 | static char __pyx_k_4[] = "<"; 2021-07-08T19:47:43,558 | ^~~~~~~~~ 2021-07-08T19:47:43,559 nwalign.c:948:13: warning: ‘__pyx_k_3’ defined but not used [-Wunused-variable] 2021-07-08T19:47:43,559 948 | static char __pyx_k_3[] = ">"; 2021-07-08T19:47:43,559 | ^~~~~~~~~ 2021-07-08T19:47:43,559 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:21, 2021-07-08T19:47:43,560 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-08T19:47:43,560 from nwalign.c:136: 2021-07-08T19:47:43,560 /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] 2021-07-08T19:47:43,560 1464 | _import_array(void) 2021-07-08T19:47:43,560 | ^~~~~~~~~~~~~ 2021-07-08T19:47:43,565 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-08T19:47:43,676 Building wheel for nwalign (setup.py): finished with status 'error' 2021-07-08T19:47:43,677 ERROR: Failed building wheel for nwalign 2021-07-08T19:47:43,677 Running setup.py clean for nwalign 2021-07-08T19:47:43,678 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-voeytv0u/nwalign_cf06eef4cafa40ae84d20dc06875d8db/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 2021-07-08T19:47:44,688 running clean 2021-07-08T19:47:44,690 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-08T19:47:44,691 'build/lib.linux-armv7l-3.9' does not exist -- can't clean it 2021-07-08T19:47:44,691 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-08T19:47:44,692 'build/scripts-3.9' does not exist -- can't clean it 2021-07-08T19:47:44,692 removing 'build' 2021-07-08T19:47:44,777 Failed to build nwalign 2021-07-08T19:47:44,778 ERROR: Failed to build one or more wheels 2021-07-08T19:47:44,778 Exception information: 2021-07-08T19:47:44,778 Traceback (most recent call last): 2021-07-08T19:47:44,778 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-08T19:47:44,778 status = self.run(options, args) 2021-07-08T19:47:44,778 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-08T19:47:44,778 return func(self, options, args) 2021-07-08T19:47:44,778 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-08T19:47:44,778 raise CommandError( 2021-07-08T19:47:44,778 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-08T19:47:44,781 Removed build tracker: '/tmp/pip-req-tracker-9auk3ydd'