2021-07-13T05:35:42,050 Created temporary directory: /tmp/pip-ephem-wheel-cache-px8rr8cr
2021-07-13T05:35:42,054 Created temporary directory: /tmp/pip-req-tracker-tz_wn0qw
2021-07-13T05:35:42,054 Initialized build tracking at /tmp/pip-req-tracker-tz_wn0qw
2021-07-13T05:35:42,055 Created build tracker: /tmp/pip-req-tracker-tz_wn0qw
2021-07-13T05:35:42,055 Entered build tracker: /tmp/pip-req-tracker-tz_wn0qw
2021-07-13T05:35:42,056 Created temporary directory: /tmp/pip-wheel-8aw4cvir
2021-07-13T05:35:42,149 1 location(s) to search for versions of uta-align:
2021-07-13T05:35:42,149 * https://pypi.org/simple/uta-align/
2021-07-13T05:35:42,150 Fetching project page and analyzing links: https://pypi.org/simple/uta-align/
2021-07-13T05:35:42,151 Getting page https://pypi.org/simple/uta-align/
2021-07-13T05:35:42,154 Found index url https://pypi.org/simple
2021-07-13T05:35:42,472   Found link https://files.pythonhosted.org/packages/60/a2/47df4fbbbf9800199f0b9363ba2b02c7f234d074ad2693d09cb499a18b2f/uta-align-0.0.1dev-c749ca8b22a0.tar.gz#sha256=be2bea43e93b36fb91ed4d3cf0dafc9e9d26c754c1c7e7d091e4faec223395c1 (from https://pypi.org/simple/uta-align/), version: 0.0.1dev-c749ca8b22a0
2021-07-13T05:35:42,473   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/08/ed/16116fd416d69101c3cda7290be8a3a4f82f9d3c9e7902c783633ed78f21/uta_align-0.0.1dev_c749ca8b22a0-py2.7-linux-x86_64.egg#sha256=11e7bf9911132edebbcfefbd7628396c2ede205ca2e3d002c5b6b5e9d05be423 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,474   Found link https://files.pythonhosted.org/packages/c5/c4/e4c65f29cdbcec6ec0269ae305bba6b2a228ff67699de315154dcda99f68/uta-align-0.1.0.tar.gz#sha256=e132e120722a1684309dc3baa6f272a84cd856b2bad8b8efed7c9d790990f7ec (from https://pypi.org/simple/uta-align/), version: 0.1.0
2021-07-13T05:35:42,474   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/66/50/0cf3cc125b6ba7ad99012bedf436c15e56cdf19c677edd4d25f24c51cfe2/uta_align-0.1.0-py2.7-linux-x86_64.egg#sha256=4f38852f9e1646b23a19c00ea43f42ced3b75fb7a100a0634b3babb644f43c8d (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,475   Found link https://files.pythonhosted.org/packages/f5/7f/c7c7d3043fa52fe7d6c8d3a870409f9cc9126ca11c113ca05bcd889a123d/uta-align-0.1.2.tar.gz#sha256=e70615dceeb48cd34bfa5632896db2e588ff74502e7d0f499fd6206d5b867076 (from https://pypi.org/simple/uta-align/), version: 0.1.2
2021-07-13T05:35:42,476   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/fe/38/a811e7ea2cfa3d1447302b1e0bf650a6b7394c85a308416ae9acbde5c0b9/uta_align-0.1.2-py2.7-linux-x86_64.egg#sha256=2c8d200c1d7ec3ea7fccf3882c81b0d0d95e8f15593c6d88f37e548a19545f4c (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,477   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/c8/ef/d709856489d8883fa96dfa2732a7cdf33a2b6eb7319e2d8f245e1fbe299a/uta_align-0.1.4-py2.7-linux-x86_64.egg#sha256=54061fe3de1ba3e807a995daf933073c6ee5e62cf10dba247dfc9b4365b85269 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,498   Found link https://files.pythonhosted.org/packages/4f/98/6c282d715088d99d0e4ad4574bd7ae06ae0157f9b4c94843bf215a2b13fd/uta-align-0.1.5.tar.gz#sha256=8504275cbcfa88a73935633b9b8dcff86216480597ab0e887b38514dbe574473 (from https://pypi.org/simple/uta-align/), version: 0.1.5
2021-07-13T05:35:42,498   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/d3/86/7a17a92e6730db93d570dde8d4f6ed2ebde235a4a2b1067fe41aa73e6d56/uta_align-0.1.5-py2.7-linux-x86_64.egg#sha256=7448c12fcbf369f8439cbca59b19148c79a082014a7d6f8153a5fad51ac875aa (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,499   Found link https://files.pythonhosted.org/packages/20/a0/944d267127f1cc2b188f8afbc3684232ebd576ccad97cec399179f29ada3/uta-align-0.1.6.tar.gz#sha256=6c2368b2375690fa5fcc649841fa1b07d26c327f6c6108c1f6ee6cb1993fe475 (from https://pypi.org/simple/uta-align/), version: 0.1.6
2021-07-13T05:35:42,500   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/8a/79/ab5ccbbf4854c8dc038871306dccb76e18680581267e876528f829089b6a/uta_align-0.1.6-py2.7-linux-x86_64.egg#sha256=547eb1595f2201faa0723bed37480fe739e872fcabf5dc95ebfada86d8a03237 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,501   Found link https://files.pythonhosted.org/packages/42/c0/9999b551deffc63c27066cffdac0c2bdd6413d3741b775a6f0441ce82c94/uta-align-0.1.7.tar.gz#sha256=9d34fa4c128faa303ed059271e564678a482303fe4f64273e6f977f542916250 (from https://pypi.org/simple/uta-align/), version: 0.1.7
2021-07-13T05:35:42,502   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/8a/fc/a620e23d04f03f60881831b48f4e05e3fbd8b8cd9c797b06245f7783d8b4/uta_align-0.1.7-py2.7-linux-x86_64.egg#sha256=d8e9e7a35c561ec6aa633ce0069f31f6304a1622de94d3441c6f319cecebd66a (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,503   Found link https://files.pythonhosted.org/packages/f1/f2/ae2c44e1009a4c94be0a228a17ba41327cbb14ca4d205b9d30a6d03907e0/uta-align-0.1.8.tar.gz#sha256=9fb48ba209517ddf1bbc7678280ab52f14a5e47131c0b647249cc2f295e398b1 (from https://pypi.org/simple/uta-align/), version: 0.1.8
2021-07-13T05:35:42,504   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/0a/e1/dfb0593828e024c1a8c1b40539a892d613a52221deec59e1916e6271c49d/uta_align-0.1.8-py2.7-linux-x86_64.egg#sha256=6221a1b03c2ac8730965ee66f3693ff51705f81670cb1a0fc0845899a6476d2e (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,504   Found link https://files.pythonhosted.org/packages/53/9a/f8e1cab0dc5e7f59277cad128fcead3897c03c74c743b6ef05927a49914e/uta-align-0.1.9.tar.gz#sha256=47751429b2a3860a0ecb62f4b21a80e13d6c81a6a72a679c61468ab9dc668b17 (from https://pypi.org/simple/uta-align/), version: 0.1.9
2021-07-13T05:35:42,505   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/12/b6/bedbe1aa646f76d72de5a2e269b0771d04704ab97be399ebe34a7b4a31ac/uta_align-0.1.9-py2.7-linux-x86_64.egg#sha256=09b267559e4c203bb88043430ec86612d463355c4b858d57e38aa9d4d12c2894 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,506   Found link https://files.pythonhosted.org/packages/94/6b/0b73dc6d3391468e9d5229a262129763672296d41f1a26d4f128c66a99dd/uta-align-0.1.10.tar.gz#sha256=98bbd07287834f681670a4f0d93a8ccd79ed2482dcdce715c8d0531e804ac098 (from https://pypi.org/simple/uta-align/), version: 0.1.10
2021-07-13T05:35:42,507   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/af/ec/2ec104fea2c5ad78e85b77df92d92a77c75fca18b9fd5efe75e970c4d6ed/uta_align-0.1.10-py2.7-linux-x86_64.egg#sha256=0ee4e6d1bbb96a6202276e3669c8571995ab6b61b1583b3869081ebb7608600d (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,508   Found link https://files.pythonhosted.org/packages/46/1c/47de77a2b89f0339022a5ae5a03f4a919f1afa18d47b5640c3e87c0f5e68/uta-align-0.1.11.tar.gz#sha256=c57b7a4b0d7440469d9fe166e279055e64c362f48b7c08d1ff9e4355c77e46e9 (from https://pypi.org/simple/uta-align/), version: 0.1.11
2021-07-13T05:35:42,509   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/dd/a7/46496d2d48416e55e45b4f7a77103d53a80f9165552d81ffba27e51ff99b/uta_align-0.1.11-py2.7-linux-x86_64.egg#sha256=05b12a98224dfb96c4430a78741a9b7828963ee4234d5915cae24f43ee9ab1b4 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,509   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/0f/7c/ffe50738dd367f7378193f892584392015f4b62aa3ebce7ff721b0cddbc4/uta_align-0.1.11-py3.6-linux-x86_64.egg#sha256=6af6b46d95ebe2e3bd06b51ed976e2a954555bc226f1f7a609acf5d0221ad783 (from https://pypi.org/simple/uta-align/)
2021-07-13T05:35:42,510   Found link https://files.pythonhosted.org/packages/0f/a2/e6bdd37d746c294c7a6374664078ecf2d34677b52c5267ff0576f669eb15/uta-align-0.2.0a1.tar.gz#sha256=95701375098847b1a208ea9547250d6830545d07a318d17196a27b836aae1bd6 (from https://pypi.org/simple/uta-align/), version: 0.2.0a1
2021-07-13T05:35:42,511   Found link https://files.pythonhosted.org/packages/7c/07/3d0483101728198e619f9d45552d2d50dc90fc2937964a899e6fe3908687/uta-align-0.2.0a2.tar.gz#sha256=702990bbc4a3f5f42846867d69b32272f8370d4099321754b15b8754b7440485 (from https://pypi.org/simple/uta-align/), version: 0.2.0a2
2021-07-13T05:35:42,512   Found link https://files.pythonhosted.org/packages/d6/4e/c15fb32400d949bcfd2078c9a7ad9944c8f59603e2504e40b6f2a7c79980/uta-align-0.2.0a3.tar.gz#sha256=2e6585863d7168b76393fabc2fea093bcdde40b94d0783280fb5093819656a4c (from https://pypi.org/simple/uta-align/), version: 0.2.0a3
2021-07-13T05:35:42,513   Found link https://files.pythonhosted.org/packages/64/bc/5306c731e7d4d304e9d1f7fee2a8fa1d79640626ccaac9f9df660078893c/uta-align-0.2.0.tar.gz#sha256=bf78594b6c1b8fd017bfc610f98a7fee689b24754fb78344cd42ee745b97d3b2 (from https://pypi.org/simple/uta-align/), version: 0.2.0
2021-07-13T05:35:42,514 Skipping link: not a file: https://pypi.org/simple/uta-align/
2021-07-13T05:35:42,575 Given no hashes to check 1 links for project 'uta-align': discarding no candidates
2021-07-13T05:35:42,651 Collecting uta-align==0.1.11
2021-07-13T05:35:42,659   Created temporary directory: /tmp/pip-unpack-86g0jsrv
2021-07-13T05:35:42,954   Downloading uta-align-0.1.11.tar.gz (73 kB)
2021-07-13T05:35:43,305   Added uta-align==0.1.11 from https://files.pythonhosted.org/packages/46/1c/47de77a2b89f0339022a5ae5a03f4a919f1afa18d47b5640c3e87c0f5e68/uta-align-0.1.11.tar.gz#sha256=c57b7a4b0d7440469d9fe166e279055e64c362f48b7c08d1ff9e4355c77e46e9 to build tracker '/tmp/pip-req-tracker-tz_wn0qw'
2021-07-13T05:35:43,307     Running setup.py (path:/tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694/setup.py) egg_info for package uta-align
2021-07-13T05:35:43,318     Created temporary directory: /tmp/pip-pip-egg-info-qru4hwqq
2021-07-13T05:35:43,318     Running command python setup.py egg_info
2021-07-13T05:35:50,862     Defaulting to user installation because normal site-packages is not writeable
2021-07-13T05:35:52,268     Collecting pysam
2021-07-13T05:35:52,270       Using cached pysam-0.16.0.1-cp39-cp39-linux_armv7l.whl
2021-07-13T05:36:06,414     Installing collected packages: pysam
2021-07-13T05:36:09,247     Successfully installed pysam-0.16.0.1
2021-07-13T05:36:10,773     [WARNING] pysam not found, attempting to install using a raw "pip install" call!
2021-07-13T05:36:10,774     running egg_info
2021-07-13T05:36:10,792     creating /tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info
2021-07-13T05:36:10,797     writing /tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/PKG-INFO
2021-07-13T05:36:10,802     writing dependency_links to /tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/dependency_links.txt
2021-07-13T05:36:10,830     writing requirements to /tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/requires.txt
2021-07-13T05:36:10,833     writing top-level names to /tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/top_level.txt
2021-07-13T05:36:10,837     writing manifest file '/tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/SOURCES.txt'
2021-07-13T05:36:11,562     reading manifest file '/tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/SOURCES.txt'
2021-07-13T05:36:11,574     adding license file 'LICENSE.txt'
2021-07-13T05:36:11,578     writing manifest file '/tmp/pip-pip-egg-info-qru4hwqq/uta_align.egg-info/SOURCES.txt'
2021-07-13T05:36:11,856   Source in /tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694 has version 0.1.11, which satisfies requirement uta-align==0.1.11 from https://files.pythonhosted.org/packages/46/1c/47de77a2b89f0339022a5ae5a03f4a919f1afa18d47b5640c3e87c0f5e68/uta-align-0.1.11.tar.gz#sha256=c57b7a4b0d7440469d9fe166e279055e64c362f48b7c08d1ff9e4355c77e46e9
2021-07-13T05:36:11,868   Removed uta-align==0.1.11 from https://files.pythonhosted.org/packages/46/1c/47de77a2b89f0339022a5ae5a03f4a919f1afa18d47b5640c3e87c0f5e68/uta-align-0.1.11.tar.gz#sha256=c57b7a4b0d7440469d9fe166e279055e64c362f48b7c08d1ff9e4355c77e46e9 from build tracker '/tmp/pip-req-tracker-tz_wn0qw'
2021-07-13T05:36:11,881 Created temporary directory: /tmp/pip-unpack-w3j593fg
2021-07-13T05:36:11,884 Building wheels for collected packages: uta-align
2021-07-13T05:36:11,899   Created temporary directory: /tmp/pip-wheel-vdlhz4je
2021-07-13T05:36:11,900   Building wheel for uta-align (setup.py): started
2021-07-13T05:36:11,901   Destination directory: /tmp/pip-wheel-vdlhz4je
2021-07-13T05:36:11,902   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694/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-vdlhz4je
2021-07-13T05:36:16,515   running bdist_wheel
2021-07-13T05:36:16,524   running build
2021-07-13T05:36:16,525   running build_py
2021-07-13T05:36:16,774   creating build
2021-07-13T05:36:16,775   creating build/lib.linux-armv7l-3.9
2021-07-13T05:36:16,776   creating build/lib.linux-armv7l-3.9/uta_align
2021-07-13T05:36:16,777   copying uta_align/__init__.py -> build/lib.linux-armv7l-3.9/uta_align
2021-07-13T05:36:16,782   creating build/lib.linux-armv7l-3.9/uta_align/align
2021-07-13T05:36:16,783   copying uta_align/align/__init__.py -> build/lib.linux-armv7l-3.9/uta_align/align
2021-07-13T05:36:16,788   running build_ext
2021-07-13T05:36:16,892   cythoning uta_align/align/cigar_utils.pyx to uta_align/align/cigar_utils.c
2021-07-13T05:36:18,312   /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694/uta_align/align/cigar_utils.pxd
2021-07-13T05:36:18,312     tree = Parsing.p_module(s, pxd, full_module_name)
2021-07-13T05:36:28,454   warning: uta_align/align/cigar_utils.pyx:62:6: cpdef variables will not be supported in Cython 3; currently they are no different from cdef variables
2021-07-13T05:36:28,454   warning: uta_align/align/cigar_utils.pyx:69:6: cpdef variables will not be supported in Cython 3; currently they are no different from cdef variables
2021-07-13T05:36:31,369   cythoning uta_align/align/algorithms.pyx to uta_align/align/algorithms.c
2021-07-13T05:36:31,379   /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-8aw4cvir/uta-align_3792672d175944a38f0faed8734a7694/uta_align/align/algorithms.pyx
2021-07-13T05:36:31,380     tree = Parsing.p_module(s, pxd, full_module_name)
2021-07-13T05:36:45,080   building 'uta_align.align.cigar_utils' extension
2021-07-13T05:36:45,081   creating build/temp.linux-armv7l-3.9
2021-07-13T05:36:45,081   creating build/temp.linux-armv7l-3.9/uta_align
2021-07-13T05:36:45,083   creating build/temp.linux-armv7l-3.9/uta_align/align
2021-07-13T05:36:45,084   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/home/piwheels/.local/lib/python3.9/site-packages/pysam -I/home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib -I/home/piwheels/.local/lib/python3.9/site-packages/pysam/include/samtools -I/usr/include/python3.9 -c uta_align/align/cigar_utils.c -o build/temp.linux-armv7l-3.9/uta_align/align/cigar_utils.o
2021-07-13T05:36:46,417   In file included from /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/vcf.h:43,
2021-07-13T05:36:46,418                    from /home/piwheels/.local/lib/python3.9/site-packages/pysam/htslib_util.h:5,
2021-07-13T05:36:46,418                    from uta_align/align/cigar_utils.c:618:
2021-07-13T05:36:46,419   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h: In function ‘le_to_i32’:
2021-07-13T05:36:46,419   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h:245:34: warning: operand of ‘?:’ changes signedness from ‘int’ to ‘uint32_t’ {aka ‘unsigned int’} due to unsignedness of other operand [-Wsign-compare]
2021-07-13T05:36:46,419     245 |     return v < 0x80000000U ? v : -((int32_t) (0xffffffffU - v)) - 1;
2021-07-13T05:36:46,420         |                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:36:46,420   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h: In function ‘le_to_i64’:
2021-07-13T05:36:46,420   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h:257:19: warning: operand of ‘?:’ changes signedness from ‘long long int’ to ‘uint64_t’ {aka ‘long long unsigned int’} due to unsignedness of other operand [-Wsign-compare]
2021-07-13T05:36:46,421     257 |             ? v : -((int64_t) (0xffffffffffffffffULL - v)) - 1);
2021-07-13T05:36:46,421         |                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:36:46,454   In file included from uta_align/align/cigar_utils.c:619:
2021-07-13T05:36:46,455   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hfile.h: In function ‘hwrite’:
2021-07-13T05:36:46,456   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hfile.h:271:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:36:46,456     271 |         if (fp->limit - fp->begin < nbytes){
2021-07-13T05:36:46,456         |                                   ^
2021-07-13T05:36:46,591   In file included from /usr/include/python3.9/Python.h:120,
2021-07-13T05:36:46,591                    from uta_align/align/cigar_utils.c:6:
2021-07-13T05:36:46,592   uta_align/align/cigar_utils.c: In function ‘__pyx_f_9uta_align_5align_11cigar_utils_13CigarSequence__extend_from_cigar_slice’:
2021-07-13T05:36:46,601   uta_align/align/cigar_utils.c:5166:37: warning: passing argument 1 of ‘PySlice_Unpack’ from incompatible pointer type [-Wincompatible-pointer-types]
2021-07-13T05:36:46,601    5166 |   __pyx_t_1 = PySlice_GetIndicesEx(((PySliceObject *)__pyx_v_sliceobj), __pyx_v_other->cigar_len, (&__pyx_v_start), (&__pyx_v_stop), (&__pyx_v_step), (&__pyx_v_slicelen)); if (unlikely(__pyx_t_1 == ((int)-1))) __PYX_ERR(0, 222, __pyx_L1_error)
2021-07-13T05:36:46,602   /usr/include/python3.9/sliceobject.h:51:21: note: in definition of macro ‘PySlice_GetIndicesEx’
2021-07-13T05:36:46,602      51 |     PySlice_Unpack((slice), (start), (stop), (step)) < 0 ?                  \
2021-07-13T05:36:46,602         |                     ^~~~~
2021-07-13T05:36:46,603   /usr/include/python3.9/sliceobject.h:55:42: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘PySliceObject *’
2021-07-13T05:36:46,603      55 | PyAPI_FUNC(int) PySlice_Unpack(PyObject *slice,
2021-07-13T05:36:46,603         |                                ~~~~~~~~~~^~~~~
2021-07-13T05:36:46,644   uta_align/align/cigar_utils.c: In function ‘__pyx_f_9uta_align_5align_11cigar_utils_13CigarSequence__alloc_buf’:
2021-07-13T05:36:46,660   uta_align/align/cigar_utils.c:6084:45: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:36:46,661    6084 |   __pyx_t_1 = ((__pyx_v_self->cigar_buf_len < __pyx_v_n) != 0);
2021-07-13T05:36:46,661         |                                             ^
2021-07-13T05:36:46,682   uta_align/align/cigar_utils.c: In function ‘__pyx_pf_9uta_align_5align_11cigar_utils_13CigarSequence_6__contains__’:
2021-07-13T05:36:46,686   uta_align/align/cigar_utils.c:6550:63: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2021-07-13T05:36:46,686    6550 |     __pyx_t_6 = ((((__pyx_v_self->cigar_buf[__pyx_v_i]) & 15) == __pyx_v_op) != 0);
2021-07-13T05:36:46,687         |                                                               ^~
2021-07-13T05:36:46,707   uta_align/align/cigar_utils.c: In function ‘__pyx_f_9uta_align_5align_11cigar_utils_13CigarSequence_count’:
2021-07-13T05:36:46,731   uta_align/align/cigar_utils.c:6709:63: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2021-07-13T05:36:46,731    6709 |     __pyx_t_9 = ((((__pyx_v_self->cigar_buf[__pyx_v_i]) & 15) == __pyx_v_op) != 0);
2021-07-13T05:36:46,732         |                                                               ^~
2021-07-13T05:36:46,794   uta_align/align/cigar_utils.c: In function ‘__pyx_f_9uta_align_5align_11cigar_utils_13CigarSequence_ref_len’:
2021-07-13T05:36:46,818   uta_align/align/cigar_utils.c:7283:48: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2021-07-13T05:36:46,819    7283 |       __pyx_t_9 = ((__pyx_v_query + __pyx_v_n) >= __pyx_v_query_bases);
2021-07-13T05:36:46,819         |                                                ^~
2021-07-13T05:36:46,845   uta_align/align/cigar_utils.c: In function ‘__pyx_f_9uta_align_5align_11cigar_utils_13CigarSequence_query_len’:
2021-07-13T05:36:46,862   uta_align/align/cigar_utils.c:7759:47: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
2021-07-13T05:36:46,863    7759 |       __pyx_t_11 = ((__pyx_v_ref + __pyx_v_n) >= __pyx_v_ref_bases);
2021-07-13T05:36:46,863         |                                               ^~
2021-07-13T05:36:47,073   uta_align/align/cigar_utils.c: In function ‘__pyx_pf_9uta_align_5align_11cigar_utils_13CigarSequence_38to_string’:
2021-07-13T05:36:47,080   uta_align/align/cigar_utils.c:10458:33: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-13T05:36:47,080   10458 |   for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) {
2021-07-13T05:36:47,080         |                                 ^
2021-07-13T05:36:47,113   uta_align/align/cigar_utils.c:10478:15: warning: implicit declaration of function ‘PyString_FromStringAndSize’; did you mean ‘PyBytes_FromStringAndSize’? [-Wimplicit-function-declaration]
2021-07-13T05:36:47,113   10478 |   __pyx_t_4 = PyString_FromStringAndSize(((char *)0), __pyx_v_str_len); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 666, __pyx_L1_error)
2021-07-13T05:36:47,114         |               ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:36:47,114         |               PyBytes_FromStringAndSize
2021-07-13T05:36:47,141   uta_align/align/cigar_utils.c:10478:13: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion]
2021-07-13T05:36:47,142   10478 |   __pyx_t_4 = PyString_FromStringAndSize(((char *)0), __pyx_v_str_len); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 666, __pyx_L1_error)
2021-07-13T05:36:47,142         |             ^
2021-07-13T05:36:47,151   uta_align/align/cigar_utils.c:10507:33: warning: comparison of integer expressions of different signedness: ‘uint32_t’ {aka ‘unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare]
2021-07-13T05:36:47,151   10507 |   for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) {
2021-07-13T05:36:47,152         |                                 ^
2021-07-13T05:36:48,474   In file included from /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:4,
2021-07-13T05:36:48,475                    from uta_align/align/cigar_utils.c:628:
2021-07-13T05:36:48,475   At top level:
2021-07-13T05:36:48,476   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:199:12: warning: ‘kseq_read’ defined but not used [-Wunused-function]
2021-07-13T05:36:48,477     199 |  SCOPE int kseq_read(kseq_t *seq) \
2021-07-13T05:36:48,477         |            ^~~~~~~~~
2021-07-13T05:36:48,478   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:251:2: note: in expansion of macro ‘__KSEQ_READ’
2021-07-13T05:36:48,478     251 |  __KSEQ_READ(SCOPE)
2021-07-13T05:36:48,478         |  ^~~~~~~~~~~
2021-07-13T05:36:48,479   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:36:48,479     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:36:48,479         |                                   ^~~~~~~~~~
2021-07-13T05:36:48,480   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:36:48,480       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:36:48,481         | ^~~~~~~~~
2021-07-13T05:36:48,481   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:185:13: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
2021-07-13T05:36:48,482     185 |  SCOPE void kseq_destroy(kseq_t *ks)         \
2021-07-13T05:36:48,482         |             ^~~~~~~~~~~~
2021-07-13T05:36:48,483   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:250:2: note: in expansion of macro ‘__KSEQ_BASIC’
2021-07-13T05:36:48,483     250 |  __KSEQ_BASIC(SCOPE, type_t)     \
2021-07-13T05:36:48,484         |  ^~~~~~~~~~~~
2021-07-13T05:36:48,484   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:36:48,484     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:36:48,485         |                                   ^~~~~~~~~~
2021-07-13T05:36:48,485   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:36:48,486       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:36:48,486         | ^~~~~~~~~
2021-07-13T05:36:48,486   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:179:16: warning: ‘kseq_init’ defined but not used [-Wunused-function]
2021-07-13T05:36:48,487     179 |  SCOPE kseq_t *kseq_init(type_t fd)         \
2021-07-13T05:36:48,487         |                ^~~~~~~~~
2021-07-13T05:36:48,487   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:250:2: note: in expansion of macro ‘__KSEQ_BASIC’
2021-07-13T05:36:48,498     250 |  __KSEQ_BASIC(SCOPE, type_t)     \
2021-07-13T05:36:48,499         |  ^~~~~~~~~~~~
2021-07-13T05:36:48,499   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:36:48,500     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:36:48,500         |                                   ^~~~~~~~~~
2021-07-13T05:36:48,501   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:36:48,501       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:36:48,502         | ^~~~~~~~~
2021-07-13T05:37:11,847   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -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 build/temp.linux-armv7l-3.9/uta_align/align/cigar_utils.o /home/piwheels/.local/lib/python3.9/site-packages/pysam/libchtslib.cpython-39-arm-linux-gnueabihf.so -o build/lib.linux-armv7l-3.9/uta_align/align/cigar_utils.cpython-39-arm-linux-gnueabihf.so
2021-07-13T05:37:12,105   building 'uta_align.align.algorithms' extension
2021-07-13T05:37:12,106   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/home/piwheels/.local/lib/python3.9/site-packages/pysam -I/home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib -I/home/piwheels/.local/lib/python3.9/site-packages/pysam/include/samtools -I/usr/include/python3.9 -c uta_align/align/algorithms.c -o build/temp.linux-armv7l-3.9/uta_align/align/algorithms.o
2021-07-13T05:37:13,028   In file included from /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/vcf.h:43,
2021-07-13T05:37:13,028                    from /home/piwheels/.local/lib/python3.9/site-packages/pysam/htslib_util.h:5,
2021-07-13T05:37:13,029                    from uta_align/align/algorithms.c:619:
2021-07-13T05:37:13,029   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h: In function ‘le_to_i32’:
2021-07-13T05:37:13,030   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h:245:34: warning: operand of ‘?:’ changes signedness from ‘int’ to ‘uint32_t’ {aka ‘unsigned int’} due to unsignedness of other operand [-Wsign-compare]
2021-07-13T05:37:13,030     245 |     return v < 0x80000000U ? v : -((int32_t) (0xffffffffU - v)) - 1;
2021-07-13T05:37:13,030         |                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:37:13,031   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h: In function ‘le_to_i64’:
2021-07-13T05:37:13,031   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hts_endian.h:257:19: warning: operand of ‘?:’ changes signedness from ‘long long int’ to ‘uint64_t’ {aka ‘long long unsigned int’} due to unsignedness of other operand [-Wsign-compare]
2021-07-13T05:37:13,032     257 |             ? v : -((int64_t) (0xffffffffffffffffULL - v)) - 1);
2021-07-13T05:37:13,032         |                   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:37:13,066   In file included from uta_align/align/algorithms.c:620:
2021-07-13T05:37:13,066   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hfile.h: In function ‘hwrite’:
2021-07-13T05:37:13,067   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/hfile.h:271:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,067     271 |         if (fp->limit - fp->begin < nbytes){
2021-07-13T05:37:13,067         |                                   ^
2021-07-13T05:37:13,200   uta_align/align/algorithms.c: In function ‘__pyx_pf_9uta_align_5align_10algorithms_2cigar_alignment’:
2021-07-13T05:37:13,204   uta_align/align/algorithms.c:3961:15: warning: implicit declaration of function ‘PyString_FromStringAndSize’; did you mean ‘PyBytes_FromStringAndSize’? [-Wimplicit-function-declaration]
2021-07-13T05:37:13,204    3961 |   __pyx_t_4 = PyString_FromStringAndSize(((char *)0), __pyx_v_n); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 145, __pyx_L1_error)
2021-07-13T05:37:13,204         |               ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-13T05:37:13,204         |               PyBytes_FromStringAndSize
2021-07-13T05:37:13,206   uta_align/align/algorithms.c:3961:13: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion]
2021-07-13T05:37:13,206    3961 |   __pyx_t_4 = PyString_FromStringAndSize(((char *)0), __pyx_v_n); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 145, __pyx_L1_error)
2021-07-13T05:37:13,207         |             ^
2021-07-13T05:37:13,208   uta_align/align/algorithms.c:3973:13: warning: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion]
2021-07-13T05:37:13,209    3973 |   __pyx_t_4 = PyString_FromStringAndSize(((char *)0), __pyx_v_n); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 146, __pyx_L1_error)
2021-07-13T05:37:13,209         |             ^
2021-07-13T05:37:13,375   uta_align/align/algorithms.c: In function ‘__pyx_pf_9uta_align_5align_10algorithms_8needleman_wunsch_altshul_erikson’:
2021-07-13T05:37:13,381   uta_align/align/algorithms.c:12254:33: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,381   12254 |   for (__pyx_t_5 = 1; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) {
2021-07-13T05:37:13,382         |                                 ^
2021-07-13T05:37:13,397   uta_align/align/algorithms.c:12291:29: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,398   12291 |     __pyx_t_6 = ((__pyx_v_j < __pyx_v_m) != 0);
2021-07-13T05:37:13,398         |                             ^
2021-07-13T05:37:13,415   uta_align/align/algorithms.c:12323:33: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,416   12323 |   for (__pyx_t_5 = 1; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) {
2021-07-13T05:37:13,416         |                                 ^
2021-07-13T05:37:13,433   uta_align/align/algorithms.c:12406:29: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,434   12406 |     __pyx_t_6 = ((__pyx_v_i < __pyx_v_n) != 0);
2021-07-13T05:37:13,434         |                             ^
2021-07-13T05:37:13,452   uta_align/align/algorithms.c:12437:35: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare]
2021-07-13T05:37:13,452   12437 |     for (__pyx_t_7 = 1; __pyx_t_7 < __pyx_t_9; __pyx_t_7+=1) {
2021-07-13T05:37:13,453         |                                   ^
2021-07-13T05:37:14,733   In file included from /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:4,
2021-07-13T05:37:14,734                    from uta_align/align/algorithms.c:629:
2021-07-13T05:37:14,734   At top level:
2021-07-13T05:37:14,734   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:199:12: warning: ‘kseq_read’ defined but not used [-Wunused-function]
2021-07-13T05:37:14,735     199 |  SCOPE int kseq_read(kseq_t *seq) \
2021-07-13T05:37:14,735         |            ^~~~~~~~~
2021-07-13T05:37:14,736   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:251:2: note: in expansion of macro ‘__KSEQ_READ’
2021-07-13T05:37:14,736     251 |  __KSEQ_READ(SCOPE)
2021-07-13T05:37:14,736         |  ^~~~~~~~~~~
2021-07-13T05:37:14,737   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:37:14,737     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:37:14,737         |                                   ^~~~~~~~~~
2021-07-13T05:37:14,738   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:37:14,738       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:37:14,738         | ^~~~~~~~~
2021-07-13T05:37:14,739   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:185:13: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
2021-07-13T05:37:14,739     185 |  SCOPE void kseq_destroy(kseq_t *ks)         \
2021-07-13T05:37:14,739         |             ^~~~~~~~~~~~
2021-07-13T05:37:14,740   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:250:2: note: in expansion of macro ‘__KSEQ_BASIC’
2021-07-13T05:37:14,740     250 |  __KSEQ_BASIC(SCOPE, type_t)     \
2021-07-13T05:37:14,740         |  ^~~~~~~~~~~~
2021-07-13T05:37:14,741   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:37:14,741     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:37:14,741         |                                   ^~~~~~~~~~
2021-07-13T05:37:14,741   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:37:14,742       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:37:14,742         | ^~~~~~~~~
2021-07-13T05:37:14,742   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:179:16: warning: ‘kseq_init’ defined but not used [-Wunused-function]
2021-07-13T05:37:14,743     179 |  SCOPE kseq_t *kseq_init(type_t fd)         \
2021-07-13T05:37:14,743         |                ^~~~~~~~~
2021-07-13T05:37:14,743   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:250:2: note: in expansion of macro ‘__KSEQ_BASIC’
2021-07-13T05:37:14,744     250 |  __KSEQ_BASIC(SCOPE, type_t)     \
2021-07-13T05:37:14,744         |  ^~~~~~~~~~~~
2021-07-13T05:37:14,744   /home/piwheels/.local/lib/python3.9/site-packages/pysam/include/htslib/htslib/kseq.h:253:35: note: in expansion of macro ‘KSEQ_INIT2’
2021-07-13T05:37:14,744     253 | #define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
2021-07-13T05:37:14,745         |                                   ^~~~~~~~~~
2021-07-13T05:37:14,745   /home/piwheels/.local/lib/python3.9/site-packages/pysam/pysam_stream.h:9:1: note: in expansion of macro ‘KSEQ_INIT’
2021-07-13T05:37:14,745       9 | KSEQ_INIT(BGZF *, bgzf_read)
2021-07-13T05:37:14,746         | ^~~~~~~~~
2021-07-13T05:37:41,772   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -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 build/temp.linux-armv7l-3.9/uta_align/align/algorithms.o /home/piwheels/.local/lib/python3.9/site-packages/pysam/libchtslib.cpython-39-arm-linux-gnueabihf.so -o build/lib.linux-armv7l-3.9/uta_align/align/algorithms.cpython-39-arm-linux-gnueabihf.so
2021-07-13T05:37:42,169   installing to build/bdist.linux-armv7l/wheel
2021-07-13T05:37:42,170   running install
2021-07-13T05:37:42,171   running install_lib
2021-07-13T05:37:42,189   creating build/bdist.linux-armv7l
2021-07-13T05:37:42,190   creating build/bdist.linux-armv7l/wheel
2021-07-13T05:37:42,193   creating build/bdist.linux-armv7l/wheel/uta_align
2021-07-13T05:37:42,194   copying build/lib.linux-armv7l-3.9/uta_align/__init__.py -> build/bdist.linux-armv7l/wheel/uta_align
2021-07-13T05:37:42,199   creating build/bdist.linux-armv7l/wheel/uta_align/align
2021-07-13T05:37:42,201   copying build/lib.linux-armv7l-3.9/uta_align/align/algorithms.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/uta_align/align
2021-07-13T05:37:42,239   copying build/lib.linux-armv7l-3.9/uta_align/align/cigar_utils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/uta_align/align
2021-07-13T05:37:42,295   copying build/lib.linux-armv7l-3.9/uta_align/align/__init__.py -> build/bdist.linux-armv7l/wheel/uta_align/align
2021-07-13T05:37:42,298   running install_egg_info
2021-07-13T05:37:42,372   running egg_info
2021-07-13T05:37:42,373   writing uta_align.egg-info/PKG-INFO
2021-07-13T05:37:42,376   writing dependency_links to uta_align.egg-info/dependency_links.txt
2021-07-13T05:37:42,380   writing requirements to uta_align.egg-info/requires.txt
2021-07-13T05:37:42,382   writing top-level names to uta_align.egg-info/top_level.txt
2021-07-13T05:37:42,462   reading manifest file 'uta_align.egg-info/SOURCES.txt'
2021-07-13T05:37:42,474   adding license file 'LICENSE.txt'
2021-07-13T05:37:42,481   writing manifest file 'uta_align.egg-info/SOURCES.txt'
2021-07-13T05:37:42,484   Copying uta_align.egg-info to build/bdist.linux-armv7l/wheel/uta_align-0.1.11-py3.9.egg-info
2021-07-13T05:37:42,509   running install_scripts
2021-07-13T05:37:42,614   adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*")
2021-07-13T05:37:42,626   creating build/bdist.linux-armv7l/wheel/uta_align-0.1.11.dist-info/WHEEL
2021-07-13T05:37:42,633   creating '/tmp/pip-wheel-vdlhz4je/uta_align-0.1.11-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-13T05:37:42,638   adding 'uta_align/__init__.py'
2021-07-13T05:37:42,641   adding 'uta_align/align/__init__.py'
2021-07-13T05:37:42,903   adding 'uta_align/align/algorithms.cpython-39-arm-linux-gnueabihf.so'
2021-07-13T05:37:43,167   adding 'uta_align/align/cigar_utils.cpython-39-arm-linux-gnueabihf.so'
2021-07-13T05:37:43,179   adding 'uta_align-0.1.11.dist-info/LICENSE.txt'
2021-07-13T05:37:43,181   adding 'uta_align-0.1.11.dist-info/METADATA'
2021-07-13T05:37:43,183   adding 'uta_align-0.1.11.dist-info/WHEEL'
2021-07-13T05:37:43,201   adding 'uta_align-0.1.11.dist-info/top_level.txt'
2021-07-13T05:37:43,201   adding 'uta_align-0.1.11.dist-info/RECORD'
2021-07-13T05:37:43,212   removing build/bdist.linux-armv7l/wheel
2021-07-13T05:37:43,803   Building wheel for uta-align (setup.py): finished with status 'done'
2021-07-13T05:37:43,817   Created wheel for uta-align: filename=uta_align-0.1.11-cp39-cp39-linux_armv7l.whl size=580510 sha256=827c85ef70c500f1f1043097ddab023e02a866f3aa00719c37f486bb07bdc76f
2021-07-13T05:37:43,817   Stored in directory: /tmp/pip-ephem-wheel-cache-px8rr8cr/wheels/63/15/a4/74caac43b18200c2636ebf6a5b13d32e6dc70c0909b2701c99
2021-07-13T05:37:43,834 Successfully built uta-align
2021-07-13T05:37:43,865 Removed build tracker: '/tmp/pip-req-tracker-tz_wn0qw'