2021-07-11T16:45:53,357 Created temporary directory: /tmp/pip-ephem-wheel-cache-xatos_3v 2021-07-11T16:45:53,359 Created temporary directory: /tmp/pip-req-tracker-a6uyzgbl 2021-07-11T16:45:53,360 Initialized build tracking at /tmp/pip-req-tracker-a6uyzgbl 2021-07-11T16:45:53,360 Created build tracker: /tmp/pip-req-tracker-a6uyzgbl 2021-07-11T16:45:53,360 Entered build tracker: /tmp/pip-req-tracker-a6uyzgbl 2021-07-11T16:45:53,361 Created temporary directory: /tmp/pip-wheel-cg_b8rz7 2021-07-11T16:45:53,391 1 location(s) to search for versions of whatshap: 2021-07-11T16:45:53,391 * https://pypi.org/simple/whatshap/ 2021-07-11T16:45:53,391 Fetching project page and analyzing links: https://pypi.org/simple/whatshap/ 2021-07-11T16:45:53,392 Getting page https://pypi.org/simple/whatshap/ 2021-07-11T16:45:53,393 Found index url https://pypi.org/simple 2021-07-11T16:45:53,586 Found link https://files.pythonhosted.org/packages/35/95/43ff2304cd59ade39e64aadaeaec48e8c12bbe6262bcbbbd7b7d89487757/whatshap-0.9.tar.gz#sha256=beaadbc79e4d463b5e441b8e9a13b5345c07db3d91fb093cee1bfebfebae4442 (from https://pypi.org/simple/whatshap/), version: 0.9 2021-07-11T16:45:53,586 Found link https://files.pythonhosted.org/packages/f0/4b/f2b882803ac66b969414d8427ee8b4ca2c29b17cfead0fd85f349dc66983/whatshap-0.10.tar.gz#sha256=864d4ecfc33eac7265452f5a2f468a830779afc53e723119ecac5ecf73255acc (from https://pypi.org/simple/whatshap/), version: 0.10 2021-07-11T16:45:53,586 Found link https://files.pythonhosted.org/packages/fc/dc/30559c28fb54985773fb242f5768fc206e054e44e45962a32cf4fd29a794/whatshap-0.11.tar.gz#sha256=d0367a4dd0adf288d30a9a87b565e4f141745bec3ea825cb85ac3409a593bde9 (from https://pypi.org/simple/whatshap/), version: 0.11 2021-07-11T16:45:53,587 Found link https://files.pythonhosted.org/packages/01/84/31a5ea338647d0256a4a5c57e98d7a563f387e6a47f1e26299b89e3f2da1/whatshap-0.12.tar.gz#sha256=c65060155dc901e4d4bd48077706660e5b214540d4dc20575a8b2146fb6a11f9 (from https://pypi.org/simple/whatshap/), version: 0.12 2021-07-11T16:45:53,587 Found link https://files.pythonhosted.org/packages/e2/f3/c71cb4bc3ba3b1234ee0c5fe729c60440164e07437695ca09c61750e0e11/whatshap-0.13.tar.gz#sha256=529646db74b2cac9f12ebd530bd7bb40cb073c367894bf66c5994c1d7f32b56a (from https://pypi.org/simple/whatshap/), version: 0.13 2021-07-11T16:45:53,587 Found link https://files.pythonhosted.org/packages/cd/d3/a63285d15b0da196a259197e46d9f61a852d1b3c94800f4a82ca4e31e307/whatshap-0.14.tar.gz#sha256=dd6076e67c5a4ce75d2510b3dbdd3c1e524124be62655f06c82f7d9fce4c5643 (from https://pypi.org/simple/whatshap/), version: 0.14 2021-07-11T16:45:53,588 Found link https://files.pythonhosted.org/packages/ec/d4/d6c19b716926895ee3def919ab23194212172ed5cf89ccb91c2949fb258d/whatshap-0.14.1.tar.gz#sha256=7b5781f1138b1830c4627451d1d5c77e7f2a3c5403510d9ab2a63f545911415b (from https://pypi.org/simple/whatshap/), version: 0.14.1 2021-07-11T16:45:53,588 Found link https://files.pythonhosted.org/packages/ca/13/6454e5e8f6c858a203378b3e22f13518f092ba85aa6d7a9a9796d22c28e0/whatshap-0.15.tar.gz#sha256=2dc9d89d71cf99e10c71b6138edd456bfcf0d7355794bc3491078654df85bc38 (from https://pypi.org/simple/whatshap/), version: 0.15 2021-07-11T16:45:53,588 Found link https://files.pythonhosted.org/packages/3d/cb/55730a8713ecba10f6d987dbd935ba31ded92f9af1ddd250896f3c1cfc3b/whatshap-0.16.tar.gz#sha256=1df54d8705fb0451cc0a640918842481087f7b741778dfb4100cc1f4f60f48fe (from https://pypi.org/simple/whatshap/), version: 0.16 2021-07-11T16:45:53,588 Found link https://files.pythonhosted.org/packages/79/11/79da12b8c23f43b00fab8a6206f75cc1cc8c1902ff30eca53c17abe2f633/whatshap-0.17.tar.gz#sha256=8ad1c66789fe5fe957b3695902dae3c3fd4e67f79b9e349b92b532e9ff618933 (from https://pypi.org/simple/whatshap/), version: 0.17 2021-07-11T16:45:53,606 Skipping link: none of the wheel's tags (cp34-cp34m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/97/19/5758de9357d2639e81f774dffd5227278df2df7f56e81f080098f00c8d5a/whatshap-0.18-cp34-cp34m-manylinux1_x86_64.whl#sha256=4a09adc24c6db3bd525667ac2559181dc94ee203a64f488dfce1ac38cbf44ba5 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2021-07-11T16:45:53,606 Skipping link: none of the wheel's tags (cp35-cp35m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/d0/72/94dc654f66164a351a1a9540e28b4bdf34a81046fbf26b5955725bea2f64/whatshap-0.18-cp35-cp35m-manylinux1_x86_64.whl#sha256=1c99980629655e58a34496b0e1b1c9123dddd0797a13cf681dcf83f92a6f33e0 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2021-07-11T16:45:53,607 Skipping link: none of the wheel's tags (cp36-cp36m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/0a/50/c9c89e7f3a59251a91e618165ccc2586b626643a4c59dfd8d1b32f9b6bbb/whatshap-0.18-cp36-cp36m-manylinux1_x86_64.whl#sha256=fdadadbed86cc7a7abd8f9ef3d55fe280eda957473db03dc30ad06ace6b877bd (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2021-07-11T16:45:53,607 Skipping link: none of the wheel's tags (cp37-cp37m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/32/77/e9e6f3e15a89ea87b0a3ed50e99af2a375a897707eb8b4c81209af918ff0/whatshap-0.18-cp37-cp37m-manylinux1_x86_64.whl#sha256=2e189cb51c2527444dada90f8fd2355ddfe8d9d35aca386330e63bc46c2d2699 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4) 2021-07-11T16:45:53,608 Found link https://files.pythonhosted.org/packages/f0/e4/4392c2f1320ea8d4b79a76e3a6dcb9bd7bf6ed70e11499c9acf2db2d42ef/whatshap-0.18.tar.gz#sha256=c566130eca57fe9e34f5193390856dc44171c397f9708c49fcbf204e575b6695 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.4), version: 0.18 2021-07-11T16:45:53,609 Skipping link: none of the wheel's tags (cp36-cp36m-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/0f/f5/78e5fa758144941f08b1de923889c7123e4d20368837904fc004592b6ec9/whatshap-1.0-cp36-cp36m-manylinux2010_x86_64.whl#sha256=ff945c6a0406f328771dbbc86970bd48a0327833ca8e96ad836a55ab32ae99d4 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,609 Skipping link: none of the wheel's tags (cp37-cp37m-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/42/cb/53a1a2a160846a225c6184da26e8f6d6577f5af378e3a90aab728bb5b504/whatshap-1.0-cp37-cp37m-manylinux2010_x86_64.whl#sha256=78bacd81697878129a6ff39f9474792f85b95e6fde7bfa30371b87a24d5e9d3a (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,609 Skipping link: none of the wheel's tags (cp38-cp38-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/63/91/5aaa2ec02a362e784d7be43f43b1e243fa9153ef5d9ab3ada91759638444/whatshap-1.0-cp38-cp38-manylinux2010_x86_64.whl#sha256=62318377e996d1f3040cbfdb3462a3140dbdfd4113584c9000b530ca70bbf223 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,610 Found link https://files.pythonhosted.org/packages/c0/c8/98036e04fb95249128d6b49ca61691e1d8eea484dd94611f90efb5857174/whatshap-1.0.tar.gz#sha256=fcf0495793998da94054bdc4c6d6f3f6b145a7befa07ac96275e5e2272979aa2 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.0 2021-07-11T16:45:53,611 Skipping link: none of the wheel's tags (cp36-cp36m-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/8a/fb/dfaa97a9ec1fe333dcd730498376d33bc21de017760b633d8dd84f9cd9f6/whatshap-1.1-cp36-cp36m-manylinux2010_x86_64.whl#sha256=93af99ab08fac60bb3e46cde68978619f095e1b47490f59e4085f338ad715b46 (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,611 Skipping link: none of the wheel's tags (cp37-cp37m-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/37/4e/a06bd339ea7179e750d49fec27caba7a6b364f608b5126105770333a6dfa/whatshap-1.1-cp37-cp37m-manylinux2010_x86_64.whl#sha256=94c04469069a87636c8aaf88d9f3e33022864de633327fedfdedd8da2bc4c6aa (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,611 Skipping link: none of the wheel's tags (cp38-cp38-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/2b/61/3000e39650a20faf011d74e41c3a6e3eea11195b1dad6cc8398665539363/whatshap-1.1-cp38-cp38-manylinux2010_x86_64.whl#sha256=7821711be901f898437a6be4993a15e77edbb59683ffa76d3dc9bc1bf855769a (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,612 Skipping link: none of the wheel's tags (cp39-cp39-manylinux2010_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/37/1a/f9708037de73715099098762c13e8e0681129041d41fb0ab508004ed2aa7/whatshap-1.1-cp39-cp39-manylinux2010_x86_64.whl#sha256=9e3a3169de452412c4e5cfe3220c0d51178d4811f33183e53069c57de49253ae (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6) 2021-07-11T16:45:53,612 Found link https://files.pythonhosted.org/packages/94/69/20b124a032b37c73ac56708744cbf2542cbc3e31390f261853ca5a6f62fe/whatshap-1.1.tar.gz#sha256=4e6486e6ce2babf55a225dd9e0030df6fcc27629d34803428cbe88a79137bb6f (from https://pypi.org/simple/whatshap/) (requires-python:>=3.6), version: 1.1 2021-07-11T16:45:53,613 Skipping link: not a file: https://pypi.org/simple/whatshap/ 2021-07-11T16:45:53,615 Given no hashes to check 1 links for project 'whatshap': discarding no candidates 2021-07-11T16:45:53,634 Collecting whatshap==0.12 2021-07-11T16:45:53,636 Created temporary directory: /tmp/pip-unpack-ynrw9exr 2021-07-11T16:45:53,895 Downloading whatshap-0.12.tar.gz (336 kB) 2021-07-11T16:45:54,233 Added whatshap==0.12 from https://files.pythonhosted.org/packages/01/84/31a5ea338647d0256a4a5c57e98d7a563f387e6a47f1e26299b89e3f2da1/whatshap-0.12.tar.gz#sha256=c65060155dc901e4d4bd48077706660e5b214540d4dc20575a8b2146fb6a11f9 to build tracker '/tmp/pip-req-tracker-a6uyzgbl' 2021-07-11T16:45:54,234 Running setup.py (path:/tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0/setup.py) egg_info for package whatshap 2021-07-11T16:45:54,235 Created temporary directory: /tmp/pip-pip-egg-info-8_3pqs6w 2021-07-11T16:45:54,235 Running command python setup.py egg_info 2021-07-11T16:45:55,236 running egg_info 2021-07-11T16:45:55,239 creating /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info 2021-07-11T16:45:55,240 writing /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/PKG-INFO 2021-07-11T16:45:55,242 writing dependency_links to /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/dependency_links.txt 2021-07-11T16:45:55,243 writing entry points to /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/entry_points.txt 2021-07-11T16:45:55,244 writing requirements to /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/requires.txt 2021-07-11T16:45:55,245 writing top-level names to /tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/top_level.txt 2021-07-11T16:45:55,247 writing manifest file '/tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/SOURCES.txt' 2021-07-11T16:45:55,258 reading manifest file '/tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/SOURCES.txt' 2021-07-11T16:45:55,260 reading manifest template 'MANIFEST.in' 2021-07-11T16:45:55,263 warning: no files found matching 'whatshap/readselect.cpp' 2021-07-11T16:45:55,273 writing manifest file '/tmp/pip-pip-egg-info-8_3pqs6w/whatshap.egg-info/SOURCES.txt' 2021-07-11T16:45:55,337 Source in /tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0 has version 0.12, which satisfies requirement whatshap==0.12 from https://files.pythonhosted.org/packages/01/84/31a5ea338647d0256a4a5c57e98d7a563f387e6a47f1e26299b89e3f2da1/whatshap-0.12.tar.gz#sha256=c65060155dc901e4d4bd48077706660e5b214540d4dc20575a8b2146fb6a11f9 2021-07-11T16:45:55,338 Removed whatshap==0.12 from https://files.pythonhosted.org/packages/01/84/31a5ea338647d0256a4a5c57e98d7a563f387e6a47f1e26299b89e3f2da1/whatshap-0.12.tar.gz#sha256=c65060155dc901e4d4bd48077706660e5b214540d4dc20575a8b2146fb6a11f9 from build tracker '/tmp/pip-req-tracker-a6uyzgbl' 2021-07-11T16:45:55,342 Created temporary directory: /tmp/pip-unpack-abqm0k6v 2021-07-11T16:45:55,343 Building wheels for collected packages: whatshap 2021-07-11T16:45:55,347 Created temporary directory: /tmp/pip-wheel-81i9guzv 2021-07-11T16:45:55,348 Building wheel for whatshap (setup.py): started 2021-07-11T16:45:55,348 Destination directory: /tmp/pip-wheel-81i9guzv 2021-07-11T16:45:55,348 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0/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-81i9guzv 2021-07-11T16:45:56,361 running bdist_wheel 2021-07-11T16:45:56,366 running build 2021-07-11T16:45:56,366 running build_py 2021-07-11T16:45:56,372 creating build 2021-07-11T16:45:56,373 creating build/lib.linux-armv7l-3.9 2021-07-11T16:45:56,373 creating build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,374 copying whatshap/coverage.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,376 copying whatshap/unphase.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,378 copying whatshap/timer.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,379 copying whatshap/__main__.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,381 copying whatshap/vcf.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,384 copying whatshap/variants.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,386 copying whatshap/verification.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,388 copying whatshap/haplotag.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,390 copying whatshap/bam.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,392 copying whatshap/graph.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,394 copying whatshap/hapcut2vcf.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,396 copying whatshap/math.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,397 copying whatshap/example.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,399 copying whatshap/stats.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,401 copying whatshap/args.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,403 copying whatshap/_version.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,405 copying whatshap/compare.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,408 copying whatshap/__init__.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,410 copying whatshap/pedigree.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,412 copying whatshap/phase.py -> build/lib.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,417 UPDATING build/lib.linux-armv7l-3.9/whatshap/_version.py 2021-07-11T16:45:56,418 set build/lib.linux-armv7l-3.9/whatshap/_version.py to '0.12' 2021-07-11T16:45:56,419 running build_ext 2021-07-11T16:45:56,426 building 'whatshap.core' extension 2021-07-11T16:45:56,427 creating build/temp.linux-armv7l-3.9 2021-07-11T16:45:56,427 creating build/temp.linux-armv7l-3.9/src 2021-07-11T16:45:56,429 creating build/temp.linux-armv7l-3.9/whatshap 2021-07-11T16:45:56,429 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 -UNDEBUG -I/usr/include/python3.9 -c src/columncostcomputer.cpp -o build/temp.linux-armv7l-3.9/src/columncostcomputer.o -std=c++11 2021-07-11T16:45:57,862 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 -UNDEBUG -I/usr/include/python3.9 -c src/columnindexingiterator.cpp -o build/temp.linux-armv7l-3.9/src/columnindexingiterator.o -std=c++11 2021-07-11T16:45:58,982 src/columnindexingiterator.cpp: In member function ‘unsigned int ColumnIndexingIterator::dual_index(unsigned int)’: 2021-07-11T16:45:58,982 src/columnindexingiterator.cpp:101:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:45:58,983 101 | for(int j=0; j< parent->read_ids.size(); ++j) { // compute the dual of i 2021-07-11T16:45:58,983 | ~^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:45:58,983 src/columnindexingiterator.cpp: In member function ‘unsigned int ColumnIndexingIterator::index_forward_projection(unsigned int)’: 2021-07-11T16:45:58,983 src/columnindexingiterator.cpp:115:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:45:58,983 115 | for(int j=0; j< parent->read_ids.size(); ++j) { 2021-07-11T16:45:58,984 | ~^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:45:58,984 src/columnindexingiterator.cpp:117:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-11T16:45:58,984 117 | if(m != -1) { 2021-07-11T16:45:58,984 | ~~^~~~~ 2021-07-11T16:45:58,984 src/columnindexingiterator.cpp:114:16: warning: unused variable ‘s’ [-Wunused-variable] 2021-07-11T16:45:58,984 114 | unsigned int s = 1; 2021-07-11T16:45:58,985 | ^ 2021-07-11T16:45:59,307 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 -UNDEBUG -I/usr/include/python3.9 -c src/columnindexingscheme.cpp -o build/temp.linux-armv7l-3.9/src/columnindexingscheme.o -std=c++11 2021-07-11T16:46:00,417 src/columnindexingscheme.cpp: In constructor ‘ColumnIndexingScheme::ColumnIndexingScheme(const ColumnIndexingScheme*, const std::vector&)’: 2021-07-11T16:46:00,418 src/columnindexingscheme.cpp:20:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:46:00,418 20 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:46:00,418 20 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:46:00,421 63 | while ((iread_ids.size()) && (j::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-11T16:46:00,421 63 | while ((iread_ids.size()) && (j > ColumnIterator::get_next()’: 2021-07-11T16:46:02,650 src/columniterator.cpp:89:33: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-11T16:46:02,650 89 | assert(list_it->active_entry < read->getVariantCount()); 2021-07-11T16:46:02,651 | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:02,668 src/columniterator.cpp: In member function ‘void ColumnIterator::jump_to_column(size_t)’: 2021-07-11T16:46:02,668 src/columniterator.cpp:145:25: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-11T16:46:02,668 145 | assert(active_entry < read->getVariantCount()); 2021-07-11T16:46:02,668 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:04,186 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 -UNDEBUG -I/usr/include/python3.9 -c src/dptable.cpp -o build/temp.linux-armv7l-3.9/src/dptable.o -std=c++11 2021-07-11T16:46:05,922 src/dptable.cpp: In member function ‘void DPTable::compute_table()’: 2021-07-11T16:46:05,922 src/dptable.cpp:106:10: warning: unused variable ‘pc’ [-Wunused-variable] 2021-07-11T16:46:05,923 106 | double pc = pi; 2021-07-11T16:46:05,923 | ^~ 2021-07-11T16:46:05,923 src/dptable.cpp:107:16: warning: unused variable ‘nc’ [-Wunused-variable] 2021-07-11T16:46:05,923 107 | unsigned int nc = column_iterator.get_column_count(); 2021-07-11T16:46:05,923 | ^~ 2021-07-11T16:46:07,329 src/dptable.cpp:260:23: warning: ‘running_optimal_score_index’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-11T16:46:07,329 260 | optimal_score_index = running_optimal_score_index; 2021-07-11T16:46:07,329 | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:07,329 src/dptable.cpp:259:17: warning: ‘running_optimal_score’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-11T16:46:07,329 259 | optimal_score = running_optimal_score; 2021-07-11T16:46:07,329 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:08,054 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 -UNDEBUG -I/usr/include/python3.9 -c src/entry.cpp -o build/temp.linux-armv7l-3.9/src/entry.o -std=c++11 2021-07-11T16:46:08,935 src/entry.cpp: In function ‘std::ostream& operator<<(std::ostream&, const Entry&)’: 2021-07-11T16:46:08,935 src/entry.cpp:38:41: warning: control reaches end of non-void function [-Wreturn-type] 2021-07-11T16:46:08,935 38 | out << ',' << ((int)e.phred_score) << ')'; 2021-07-11T16:46:08,935 | ^~~ 2021-07-11T16:46:09,061 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 -UNDEBUG -I/usr/include/python3.9 -c src/graycodes.cpp -o build/temp.linux-armv7l-3.9/src/graycodes.o -std=c++11 2021-07-11T16:46:10,153 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 -UNDEBUG -I/usr/include/python3.9 -c src/indexset.cpp -o build/temp.linux-armv7l-3.9/src/indexset.o -std=c++11 2021-07-11T16:46:11,770 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 -UNDEBUG -I/usr/include/python3.9 -c src/pedigree.cpp -o build/temp.linux-armv7l-3.9/src/pedigree.o -std=c++11 2021-07-11T16:46:14,516 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 -UNDEBUG -I/usr/include/python3.9 -c src/pedigreecolumncostcomputer.cpp -o build/temp.linux-armv7l-3.9/src/pedigreecolumncostcomputer.o -std=c++11 2021-07-11T16:46:16,060 src/pedigreecolumncostcomputer.cpp: In constructor ‘PedigreeColumnCostComputer::PedigreeColumnCostComputer(const std::vector&, size_t, const std::vector&, const Pedigree*, const PedigreePartitions&)’: 2021-07-11T16:46:16,060 src/pedigreecolumncostcomputer.cpp:24:29: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-11T16:46:16,060 24 | for (unsigned int i = 0; i < (1< __pyx_convert_vector_from_py_unsigned_int(PyObject*)’: 2021-07-11T16:46:34,938 whatshap/core.cpp:11306:83: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-11T16:46:34,938 11306 | __pyx_t_5 = __Pyx_PyInt_As_unsigned_int(__pyx_v_item); if (unlikely(__pyx_t_5 == -1 && PyErr_Occurred())) __PYX_ERR(2, 52, __pyx_L1_error) 2021-07-11T16:46:34,938 | ~~~~~~~~~~^~~~~ 2021-07-11T16:46:34,938 whatshap/core.cpp:503:43: note: in definition of macro ‘unlikely’ 2021-07-11T16:46:34,938 503 | #define unlikely(x) __builtin_expect(!!(x), 0) 2021-07-11T16:46:34,939 | ^ 2021-07-11T16:46:34,999 whatshap/core.cpp: In function ‘PyObject* PyInit_core()’: 2021-07-11T16:46:34,999 whatshap/core.cpp:13345:47: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:34,999 13345 | __pyx_type_8whatshap_4core_NumericSampleIds.tp_print = 0; 2021-07-11T16:46:34,999 | ^~~~~~~~ 2021-07-11T16:46:35,000 whatshap/core.cpp:13349:35: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,000 13349 | __pyx_type_8whatshap_4core_Read.tp_print = 0; 2021-07-11T16:46:35,000 | ^~~~~~~~ 2021-07-11T16:46:35,002 whatshap/core.cpp:13393:38: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,002 13393 | __pyx_type_8whatshap_4core_ReadSet.tp_print = 0; 2021-07-11T16:46:35,002 | ^~~~~~~~ 2021-07-11T16:46:35,002 whatshap/core.cpp:13397:38: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,003 13397 | __pyx_type_8whatshap_4core_DPTable.tp_print = 0; 2021-07-11T16:46:35,003 | ^~~~~~~~ 2021-07-11T16:46:35,003 whatshap/core.cpp:13401:39: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,003 13401 | __pyx_type_8whatshap_4core_Pedigree.tp_print = 0; 2021-07-11T16:46:35,003 | ^~~~~~~~ 2021-07-11T16:46:35,003 whatshap/core.cpp:13405:46: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,003 13405 | __pyx_type_8whatshap_4core_PedigreeDPTable.tp_print = 0; 2021-07-11T16:46:35,004 | ^~~~~~~~ 2021-07-11T16:46:35,004 whatshap/core.cpp:13409:59: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,004 13409 | __pyx_type_8whatshap_4core___pyx_scope_struct____iter__.tp_print = 0; 2021-07-11T16:46:35,004 | ^~~~~~~~ 2021-07-11T16:46:35,004 whatshap/core.cpp:13412:60: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,004 13412 | __pyx_type_8whatshap_4core___pyx_scope_struct_1___iter__.tp_print = 0; 2021-07-11T16:46:35,004 | ^~~~~~~~ 2021-07-11T16:46:35,005 whatshap/core.cpp:13415:76: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,005 13415 | __pyx_type_8whatshap_4core___pyx_scope_struct_2_format_read_source_stats.tp_print = 0; 2021-07-11T16:46:35,005 | ^~~~~~~~ 2021-07-11T16:46:35,005 whatshap/core.cpp:13418:59: error: ‘PyTypeObject’ {aka ‘struct _typeobject’} has no member named ‘tp_print’ 2021-07-11T16:46:35,005 13418 | __pyx_type_8whatshap_4core___pyx_scope_struct_3_genexpr.tp_print = 0; 2021-07-11T16:46:35,005 | ^~~~~~~~ 2021-07-11T16:46:35,023 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-11T16:46:35,023 from /usr/include/python3.9/Python.h:97, 2021-07-11T16:46:35,023 from whatshap/core.cpp:23: 2021-07-11T16:46:35,024 whatshap/core.cpp: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-11T16:46:35,024 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,024 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,024 | ^ 2021-07-11T16:46:35,024 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,024 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-11T16:46:35,024 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,025 whatshap/core.cpp:13851:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,025 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,025 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,025 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,025 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,025 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,025 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,026 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-11T16:46:35,026 | ^ 2021-07-11T16:46:35,026 whatshap/core.cpp:13851:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,026 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,026 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,026 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-11T16:46:35,026 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-11T16:46:35,027 | ^~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,027 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,027 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,027 | ^ 2021-07-11T16:46:35,027 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,027 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-11T16:46:35,027 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,028 whatshap/core.cpp:13851:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,028 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,028 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,028 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,028 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,028 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,028 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,028 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,029 | ^ 2021-07-11T16:46:35,029 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,029 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-11T16:46:35,029 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,029 whatshap/core.cpp:13851:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,029 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,029 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,029 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,030 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,030 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,030 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,030 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-11T16:46:35,030 | ^ 2021-07-11T16:46:35,030 whatshap/core.cpp:13851:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,030 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,031 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,031 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-11T16:46:35,031 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-11T16:46:35,031 | ^~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,031 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,031 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,031 | ^ 2021-07-11T16:46:35,032 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,032 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-11T16:46:35,032 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,032 whatshap/core.cpp:13851:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,032 13851 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,032 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,032 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,032 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,033 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,033 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,033 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,033 | ^ 2021-07-11T16:46:35,033 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,033 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-11T16:46:35,033 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,034 whatshap/core.cpp:13867:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,034 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,034 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,034 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,034 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,034 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,034 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,035 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-11T16:46:35,035 | ^ 2021-07-11T16:46:35,035 whatshap/core.cpp:13867:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,035 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,035 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,035 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-11T16:46:35,035 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-11T16:46:35,035 | ^~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,036 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,036 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,036 | ^ 2021-07-11T16:46:35,036 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,036 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-11T16:46:35,036 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,036 whatshap/core.cpp:13867:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,037 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,037 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,037 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,037 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,037 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,037 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,037 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,038 | ^ 2021-07-11T16:46:35,038 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,038 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-11T16:46:35,038 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,038 whatshap/core.cpp:13867:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,038 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,038 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,038 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,039 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,039 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,039 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,039 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-11T16:46:35,039 | ^ 2021-07-11T16:46:35,039 whatshap/core.cpp:13867:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,039 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,040 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,040 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-11T16:46:35,040 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-11T16:46:35,040 | ^~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,040 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,040 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-11T16:46:35,040 | ^ 2021-07-11T16:46:35,041 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-11T16:46:35,041 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-11T16:46:35,041 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,041 whatshap/core.cpp:13867:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-11T16:46:35,041 13867 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-11T16:46:35,041 | ^~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,041 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-11T16:46:35,041 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-11T16:46:35,042 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,042 whatshap/core.cpp: In function ‘PyObject* __Pyx_decode_c_bytes(const char*, Py_ssize_t, Py_ssize_t, Py_ssize_t, const char*, const char*, PyObject* (*)(const char*, Py_ssize_t, const char*))’: 2021-07-11T16:46:35,042 whatshap/core.cpp:14035:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-11T16:46:35,042 14035 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-11T16:46:35,042 | ^ 2021-07-11T16:46:35,042 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-11T16:46:35,042 from /usr/include/python3.9/Python.h:97, 2021-07-11T16:46:35,043 from whatshap/core.cpp:23: 2021-07-11T16:46:35,043 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-11T16:46:35,043 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-11T16:46:35,043 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-11T16:46:35,155 whatshap/core.cpp: In function ‘void __Pyx__ExceptionSwap(PyThreadState*, PyObject**, PyObject**, PyObject**)’: 2021-07-11T16:46:35,155 whatshap/core.cpp:16039:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-11T16:46:35,155 16039 | tmp_type = tstate->exc_type; 2021-07-11T16:46:35,156 | ^~~~~~~~ 2021-07-11T16:46:35,156 | curexc_type 2021-07-11T16:46:35,156 whatshap/core.cpp:16040:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-11T16:46:35,156 16040 | tmp_value = tstate->exc_value; 2021-07-11T16:46:35,156 | ^~~~~~~~~ 2021-07-11T16:46:35,156 | curexc_value 2021-07-11T16:46:35,156 whatshap/core.cpp:16041:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-11T16:46:35,156 16041 | tmp_tb = tstate->exc_traceback; 2021-07-11T16:46:35,157 | ^~~~~~~~~~~~~ 2021-07-11T16:46:35,157 | curexc_traceback 2021-07-11T16:46:35,157 whatshap/core.cpp:16042:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-11T16:46:35,157 16042 | tstate->exc_type = *type; 2021-07-11T16:46:35,158 | ^~~~~~~~ 2021-07-11T16:46:35,158 | curexc_type 2021-07-11T16:46:35,158 whatshap/core.cpp:16043:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-11T16:46:35,158 16043 | tstate->exc_value = *value; 2021-07-11T16:46:35,158 | ^~~~~~~~~ 2021-07-11T16:46:35,158 | curexc_value 2021-07-11T16:46:35,158 whatshap/core.cpp:16044:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-11T16:46:35,158 16044 | tstate->exc_traceback = *tb; 2021-07-11T16:46:35,159 | ^~~~~~~~~~~~~ 2021-07-11T16:46:35,159 | curexc_traceback 2021-07-11T16:46:35,749 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-11T16:46:35,818 Building wheel for whatshap (setup.py): finished with status 'error' 2021-07-11T16:46:35,818 ERROR: Failed building wheel for whatshap 2021-07-11T16:46:35,819 Running setup.py clean for whatshap 2021-07-11T16:46:35,819 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-cg_b8rz7/whatshap_62415f034ef2430cb0f9e344587498f0/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 2021-07-11T16:46:36,880 running clean 2021-07-11T16:46:36,882 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-11T16:46:36,893 removing 'build/lib.linux-armv7l-3.9' (and everything under it) 2021-07-11T16:46:36,903 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-11T16:46:36,903 'build/scripts-3.9' does not exist -- can't clean it 2021-07-11T16:46:36,903 removing 'build' 2021-07-11T16:46:36,968 Failed to build whatshap 2021-07-11T16:46:36,969 ERROR: Failed to build one or more wheels 2021-07-11T16:46:36,970 Exception information: 2021-07-11T16:46:36,970 Traceback (most recent call last): 2021-07-11T16:46:36,970 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-11T16:46:36,970 status = self.run(options, args) 2021-07-11T16:46:36,970 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-11T16:46:36,970 return func(self, options, args) 2021-07-11T16:46:36,970 File "/home/piwheels/.local/lib/python3.9/site-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-11T16:46:36,970 raise CommandError( 2021-07-11T16:46:36,970 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-11T16:46:36,973 Removed build tracker: '/tmp/pip-req-tracker-a6uyzgbl'