2025-01-13T18:54:10,351 Disabling truststore because Python version isn't 3.10+
2025-01-13T18:54:10,826 Created temporary directory: /tmp/pip-build-tracker-pmzz5tcv
2025-01-13T18:54:10,827 Initialized build tracking at /tmp/pip-build-tracker-pmzz5tcv
2025-01-13T18:54:10,827 Created build tracker: /tmp/pip-build-tracker-pmzz5tcv
2025-01-13T18:54:10,827 Entered build tracker: /tmp/pip-build-tracker-pmzz5tcv
2025-01-13T18:54:10,828 Created temporary directory: /tmp/pip-wheel-7ob7jrsa
2025-01-13T18:54:10,833 Created temporary directory: /tmp/pip-ephem-wheel-cache-18j1at6k
2025-01-13T18:54:10,876 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-01-13T18:54:10,879 2 location(s) to search for versions of rsalor:
2025-01-13T18:54:10,879 * https://pypi.org/simple/rsalor/
2025-01-13T18:54:10,879 * https://www.piwheels.org/simple/rsalor/
2025-01-13T18:54:10,879 Fetching project page and analyzing links: https://pypi.org/simple/rsalor/
2025-01-13T18:54:10,880 Getting page https://pypi.org/simple/rsalor/
2025-01-13T18:54:10,881 Found index url https://pypi.org/simple/
2025-01-13T18:54:10,978 Fetched page https://pypi.org/simple/rsalor/ as application/vnd.pypi.simple.v1+json
2025-01-13T18:54:10,981   Found link https://files.pythonhosted.org/packages/4c/88/688f5845b4ef1317b9350e0169cadc8f069aae5f5cfb2e9e3d28c079d49f/rsalor-1.0.0.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.0
2025-01-13T18:54:10,981   Found link https://files.pythonhosted.org/packages/ad/f6/3a2db19446e614c8818a31979eec9de02172d444267c2546127eaafb8ec7/rsalor-1.0.1.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.1
2025-01-13T18:54:10,982   Found link https://files.pythonhosted.org/packages/a1/8a/229551ab183a598779cd9c321cca487312b08d8ed4bae31e11bd1b1d0942/rsalor-1.0.2.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.2
2025-01-13T18:54:10,983   Found link https://files.pythonhosted.org/packages/96/e5/20a6df74de1ddb6dd3e42f829a01e9d2dbd1b6a1ae2afdf624a55ef237e9/rsalor-1.0.3.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.3
2025-01-13T18:54:10,983   Found link https://files.pythonhosted.org/packages/3d/54/b124af313c0b5be736e7de7b8a6a57090536b7a2882187e170848bf91833/rsalor-1.0.4.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.4
2025-01-13T18:54:10,984   Found link https://files.pythonhosted.org/packages/de/c1/7154ea2617145fcc7416dce6ebe10d4f22769502ad607dbb70c70a51f9f0/rsalor-1.0.5.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.5
2025-01-13T18:54:10,984   Found link https://files.pythonhosted.org/packages/bf/2f/83db056a56488a01d0fc1c5e6cde5dbe28e63f51de1e4f7f79462476adbe/rsalor-1.0.6.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.6
2025-01-13T18:54:10,985   Found link https://files.pythonhosted.org/packages/8a/7d/55cecf59f8776c7a448dccf78e34aa1b369d9653d34cd84eabb6672702f9/rsalor-1.0.7.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.7
2025-01-13T18:54:10,985   Found link https://files.pythonhosted.org/packages/c3/33/8b81849d184c44b496db64263ea1062dab902c08712a9d75b9820ab52d8d/rsalor-1.0.8.tar.gz (from https://pypi.org/simple/rsalor/) (requires-python:>=3.9), version: 1.0.8
2025-01-13T18:54:10,986 Fetching project page and analyzing links: https://www.piwheels.org/simple/rsalor/
2025-01-13T18:54:10,986 Getting page https://www.piwheels.org/simple/rsalor/
2025-01-13T18:54:10,987 Found index url https://www.piwheels.org/simple/
2025-01-13T18:54:11,029 Fetched page https://www.piwheels.org/simple/rsalor/ as text/html
2025-01-13T18:54:11,037   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.8-cp311-cp311-linux_armv6l.whl#sha256=5e49133537f036105914cf6bc365d233fc889a1c4633eedbca481d2142cd64d9 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,037   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.8-cp311-cp311-linux_armv7l.whl#sha256=5e49133537f036105914cf6bc365d233fc889a1c4633eedbca481d2142cd64d9 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,037   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.7-cp311-cp311-linux_armv6l.whl#sha256=b9cffb588a6b01d8683152e56520c60e5689590a45702a3349d8c71a35b82b9a (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,037   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.7-cp311-cp311-linux_armv7l.whl#sha256=b9cffb588a6b01d8683152e56520c60e5689590a45702a3349d8c71a35b82b9a (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,038   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.7-cp39-cp39-linux_armv6l.whl#sha256=1c287159f120fc399d97e299120dfc1241cc5fe0909bff2cbb358f0366602b24 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,038   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.7-cp39-cp39-linux_armv7l.whl#sha256=1c287159f120fc399d97e299120dfc1241cc5fe0909bff2cbb358f0366602b24 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,038   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.6-cp311-cp311-linux_armv6l.whl#sha256=e3279d8a29c034852404e40a88e5a61c477f9a63637a9739da274467d7924d77 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,038   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.6-cp311-cp311-linux_armv7l.whl#sha256=e3279d8a29c034852404e40a88e5a61c477f9a63637a9739da274467d7924d77 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,038   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.6-cp39-cp39-linux_armv6l.whl#sha256=6f58e8f5a8035e9b092496b9dcdeba8cc3c91ef252110af53ac7d76c0cb5a8ad (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,039   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.6-cp39-cp39-linux_armv7l.whl#sha256=6f58e8f5a8035e9b092496b9dcdeba8cc3c91ef252110af53ac7d76c0cb5a8ad (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,039   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.5-cp311-cp311-linux_armv6l.whl#sha256=40f78c532a04175a32e1fd9a72a515a83beea8a291e338fe225d3e1cfece696a (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,039   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.5-cp311-cp311-linux_armv7l.whl#sha256=40f78c532a04175a32e1fd9a72a515a83beea8a291e338fe225d3e1cfece696a (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,039   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.5-cp39-cp39-linux_armv6l.whl#sha256=47c7eeac52c88a3a1d281f21d38238c53adbcb66b322c2671eaa16eb6148d9c2 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,039   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.5-cp39-cp39-linux_armv7l.whl#sha256=47c7eeac52c88a3a1d281f21d38238c53adbcb66b322c2671eaa16eb6148d9c2 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,040   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.3-cp311-cp311-linux_armv6l.whl#sha256=55870bdc10c81e6235372c309992b7ca3aa49d62b9c3c308be529f2173273886 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,040   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.3-cp311-cp311-linux_armv7l.whl#sha256=55870bdc10c81e6235372c309992b7ca3aa49d62b9c3c308be529f2173273886 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,040   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.3-cp39-cp39-linux_armv6l.whl#sha256=a857a78d2d4f375568d2e0b4f90a458f066fd65e68ae70e7d0690448b8df2e75 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,040   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.3-cp39-cp39-linux_armv7l.whl#sha256=a857a78d2d4f375568d2e0b4f90a458f066fd65e68ae70e7d0690448b8df2e75 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,040   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.2-cp311-cp311-linux_armv6l.whl#sha256=45db75c4615213fc24eb488e675b401c53f2a40f6d7e44e8c790cbaba58fcd68 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,041   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.2-cp311-cp311-linux_armv7l.whl#sha256=45db75c4615213fc24eb488e675b401c53f2a40f6d7e44e8c790cbaba58fcd68 (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,041   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.2-cp39-cp39-linux_armv6l.whl#sha256=8d957e296375a86e1175ef8ff77210da71a8c05ccc1e114c203d084d5ce8c83c (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,041   Skipping link: No binaries permitted for rsalor: https://www.piwheels.org/simple/rsalor/rsalor-1.0.2-cp39-cp39-linux_armv7l.whl#sha256=8d957e296375a86e1175ef8ff77210da71a8c05ccc1e114c203d084d5ce8c83c (from https://www.piwheels.org/simple/rsalor/) (requires-python:>=3.9)
2025-01-13T18:54:11,041 Skipping link: not a file: https://www.piwheels.org/simple/rsalor/
2025-01-13T18:54:11,042 Skipping link: not a file: https://pypi.org/simple/rsalor/
2025-01-13T18:54:11,057 Given no hashes to check 1 links for project 'rsalor': discarding no candidates
2025-01-13T18:54:11,059 Collecting rsalor==1.0.8
2025-01-13T18:54:11,061   Created temporary directory: /tmp/pip-unpack-52cw4dyt
2025-01-13T18:54:11,078   Downloading rsalor-1.0.8.tar.gz (48 kB)
2025-01-13T18:54:11,169   Added rsalor==1.0.8 from https://files.pythonhosted.org/packages/c3/33/8b81849d184c44b496db64263ea1062dab902c08712a9d75b9820ab52d8d/rsalor-1.0.8.tar.gz to build tracker '/tmp/pip-build-tracker-pmzz5tcv'
2025-01-13T18:54:11,170   Running setup.py (path:/tmp/pip-wheel-7ob7jrsa/rsalor_0ef403a7ff7c480d9981531f10466c87/setup.py) egg_info for package rsalor
2025-01-13T18:54:11,171   Created temporary directory: /tmp/pip-pip-egg-info-4_wp4w8h
2025-01-13T18:54:11,171   Preparing metadata (setup.py): started
2025-01-13T18:54:11,172   Running command python setup.py egg_info
2025-01-13T18:54:12,275   running egg_info
2025-01-13T18:54:12,302   creating /tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info
2025-01-13T18:54:12,303   writing /tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/PKG-INFO
2025-01-13T18:54:12,307   writing dependency_links to /tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/dependency_links.txt
2025-01-13T18:54:12,310   writing requirements to /tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/requires.txt
2025-01-13T18:54:12,311   writing top-level names to /tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/top_level.txt
2025-01-13T18:54:12,313   writing manifest file '/tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/SOURCES.txt'
2025-01-13T18:54:12,434   reading manifest file '/tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/SOURCES.txt'
2025-01-13T18:54:12,435   reading manifest template 'MANIFEST.in'
2025-01-13T18:54:12,443   warning: no previously-included files found matching 'fig/*'
2025-01-13T18:54:12,443   warning: no previously-included files found matching 'src/*'
2025-01-13T18:54:12,444   warning: no previously-included files found matching 'tmp/*'
2025-01-13T18:54:12,444   warning: no previously-included files found matching '0_*'
2025-01-13T18:54:12,445   warning: no previously-included files found matching 'conda-env.yml'
2025-01-13T18:54:12,445   warning: no previously-included files found matching 'test_data/*'
2025-01-13T18:54:12,446   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2025-01-13T18:54:12,447   warning: no previously-included files matching '__pycache__/*' found anywhere in distribution
2025-01-13T18:54:12,448   warning: no previously-included files matching '*.so' found anywhere in distribution
2025-01-13T18:54:12,448   warning: no previously-included files matching '*.a' found anywhere in distribution
2025-01-13T18:54:12,449   warning: no previously-included files matching '*.o' found anywhere in distribution
2025-01-13T18:54:12,450   warning: no previously-included files matching 'rsalor/weights/build/*' found anywhere in distribution
2025-01-13T18:54:12,451   warning: no previously-included files matching '*.egg-info/*' found anywhere in distribution
2025-01-13T18:54:12,451   adding license file 'LICENCE'
2025-01-13T18:54:12,455   writing manifest file '/tmp/pip-pip-egg-info-4_wp4w8h/rsalor.egg-info/SOURCES.txt'
2025-01-13T18:54:12,544   Preparing metadata (setup.py): finished with status 'done'
2025-01-13T18:54:12,549   Source in /tmp/pip-wheel-7ob7jrsa/rsalor_0ef403a7ff7c480d9981531f10466c87 has version 1.0.8, which satisfies requirement rsalor==1.0.8 from https://files.pythonhosted.org/packages/c3/33/8b81849d184c44b496db64263ea1062dab902c08712a9d75b9820ab52d8d/rsalor-1.0.8.tar.gz
2025-01-13T18:54:12,550   Removed rsalor==1.0.8 from https://files.pythonhosted.org/packages/c3/33/8b81849d184c44b496db64263ea1062dab902c08712a9d75b9820ab52d8d/rsalor-1.0.8.tar.gz from build tracker '/tmp/pip-build-tracker-pmzz5tcv'
2025-01-13T18:54:12,557 Created temporary directory: /tmp/pip-unpack-243kjwtm
2025-01-13T18:54:12,558 Created temporary directory: /tmp/pip-unpack-q6bzpdvu
2025-01-13T18:54:12,558 Building wheels for collected packages: rsalor
2025-01-13T18:54:12,562   Created temporary directory: /tmp/pip-wheel-c3ur1b8_
2025-01-13T18:54:12,562   Building wheel for rsalor (setup.py): started
2025-01-13T18:54:12,563   Destination directory: /tmp/pip-wheel-c3ur1b8_
2025-01-13T18:54:12,563   Running command python setup.py bdist_wheel
2025-01-13T18:54:13,592   running bdist_wheel
2025-01-13T18:54:13,727   running build
2025-01-13T18:54:13,727   running build_py
2025-01-13T18:54:13,757   creating build/lib.linux-armv7l-cpython-39/rsalor
2025-01-13T18:54:13,759   copying rsalor/msa.py -> build/lib.linux-armv7l-cpython-39/rsalor
2025-01-13T18:54:13,765   copying rsalor/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor
2025-01-13T18:54:13,767   creating build/lib.linux-armv7l-cpython-39/rsalor/weights
2025-01-13T18:54:13,768   copying rsalor/weights/compute_weights.py -> build/lib.linux-armv7l-cpython-39/rsalor/weights
2025-01-13T18:54:13,771   copying rsalor/weights/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor/weights
2025-01-13T18:54:13,773   creating build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,774   copying rsalor/rsa/rsa_music.py -> build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,776   copying rsalor/rsa/rsa_biopython.py -> build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,778   copying rsalor/rsa/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,780   copying rsalor/rsa/rsa_solver.py -> build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,782   copying rsalor/rsa/rsa_dssp.py -> build/lib.linux-armv7l-cpython-39/rsalor/rsa
2025-01-13T18:54:13,785   creating build/lib.linux-armv7l-cpython-39/rsalor/structure
2025-01-13T18:54:13,786   copying rsalor/structure/structure.py -> build/lib.linux-armv7l-cpython-39/rsalor/structure
2025-01-13T18:54:13,788   copying rsalor/structure/residue.py -> build/lib.linux-armv7l-cpython-39/rsalor/structure
2025-01-13T18:54:13,790   copying rsalor/structure/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor/structure
2025-01-13T18:54:13,793   creating build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,794   copying rsalor/sequence/sequence.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,796   copying rsalor/sequence/fasta_reader.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,799   copying rsalor/sequence/mutation.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,801   copying rsalor/sequence/pairwise_alignment.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,803   copying rsalor/sequence/amino_acid.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,806   copying rsalor/sequence/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor/sequence
2025-01-13T18:54:13,808   creating build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,809   copying rsalor/utils/__init__.py -> build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,811   copying rsalor/utils/ali_to_fasta.py -> build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,813   copying rsalor/utils/utils.py -> build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,815   copying rsalor/utils/logger.py -> build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,817   copying rsalor/utils/CSV.py -> build/lib.linux-armv7l-cpython-39/rsalor/utils
2025-01-13T18:54:13,825   running build_ext
2025-01-13T18:54:14,328   building 'rsalor.weights.lib_computeWeightsBackend' extension
2025-01-13T18:54:14,328   creating build/temp.linux-armv7l-cpython-39/rsalor/weights
2025-01-13T18:54:14,330   arm-linux-gnueabihf-g++ -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 -fPIC -Irsalor/weights/include -I/usr/include/python3.9 -c rsalor/weights/computeWeightsBackend.cpp -o build/temp.linux-armv7l-cpython-39/rsalor/weights/computeWeightsBackend.o -std=c++11 -O3
2025-01-13T18:54:15,807   rsalor/weights/computeWeightsBackend.cpp: In function ‘float* computeWeightsBackend(const char*, unsigned int, unsigned int, float, bool, unsigned int, bool)’:
2025-01-13T18:54:15,808   rsalor/weights/computeWeightsBackend.cpp:38:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare]
2025-01-13T18:54:15,808      38 |     for(int i = 0; i < msa_depth; i++) { // Copy content from local
2025-01-13T18:54:15,808         |                    ~~^~~~~~~~~~~
2025-01-13T18:54:16,230   arm-linux-gnueabihf-g++ -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 -fPIC -Irsalor/weights/include -I/usr/include/python3.9 -c rsalor/weights/msa.cpp -o build/temp.linux-armv7l-cpython-39/rsalor/weights/msa.o -std=c++11 -O3
2025-01-13T18:54:20,650   arm-linux-gnueabihf-g++ -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 -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-cpython-39/rsalor/weights/computeWeightsBackend.o build/temp.linux-armv7l-cpython-39/rsalor/weights/msa.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/rsalor/weights/lib_computeWeightsBackend.cpython-39-arm-linux-gnueabihf.so -O3
2025-01-13T18:54:20,950   /usr/local/lib/python3.9/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2025-01-13T18:54:20,951   !!

2025-01-13T18:54:20,951           ********************************************************************************
2025-01-13T18:54:20,951           Please avoid running ``setup.py`` directly.
2025-01-13T18:54:20,951           Instead, use pypa/build, pypa/installer or other
2025-01-13T18:54:20,951           standards-based tools.

2025-01-13T18:54:20,952           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2025-01-13T18:54:20,952           ********************************************************************************

2025-01-13T18:54:20,952   !!
2025-01-13T18:54:20,952     self.initialize_options()
2025-01-13T18:54:20,976   installing to build/bdist.linux-armv7l/wheel
2025-01-13T18:54:20,976   running install
2025-01-13T18:54:21,003   running install_lib
2025-01-13T18:54:21,030   creating build/bdist.linux-armv7l/wheel
2025-01-13T18:54:21,032   creating build/bdist.linux-armv7l/wheel/rsalor
2025-01-13T18:54:21,033   copying build/lib.linux-armv7l-cpython-39/rsalor/msa.py -> build/bdist.linux-armv7l/wheel/./rsalor
2025-01-13T18:54:21,036   copying build/lib.linux-armv7l-cpython-39/rsalor/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor
2025-01-13T18:54:21,038   creating build/bdist.linux-armv7l/wheel/rsalor/weights
2025-01-13T18:54:21,039   copying build/lib.linux-armv7l-cpython-39/rsalor/weights/compute_weights.py -> build/bdist.linux-armv7l/wheel/./rsalor/weights
2025-01-13T18:54:21,042   copying build/lib.linux-armv7l-cpython-39/rsalor/weights/lib_computeWeightsBackend.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./rsalor/weights
2025-01-13T18:54:21,051   copying build/lib.linux-armv7l-cpython-39/rsalor/weights/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor/weights
2025-01-13T18:54:21,053   creating build/bdist.linux-armv7l/wheel/rsalor/rsa
2025-01-13T18:54:21,055   copying build/lib.linux-armv7l-cpython-39/rsalor/rsa/rsa_music.py -> build/bdist.linux-armv7l/wheel/./rsalor/rsa
2025-01-13T18:54:21,057   copying build/lib.linux-armv7l-cpython-39/rsalor/rsa/rsa_biopython.py -> build/bdist.linux-armv7l/wheel/./rsalor/rsa
2025-01-13T18:54:21,059   copying build/lib.linux-armv7l-cpython-39/rsalor/rsa/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor/rsa
2025-01-13T18:54:21,060   copying build/lib.linux-armv7l-cpython-39/rsalor/rsa/rsa_solver.py -> build/bdist.linux-armv7l/wheel/./rsalor/rsa
2025-01-13T18:54:21,062   copying build/lib.linux-armv7l-cpython-39/rsalor/rsa/rsa_dssp.py -> build/bdist.linux-armv7l/wheel/./rsalor/rsa
2025-01-13T18:54:21,065   creating build/bdist.linux-armv7l/wheel/rsalor/structure
2025-01-13T18:54:21,066   copying build/lib.linux-armv7l-cpython-39/rsalor/structure/structure.py -> build/bdist.linux-armv7l/wheel/./rsalor/structure
2025-01-13T18:54:21,069   copying build/lib.linux-armv7l-cpython-39/rsalor/structure/residue.py -> build/bdist.linux-armv7l/wheel/./rsalor/structure
2025-01-13T18:54:21,070   copying build/lib.linux-armv7l-cpython-39/rsalor/structure/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor/structure
2025-01-13T18:54:21,073   creating build/bdist.linux-armv7l/wheel/rsalor/sequence
2025-01-13T18:54:21,074   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/sequence.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,076   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/fasta_reader.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,078   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/mutation.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,080   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/pairwise_alignment.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,083   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/amino_acid.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,085   copying build/lib.linux-armv7l-cpython-39/rsalor/sequence/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor/sequence
2025-01-13T18:54:21,087   creating build/bdist.linux-armv7l/wheel/rsalor/utils
2025-01-13T18:54:21,088   copying build/lib.linux-armv7l-cpython-39/rsalor/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./rsalor/utils
2025-01-13T18:54:21,090   copying build/lib.linux-armv7l-cpython-39/rsalor/utils/ali_to_fasta.py -> build/bdist.linux-armv7l/wheel/./rsalor/utils
2025-01-13T18:54:21,092   copying build/lib.linux-armv7l-cpython-39/rsalor/utils/utils.py -> build/bdist.linux-armv7l/wheel/./rsalor/utils
2025-01-13T18:54:21,094   copying build/lib.linux-armv7l-cpython-39/rsalor/utils/logger.py -> build/bdist.linux-armv7l/wheel/./rsalor/utils
2025-01-13T18:54:21,095   copying build/lib.linux-armv7l-cpython-39/rsalor/utils/CSV.py -> build/bdist.linux-armv7l/wheel/./rsalor/utils
2025-01-13T18:54:21,098   running install_egg_info
2025-01-13T18:54:21,129   running egg_info
2025-01-13T18:54:21,157   writing rsalor.egg-info/PKG-INFO
2025-01-13T18:54:21,161   writing dependency_links to rsalor.egg-info/dependency_links.txt
2025-01-13T18:54:21,162   writing requirements to rsalor.egg-info/requires.txt
2025-01-13T18:54:21,163   writing top-level names to rsalor.egg-info/top_level.txt
2025-01-13T18:54:21,200   reading manifest file 'rsalor.egg-info/SOURCES.txt'
2025-01-13T18:54:21,204   reading manifest template 'MANIFEST.in'
2025-01-13T18:54:21,211   warning: no previously-included files found matching 'fig/*'
2025-01-13T18:54:21,212   warning: no previously-included files found matching 'src/*'
2025-01-13T18:54:21,213   warning: no previously-included files found matching 'tmp/*'
2025-01-13T18:54:21,213   warning: no previously-included files found matching '0_*'
2025-01-13T18:54:21,214   warning: no previously-included files found matching 'conda-env.yml'
2025-01-13T18:54:21,215   warning: no previously-included files found matching 'test_data/*'
2025-01-13T18:54:21,216   warning: no previously-included files matching '*.py[cod]' found anywhere in distribution
2025-01-13T18:54:21,217   warning: no previously-included files matching '__pycache__/*' found anywhere in distribution
2025-01-13T18:54:21,219   warning: no previously-included files matching '*.so' found anywhere in distribution
2025-01-13T18:54:21,220   warning: no previously-included files matching '*.a' found anywhere in distribution
2025-01-13T18:54:21,221   warning: no previously-included files matching '*.o' found anywhere in distribution
2025-01-13T18:54:21,222   warning: no previously-included files matching 'rsalor/weights/build/*' found anywhere in distribution
2025-01-13T18:54:21,224   adding license file 'LICENCE'
2025-01-13T18:54:21,230   writing manifest file 'rsalor.egg-info/SOURCES.txt'
2025-01-13T18:54:21,232   Copying rsalor.egg-info to build/bdist.linux-armv7l/wheel/./rsalor-1.0.8-py3.9.egg-info
2025-01-13T18:54:21,244   running install_scripts
2025-01-13T18:54:21,315   creating build/bdist.linux-armv7l/wheel/rsalor-1.0.8.dist-info/WHEEL
2025-01-13T18:54:21,318   creating '/tmp/pip-wheel-c3ur1b8_/rsalor-1.0.8-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2025-01-13T18:54:21,320   adding 'rsalor/__init__.py'
2025-01-13T18:54:21,325   adding 'rsalor/msa.py'
2025-01-13T18:54:21,327   adding 'rsalor/rsa/__init__.py'
2025-01-13T18:54:21,329   adding 'rsalor/rsa/rsa_biopython.py'
2025-01-13T18:54:21,330   adding 'rsalor/rsa/rsa_dssp.py'
2025-01-13T18:54:21,332   adding 'rsalor/rsa/rsa_music.py'
2025-01-13T18:54:21,333   adding 'rsalor/rsa/rsa_solver.py'
2025-01-13T18:54:21,335   adding 'rsalor/sequence/__init__.py'
2025-01-13T18:54:21,338   adding 'rsalor/sequence/amino_acid.py'
2025-01-13T18:54:21,339   adding 'rsalor/sequence/fasta_reader.py'
2025-01-13T18:54:21,341   adding 'rsalor/sequence/mutation.py'
2025-01-13T18:54:21,343   adding 'rsalor/sequence/pairwise_alignment.py'
2025-01-13T18:54:21,344   adding 'rsalor/sequence/sequence.py'
2025-01-13T18:54:21,346   adding 'rsalor/structure/__init__.py'
2025-01-13T18:54:21,347   adding 'rsalor/structure/residue.py'
2025-01-13T18:54:21,349   adding 'rsalor/structure/structure.py'
2025-01-13T18:54:21,352   adding 'rsalor/utils/CSV.py'
2025-01-13T18:54:21,353   adding 'rsalor/utils/__init__.py'
2025-01-13T18:54:21,355   adding 'rsalor/utils/ali_to_fasta.py'
2025-01-13T18:54:21,356   adding 'rsalor/utils/logger.py'
2025-01-13T18:54:21,357   adding 'rsalor/utils/utils.py'
2025-01-13T18:54:21,359   adding 'rsalor/weights/__init__.py'
2025-01-13T18:54:21,360   adding 'rsalor/weights/compute_weights.py'
2025-01-13T18:54:21,460   adding 'rsalor/weights/lib_computeWeightsBackend.cpython-39-arm-linux-gnueabihf.so'
2025-01-13T18:54:21,466   adding 'rsalor-1.0.8.dist-info/LICENCE'
2025-01-13T18:54:21,467   adding 'rsalor-1.0.8.dist-info/METADATA'
2025-01-13T18:54:21,468   adding 'rsalor-1.0.8.dist-info/WHEEL'
2025-01-13T18:54:21,469   adding 'rsalor-1.0.8.dist-info/top_level.txt'
2025-01-13T18:54:21,470   adding 'rsalor-1.0.8.dist-info/RECORD'
2025-01-13T18:54:21,474   removing build/bdist.linux-armv7l/wheel
2025-01-13T18:54:21,609   Building wheel for rsalor (setup.py): finished with status 'done'
2025-01-13T18:54:21,614   Created wheel for rsalor: filename=rsalor-1.0.8-cp39-cp39-linux_armv7l.whl size=225024 sha256=f614a25e61d8226fd723c17deab0edc668efda1d7ea6b2e6fd6909833c45c369
2025-01-13T18:54:21,615   Stored in directory: /tmp/pip-ephem-wheel-cache-18j1at6k/wheels/30/1c/af/a3cd8f30c19b54f92d8a5e20cc0757133751bed5ecb564047d
2025-01-13T18:54:21,626 Successfully built rsalor
2025-01-13T18:54:21,637 Removed build tracker: '/tmp/pip-build-tracker-pmzz5tcv'