>>> py3-kallisto: Building community/py3-kallisto 1.0.10-r3 (using abuild 3.16.0-r0) started Sun, 29 Mar 2026 00:05:16 +0000 >>> py3-kallisto: Validating /home/buildozer/aports/community/py3-kallisto/APKBUILD... >>> py3-kallisto: Analyzing dependencies... >>> py3-kallisto: Installing for build: build-base python3 py3-click py3-numpy py3-scipy py3-poetry-core py3-gpep517 py3-wheel py3-pytest py3-pytest-runner ( 1/66) Installing libbz2 (1.0.8-r6) ( 2/66) Installing libffi (3.5.2-r0) ( 3/66) Installing gdbm (1.26-r0) ( 4/66) Installing xz-libs (5.8.2-r0) ( 5/66) Installing mpdecimal (4.0.1-r0) ( 6/66) Installing libpanelw (6.6_p20251231-r0) ( 7/66) Installing sqlite-libs (3.51.2-r1) ( 8/66) Installing python3 (3.14.3-r0) ( 9/66) Installing python3-pycache-pyc0 (3.14.3-r0) (10/66) Installing pyc (3.14.3-r0) (11/66) Installing python3-pyc (3.14.3-r0) (12/66) Installing py3-click (8.3.1-r1) (13/66) Installing py3-click-pyc (8.3.1-r1) (14/66) Installing libquadmath (15.2.0-r2) (15/66) Installing libgfortran (15.2.0-r2) (16/66) Installing openblas (0.3.30-r2) (17/66) Installing py3-numpy (2.4.3-r2) (18/66) Installing py3-numpy-tests (2.4.3-r2) (19/66) Installing py3-numpy-pyc (2.4.3-r2) (20/66) Installing py3-parsing (3.3.2-r1) (21/66) Installing py3-parsing-pyc (3.3.2-r1) (22/66) Installing py3-packaging (26.0-r1) (23/66) Installing py3-packaging-pyc (26.0-r1) (24/66) Installing py3-platformdirs (4.9.2-r1) (25/66) Installing py3-platformdirs-pyc (4.9.2-r1) (26/66) Installing py3-certifi (2026.2.25-r1) (27/66) Installing py3-certifi-pyc (2026.2.25-r1) (28/66) Installing py3-charset-normalizer (3.4.6-r1) (29/66) Installing py3-charset-normalizer-pyc (3.4.6-r1) (30/66) Installing py3-idna (3.11-r1) (31/66) Installing py3-idna-pyc (3.11-r1) (32/66) Installing py3-urllib3 (2.6.3-r1) (33/66) Installing py3-urllib3-pyc (2.6.3-r1) (34/66) Installing py3-requests (2.32.5-r1) (35/66) Installing py3-requests-pyc (2.32.5-r1) (36/66) Installing py3-pooch (1.9.0-r1) (37/66) Installing py3-pooch-pyc (1.9.0-r1) (38/66) Installing py3-scipy (1.17.1-r1) (39/66) Installing py3-scipy-pyc (1.17.1-r1) (40/66) Installing py3-fastjsonschema (2.21.2-r2) (41/66) Installing py3-fastjsonschema-pyc (2.21.2-r2) (42/66) Installing py3-lark-parser (1.2.2-r1) (43/66) Installing py3-lark-parser-pyc (1.2.2-r1) (44/66) Installing py3-poetry-core (2.3.1-r0) (45/66) Installing py3-poetry-core-pyc (2.3.1-r0) (46/66) Installing py3-installer (0.7.0-r3) (47/66) Installing py3-installer-pyc (0.7.0-r3) (48/66) Installing py3-gpep517 (19-r2) (49/66) Installing py3-gpep517-pyc (19-r2) (50/66) Installing py3-wheel (0.46.3-r1) (51/66) Installing py3-wheel-pyc (0.46.3-r1) (52/66) Installing py3-iniconfig (2.3.0-r1) (53/66) Installing py3-iniconfig-pyc (2.3.0-r1) (54/66) Installing py3-pluggy (1.6.0-r1) (55/66) Installing py3-pluggy-pyc (1.6.0-r1) (56/66) Installing py3-py (1.11.0-r5) (57/66) Installing py3-py-pyc (1.11.0-r5) (58/66) Installing py3-pygments (2.19.2-r1) (59/66) Installing py3-pygments-pyc (2.19.2-r1) (60/66) Installing py3-pytest (9.0.2-r1) (61/66) Installing py3-pytest-pyc (9.0.2-r1) (62/66) Installing py3-setuptools (82.0.1-r1) (63/66) Installing py3-setuptools-pyc (82.0.1-r1) (64/66) Installing py3-pytest-runner (6.0.1-r2) (65/66) Installing py3-pytest-runner-pyc (6.0.1-r2) (66/66) Installing .makedepends-py3-kallisto (20260329.000518) Executing busybox-1.37.0-r31.trigger OK: 640.6 MiB in 172 packages >>> py3-kallisto: Cleaning up srcdir >>> py3-kallisto: Cleaning up pkgdir >>> py3-kallisto: Cleaning up tmpdir >>> py3-kallisto: Fetching https://distfiles.alpinelinux.org/distfiles/edge/kallisto-1.0.10.tar.gz Connecting to distfiles.alpinelinux.org (172.105.82.32:443) wget: server returned error: HTTP/1.1 404 Not Found >>> py3-kallisto: Fetching https://github.com/AstraZeneca/kallisto/archive/v1.0.10/kallisto-1.0.10.tar.gz Connecting to github.com (140.82.121.4:443) Connecting to codeload.github.com (140.82.121.10:443) saving to '/var/cache/distfiles/edge/kallisto-1.0.10.tar.gz.part' kallisto-1.0.10.tar. 100% |********************************| 158k 0:00:00 ETA '/var/cache/distfiles/edge/kallisto-1.0.10.tar.gz.part' saved /var/cache/distfiles/edge/kallisto-1.0.10.tar.gz: OK /home/buildozer/aports/community/py3-kallisto/fix-test-cli.patch: OK /home/buildozer/aports/community/py3-kallisto/poetry.patch: OK >>> py3-kallisto: Fetching https://distfiles.alpinelinux.org/distfiles/edge/kallisto-1.0.10.tar.gz /var/cache/distfiles/edge/kallisto-1.0.10.tar.gz: OK /home/buildozer/aports/community/py3-kallisto/fix-test-cli.patch: OK /home/buildozer/aports/community/py3-kallisto/poetry.patch: OK >>> py3-kallisto: Unpacking /var/cache/distfiles/edge/kallisto-1.0.10.tar.gz... >>> py3-kallisto: fix-test-cli.patch patching file tests/test_cli.py >>> py3-kallisto: poetry.patch patching file pyproject.toml 2026-03-29 00:05:20,827 gpep517 INFO Building wheel via backend poetry.core.masonry.api 2026-03-29 00:05:20,888 poetry.core.factory WARNING The "poetry.dev-dependencies" section is deprecated and will be removed in a future version. Use "poetry.group.dev.dependencies" instead. 2026-03-29 00:05:20,905 poetry.core.masonry.builders.wheel INFO Building wheel 2026-03-29 00:05:20,927 poetry.core.masonry.builders.wheel INFO Built kallisto-1.0.10-py3-none-any.whl 2026-03-29 00:05:20,927 gpep517 INFO The backend produced .dist/kallisto-1.0.10-py3-none-any.whl kallisto-1.0.10-py3-none-any.whl ============================= test session starts ============================== platform linux -- Python 3.14.3, pytest-9.0.2, pluggy-1.6.0 rootdir: /home/buildozer/aports/community/py3-kallisto/src/kallisto-1.0.10 configfile: pyproject.toml collected 95 items tests/test_alp.py ... [ 3%] tests/test_atom.py ...... [ 9%] tests/test_bonds.py ... [ 12%] tests/test_cli.py ........................................... [ 57%] tests/test_cns.py ... [ 61%] tests/test_eeq.py ... [ 64%] tests/test_exs.py .. [ 66%] tests/test_grid.py . [ 67%] tests/test_lig.py . [ 68%] tests/test_molecule.py ............ [ 81%] tests/test_prox.py .. [ 83%] tests/test_rms.py . [ 84%] tests/test_stm.py . [ 85%] tests/test_strucreader.py ..... [ 90%] tests/test_vdw.py ........ [ 98%] tests/test_version.py . [100%] ============================== 95 passed in 0.92s ============================== /usr/lib/python3.14/site-packages/_pytest/pathlib.py:96: PytestWarning: (rm_rf) error removing /tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894/popen-gw9/test_discovery_via_path_in_non0 : [Errno 39] Directory not empty: '/tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894/popen-gw9/test_discovery_via_path_in_non0' warnings.warn( /usr/lib/python3.14/site-packages/_pytest/pathlib.py:96: PytestWarning: (rm_rf) error removing /tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894/popen-gw9 : [Errno 39] Directory not empty: '/tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894/popen-gw9' warnings.warn( /usr/lib/python3.14/site-packages/_pytest/pathlib.py:96: PytestWarning: (rm_rf) error removing /tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894 : [Errno 39] Directory not empty: '/tmp/pytest-of-buildozer/garbage-551453b7-11da-42c8-9bf7-ec10016fa894' warnings.warn( >>> py3-kallisto: Entering fakeroot... >>> py3-kallisto-pyc*: Running split function pyc... 'usr/lib/python3.14/site-packages/kallisto/utils/__pycache__' -> '/home/buildozer/aports/community/py3-kallisto/pkg/py3-kallisto-pyc/usr/lib/python3.14/site-packages/kallisto/utils/__pycache__' 'usr/lib/python3.14/site-packages/kallisto/data/__pycache__' -> '/home/buildozer/aports/community/py3-kallisto/pkg/py3-kallisto-pyc/usr/lib/python3.14/site-packages/kallisto/data/__pycache__' 'usr/lib/python3.14/site-packages/kallisto/reader/__pycache__' -> '/home/buildozer/aports/community/py3-kallisto/pkg/py3-kallisto-pyc/usr/lib/python3.14/site-packages/kallisto/reader/__pycache__' 'usr/lib/python3.14/site-packages/kallisto/__pycache__' -> '/home/buildozer/aports/community/py3-kallisto/pkg/py3-kallisto-pyc/usr/lib/python3.14/site-packages/kallisto/__pycache__' >>> py3-kallisto-pyc*: Preparing subpackage py3-kallisto-pyc... >>> py3-kallisto-pyc*: Running postcheck for py3-kallisto-pyc >>> py3-kallisto*: Running postcheck for py3-kallisto >>> py3-kallisto*: Preparing package py3-kallisto... >>> py3-kallisto-pyc*: Tracing dependencies... python3~3.14 >>> py3-kallisto-pyc*: Package size: 631.4 KB >>> py3-kallisto-pyc*: Compressing data... >>> py3-kallisto-pyc*: Create checksum... >>> py3-kallisto-pyc*: Create py3-kallisto-pyc-1.0.10-r3.apk >>> py3-kallisto*: Tracing dependencies... python3 py3-click py3-numpy py3-scipy python3~3.14 >>> py3-kallisto*: Package size: 390.1 KB >>> py3-kallisto*: Compressing data... >>> py3-kallisto*: Create checksum... >>> py3-kallisto*: Create py3-kallisto-1.0.10-r3.apk >>> py3-kallisto: Build complete at Sun, 29 Mar 2026 00:05:23 +0000 elapsed time 0h 0m 7s >>> py3-kallisto: Cleaning up srcdir >>> py3-kallisto: Cleaning up pkgdir >>> py3-kallisto: Cleaning up tmpdir >>> py3-kallisto: Uninstalling dependencies... ( 1/66) Purging .makedepends-py3-kallisto (20260329.000518) ( 2/66) Purging py3-click-pyc (8.3.1-r1) ( 3/66) Purging py3-click (8.3.1-r1) ( 4/66) Purging py3-scipy-pyc (1.17.1-r1) ( 5/66) Purging py3-scipy (1.17.1-r1) ( 6/66) Purging py3-pooch-pyc (1.9.0-r1) ( 7/66) Purging py3-pooch (1.9.0-r1) ( 8/66) Purging py3-platformdirs-pyc (4.9.2-r1) ( 9/66) Purging py3-platformdirs (4.9.2-r1) (10/66) Purging py3-requests-pyc (2.32.5-r1) (11/66) Purging py3-requests (2.32.5-r1) (12/66) Purging py3-certifi-pyc (2026.2.25-r1) (13/66) Purging py3-certifi (2026.2.25-r1) (14/66) Purging py3-charset-normalizer-pyc (3.4.6-r1) (15/66) Purging py3-charset-normalizer (3.4.6-r1) (16/66) Purging py3-idna-pyc (3.11-r1) (17/66) Purging py3-idna (3.11-r1) (18/66) Purging py3-urllib3-pyc (2.6.3-r1) (19/66) Purging py3-urllib3 (2.6.3-r1) (20/66) Purging py3-numpy-tests (2.4.3-r2) (21/66) Purging py3-numpy-pyc (2.4.3-r2) (22/66) Purging py3-numpy (2.4.3-r2) (23/66) Purging openblas (0.3.30-r2) (24/66) Purging py3-poetry-core-pyc (2.3.1-r0) (25/66) Purging py3-poetry-core (2.3.1-r0) (26/66) Purging py3-fastjsonschema-pyc (2.21.2-r2) (27/66) Purging py3-fastjsonschema (2.21.2-r2) (28/66) Purging py3-lark-parser-pyc (1.2.2-r1) (29/66) Purging py3-lark-parser (1.2.2-r1) (30/66) Purging py3-gpep517-pyc (19-r2) (31/66) Purging py3-gpep517 (19-r2) (32/66) Purging py3-installer-pyc (0.7.0-r3) (33/66) Purging py3-installer (0.7.0-r3) (34/66) Purging py3-wheel-pyc (0.46.3-r1) (35/66) Purging py3-wheel (0.46.3-r1) (36/66) Purging py3-pytest-runner-pyc (6.0.1-r2) (37/66) Purging py3-pytest-runner (6.0.1-r2) (38/66) Purging py3-pytest-pyc (9.0.2-r1) (39/66) Purging py3-pytest (9.0.2-r1) (40/66) Purging py3-iniconfig-pyc (2.3.0-r1) (41/66) Purging py3-iniconfig (2.3.0-r1) (42/66) Purging py3-pluggy-pyc (1.6.0-r1) (43/66) Purging py3-pluggy (1.6.0-r1) (44/66) Purging py3-py-pyc (1.11.0-r5) (45/66) Purging py3-py (1.11.0-r5) (46/66) Purging py3-pygments-pyc (2.19.2-r1) (47/66) Purging py3-pygments (2.19.2-r1) (48/66) Purging py3-setuptools-pyc (82.0.1-r1) (49/66) Purging py3-setuptools (82.0.1-r1) (50/66) Purging py3-packaging-pyc (26.0-r1) (51/66) Purging py3-packaging (26.0-r1) (52/66) Purging py3-parsing-pyc (3.3.2-r1) (53/66) Purging py3-parsing (3.3.2-r1) (54/66) Purging python3-pyc (3.14.3-r0) (55/66) Purging python3-pycache-pyc0 (3.14.3-r0) (56/66) Purging pyc (3.14.3-r0) (57/66) Purging python3 (3.14.3-r0) (58/66) Purging gdbm (1.26-r0) (59/66) Purging libbz2 (1.0.8-r6) (60/66) Purging libffi (3.5.2-r0) (61/66) Purging libgfortran (15.2.0-r2) (62/66) Purging libpanelw (6.6_p20251231-r0) (63/66) Purging libquadmath (15.2.0-r2) (64/66) Purging mpdecimal (4.0.1-r0) (65/66) Purging sqlite-libs (3.51.2-r1) (66/66) Purging xz-libs (5.8.2-r0) Executing busybox-1.37.0-r31.trigger OK: 441.4 MiB in 106 packages >>> py3-kallisto: Updating the community/x86_64 repository index... >>> py3-kallisto: Signing the index...