Skip to content

feat: added ntSynt and ntSynt-viz for synteny analysis + bug fix #11

feat: added ntSynt and ntSynt-viz for synteny analysis + bug fix

feat: added ntSynt and ntSynt-viz for synteny analysis + bug fix #11

Triggered via pull request April 22, 2026 16:39
@rabioinfrabioinf
synchronize #16
dev
Status Success
Total duration 8m 26s
Artifacts

snakemake-tests.yml

on: pull_request
snakemake-tests  /  Formatting
1m 23s
snakemake-tests / Formatting
snakemake-tests  /  Linting
44s
snakemake-tests / Linting
snakemake-tests  /  Testing
6m 56s
snakemake-tests / Testing
Fit to window
Zoom out
Zoom in

Annotations

15 warnings
snakemake-tests / Linting
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, conda-incubator/setup-miniconda@v3. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
snakemake-tests / Linting
The 'defaults' channel might have been added implicitly. If this is intentional, add 'defaults' to the 'channels' list. Otherwise, consider setting 'conda-remove-defaults' to 'true'.
snakemake-tests / Formatting
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
snakemake-tests / Testing
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@v4, conda-incubator/setup-miniconda@v3. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
snakemake-tests / Testing
warning libmamba [bzip2-1.0.8-hda65f42_9] The following files were already present in the environment: - bin/bunzip2 - bin/bzcat - bin/bzcmp - bin/bzdiff - bin/bzegrep - bin/bzfgrep - bin/bzgrep - bin/bzip2 - bin/bzip2recover - bin/bzless - bin/bzmore - include/bzlib.h - lib/libbz2.a - lib/libbz2.so - lib/libbz2.so.1.0 - lib/libbz2.so.1.0.8 - share/man/man1/bzcmp.1 - share/man/man1/bzdiff.1 - share/man/man1/bzegrep.1 - share/man/man1/bzfgrep.1 - share/man/man1/bzgrep.1 - share/man/man1/bzip2.1 - share/man/man1/bzless.1 - share/man/man1/bzmore.1
snakemake-tests / Testing
warning libmamba [libgcc-15.2.0-he0feb66_18] The following files were already present in the environment: - lib/libatomic.so - lib/libatomic.so.1 - lib/libatomic.so.1.2.0 - lib/libgcc_s.so - lib/libgcc_s.so.1 - lib/libitm.so - lib/libitm.so.1 - lib/libitm.so.1.0.0 - lib/libquadmath.so - lib/libquadmath.so.0 - lib/libquadmath.so.0.0.0 - share/info/libgomp.info - share/info/libquadmath.info - share/licenses/gcc-libs/RUNTIME.LIBRARY.EXCEPTION
snakemake-tests / Testing
warning libmamba [ld_impl_linux-64-2.45.1-default_hbd61a6d_101] The following files were already present in the environment: - bin/x86_64-conda-linux-gnu-ld - x86_64-conda-linux-gnu/bin/ld
snakemake-tests / Testing
warning libmamba [zstd-1.5.7-hb78ec9c_6] The following files were already present in the environment: - bin/unzstd - bin/zstd - bin/zstdcat - bin/zstdgrep - bin/zstdless - bin/zstdmt - etc/conda/test-files/zstd/1/cf_test/CMakeLists.txt - include/zdict.h - include/zstd.h - include/zstd_errors.h - lib/cmake/zstd/zstdConfig.cmake - lib/cmake/zstd/zstdConfigVersion.cmake - lib/cmake/zstd/zstdTargets-release.cmake - lib/cmake/zstd/zstdTargets.cmake - lib/libzstd.so - lib/libzstd.so.1 - lib/libzstd.so.1.5.7 - lib/pkgconfig/libzstd.pc
snakemake-tests / Testing
warning libmamba [_openmp_mutex-4.5-20_gnu] The following files were already present in the environment: - lib/libgomp.so.1
snakemake-tests / Testing
warning libmamba [tzdata-2025c-hc9c84f9_1] The following files were already present in the environment: - share/zoneinfo/Africa/Abidjan - share/zoneinfo/Africa/Accra - share/zoneinfo/Africa/Addis_Ababa - share/zoneinfo/Africa/Algiers - share/zoneinfo/Africa/Asmara - share/zoneinfo/Africa/Asmera - share/zoneinfo/Africa/Bamako - share/zoneinfo/Africa/Bangui - share/zoneinfo/Africa/Banjul - share/zoneinfo/Africa/Bissau - share/zoneinfo/Africa/Blantyre - share/zoneinfo/Africa/Brazzaville - share/zoneinfo/Africa/Bujumbura - share/zoneinfo/Africa/Cairo - share/zoneinfo/Africa/Casablanca - share/zoneinfo/Africa/Ceuta - share/zoneinfo/Africa/Conakry - share/zoneinfo/Africa/Dakar - share/zoneinfo/Africa/Dar_es_Salaam - share/zoneinfo/Africa/Djibouti - share/zoneinfo/Africa/Douala - share/zoneinfo/Africa/El_Aaiun - share/zoneinfo/Africa/Freetown - share/zoneinfo/Africa/Gaborone - share/zoneinfo/Africa/Harare - share/zoneinfo/Africa/Johannesburg - share/zoneinfo/Africa/Juba - share/zoneinfo/Africa/Kampala - share/zoneinfo/Africa/Khartoum - share/zoneinfo/Africa/Kigali - share/zoneinfo/Africa/Kinshasa - share/zoneinfo/Africa/Lagos - share/zoneinfo/Africa/Libreville - share/zoneinfo/Africa/Lome - share/zoneinfo/Africa/Luanda - share/zoneinfo/Africa/Lubumbashi - share/zoneinfo/Africa/Lusaka - share/zoneinfo/Africa/Malabo - share/zoneinfo/Africa/Maputo - share/zoneinfo/Africa/Maseru - share/zoneinfo/Africa/Mbabane - share/zoneinfo/Africa/Mogadishu - share/zoneinfo/Africa/Monrovia - share/zoneinfo/Africa/Nairobi - share/zoneinfo/Africa/Ndjamena - share/zoneinfo/Africa/Niamey - share/zoneinfo/Africa/Nouakchott - share/zoneinfo/Africa/Ouagadougou - share/zoneinfo/Africa/Porto-Novo - share/zoneinfo/Africa/Sao_Tome - share/zoneinfo/Africa/Timbuktu - share/zoneinfo/Africa/Tripoli - share/zoneinfo/Africa/Tunis - share/zoneinfo/Africa/Windhoek - share/zoneinfo/America/Adak - share/zoneinfo/America/Anchorage - share/zoneinfo/America/Anguilla - share/zoneinfo/America/Antigua - share/zoneinfo/America/Araguaina - share/zoneinfo/America/Argentina/Buenos_Aires - share/zoneinfo/America/Argentina/Catamarca - share/zoneinfo/America/Argentina/ComodRivadavia - share/zoneinfo/America/Argentina/Cordoba - share/zoneinfo/America/Argentina/Jujuy - share/zoneinfo/America/Argentina/La_Rioja - share/zoneinfo/America/Argentina/Mendoza - share/zoneinfo/America/Argentina/Rio_Gallegos - share/zoneinfo/America/Argentina/Salta - share/zoneinfo/America/Argentina/San_Juan - share/zoneinfo/America/Argentina/San_Luis - share/zoneinfo/America/Argentina/Tucuman - share/zoneinfo/America/Argentina/Ushuaia - share/zoneinfo/America/Aruba - share/zoneinfo/America/Asuncion - share/zoneinfo/America/Atikokan - share/zoneinfo/America/Atka - share/zoneinfo/America/Bahia - share/zoneinfo/America/Bahia_Banderas - share/zoneinfo/America/Barbados - share/zoneinfo/America/Belem - share/zoneinfo/America/Belize - share/zoneinfo/America/Blanc-Sablon - share/zoneinfo/America/Boa_Vista - share/zoneinfo/America/Bogota - share/zoneinfo/America/Boise - share/zoneinfo/America/Buenos_Aires - share/zoneinfo/America/Cambridge_Bay - share/zoneinfo/America/Campo_Grande - share/zoneinfo/America/Cancun - share/zoneinfo/America/Caracas - share/zoneinfo/America/Catamarca - share/zoneinfo/America/Cayenne - share/zoneinfo/America/Cayman - share/zoneinfo/America/Chicago - share/zoneinfo/America/Chihuahua - share/zoneinfo/America/Ciudad_Juarez - share/zoneinfo/America/Coral_Harbour - share/zoneinfo/America/Cordoba - share/zoneinfo/America/Costa_Rica - share/zoneinfo/America/Coyhaique - share/zoneinfo/America/Creston - share/zoneinfo/America/Cuiaba - share/zoneinfo/America/Curacao - share/zoneinfo/Amer
snakemake-tests / Testing
warning libmamba [pybind11-abi-11-hc364b38_1] The following files were already present in the environment: - etc/conda/test-files/pybind11-abi/0/check_abi.py - etc/conda/test-files/pybind11-abi/0/include/pybind11/detail/internals.h
snakemake-tests / Testing
warning libmamba [libzlib-1.3.2-h25fd6f3_2] The following files were already present in the environment: - lib/libz.so.1 - lib/libz.so.1.3.2
snakemake-tests / Testing
warning libmamba [libgomp-15.2.0-he0feb66_18] The following files were already present in the environment: - lib/libgomp.so - lib/libgomp.so.1.0.0 - share/licenses/gcc-libs/RUNTIME.LIBRARY.EXCEPTION.gomp_copy
snakemake-tests / Testing
warning libmamba [ca-certificates-2026.2.25-hbd8a1cb_0] The following files were already present in the environment: - ssl/cacert.pem - ssl/cert.pem
snakemake-tests / Testing
The 'defaults' channel might have been added implicitly. If this is intentional, add 'defaults' to the 'channels' list. Otherwise, consider setting 'conda-remove-defaults' to 'true'.