Andreas Tille pushed to branch master at Debian Med / vienna-rna
Commits: b0c7de36 by Andreas Tille at 2026-08-31T13:54:29+02:00 New upstream version - - - - - 76316924 by Andreas Tille at 2026-08-31T13:54:30+02:00 New upstream version 2.7.2+dfsg - - - - - 2983b38c by Andreas Tille at 2026-08-31T13:54:40+02:00 Update upstream source from tag 'upstream/2.7.2+dfsg' Update to upstream version '2.7.2+dfsg' with Debian dir a46c716108ad2d67e8c792233d372c134c8e4cdc - - - - - 8b5f95d6 by Andreas Tille at 2026-08-31T13:54:41+02:00 Standards-Version: 4.7.4 (routine-update) - - - - - f2d5029d by Andreas Tille at 2026-08-31T13:55:55+02:00 Changes made by cme - - - - - ff64b42b by Andreas Tille at 2026-08-31T13:58:13+02:00 Remove trailing whitespace in debian/copyright (routine-update) - - - - - 67d261cc by Andreas Tille at 2026-08-31T13:58:13+02:00 Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) - - - - - a7889c34 by Andreas Tille at 2026-08-31T12:58:19+01:00 Remove patch add_shared_library that is missing from debian/patches/series. Changes-By: lintian-brush Fixes: lintian: source: patch-file-present-but-not-mentioned-in-series [debian/patches/add_shared_library] See-also: https://lintian.debian.org/tags/patch-file-present-but-not-mentioned-in-series.html - - - - - 1582bfd3 by Andreas Tille at 2026-08-31T12:58:20+01:00 Reformat the Last-Update date as ISO YYYY-MM-DD. Changes-By: lintian-brush Fixes: lintian: source: invalid-dep3-format-patch-wrong-last-update [debian/patches/g2.patch] Fixes: lintian: source: invalid-dep3-format-patch-wrong-last-update [debian/patches/use_debian_packaged_dlib.patch] Fixes: lintian: source: invalid-dep3-format-patch-wrong-last-update [debian/patches/python3.11.patch] See-also: https://lintian.debian.org/tags/invalid-dep3-format-patch-wrong-last-update.html - - - - - 339eaab1 by Andreas Tille at 2026-08-31T12:58:20+01:00 Remove listed license files (src/RNAforester/g2-0.72/COPYING) from copyright. Changes-By: lintian-brush Fixes: lintian: source: license-file-listed-in-debian-copyright src/RNAforester/g2-0.72/COPYING [debian/copyright] See-also: https://lintian.debian.org/tags/license-file-listed-in-debian-copyright.html - - - - - 1214ff79 by Andreas Tille at 2026-08-31T12:58:21+01:00 Replace FSF postal address with a reference to https://www.gnu.org/licenses/. Changes-By: lintian-brush Fixes: lintian: source: old-fsf-address-in-copyright-file See-also: https://lintian.debian.org/tags/old-fsf-address-in-copyright-file.html - - - - - 1a3c406e by Andreas Tille at 2026-08-31T14:31:53+02:00 Adapt patches to new upstream version - - - - - 21e07832 by Andreas Tille at 2026-08-31T14:50:38+02:00 Team upload to unstable - - - - - 448 changed files: - .github/workflows/build_python_package.yaml - .github/workflows/dist_archives.yaml - .github/workflows/dist_check.yaml - .github/workflows/dist_osx.yaml - .github/workflows/release.yaml - .readthedocs.yaml - CHANGELOG.md - MANIFEST.in - README.md - configure.ac - debian/changelog - debian/control - debian/copyright - − debian/patches/add_shared_library - debian/patches/build-with-swig-4.5.0.patch - debian/patches/g2.patch - debian/patches/gcc-15.patch - debian/patches/python3.11.patch - debian/patches/use_debian_packaged_dlib.patch - debian/rules - doc/breathe/.github/FUNDING.yml - + doc/breathe/.github/dependabot.yml - 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+ src/ViennaRNA/data/transform.c - + src/ViennaRNA/data/transform.h - src/ViennaRNA/datastructures/basic.h - src/ViennaRNA/datastructures/lists.h - src/ViennaRNA/datastructures/sparse_mx.c - src/ViennaRNA/datastructures/sparse_mx.h - src/ViennaRNA/duplex.c - src/ViennaRNA/eval/basic.h - src/ViennaRNA/eval/eval_exterior.c - src/ViennaRNA/eval/eval_hairpin.c - src/ViennaRNA/eval/eval_internal.c - src/ViennaRNA/eval/eval_multibranch.c - src/ViennaRNA/eval/eval_structures.c - src/ViennaRNA/eval/exp_eval_hairpin.c - src/ViennaRNA/eval/exp_eval_internal.c - src/ViennaRNA/eval/hairpin.h - src/ViennaRNA/eval/multibranch.h - src/ViennaRNA/io/file_formats.c - src/ViennaRNA/io/file_formats.h - src/ViennaRNA/io/utils.h - src/ViennaRNA/loops/external.h - + src/ViennaRNA/math/fun_bin.c - + src/ViennaRNA/math/fun_chain.c - + src/ViennaRNA/math/fun_gaussian.c - + src/ViennaRNA/math/fun_kde.c - + src/ViennaRNA/math/fun_linear.c - + src/ViennaRNA/math/fun_log.c - + src/ViennaRNA/math/fun_logistic.c - + src/ViennaRNA/math/functions.h - src/ViennaRNA/mfe/gquad.h - src/ViennaRNA/mfe/mfe.c - src/ViennaRNA/mfe/mfe_exterior.c - src/ViennaRNA/mfe/mfe_exterior_window.c - src/ViennaRNA/mfe/mfe_internal.c - src/ViennaRNA/mfe/mfe_multibranch.c - src/ViennaRNA/mfe/mfe_window.c - src/ViennaRNA/mfe/mfe_wrappers.c - src/ViennaRNA/model.h - src/ViennaRNA/params/io.c - src/ViennaRNA/params/params.c - src/ViennaRNA/partfunc/partfunc.c - src/ViennaRNA/partfunc/pf_exterior.c - src/ViennaRNA/partfunc/pf_gquad.c - src/ViennaRNA/partfunc/pf_internal.c - src/ViennaRNA/partfunc/pf_multibranch.c - src/ViennaRNA/partfunc/pf_multifold.c - src/ViennaRNA/plex_functions.c - src/ViennaRNA/probabilities/equilibrium_probs.c - src/ViennaRNA/probing/SHAPE.c - src/ViennaRNA/probing/SHAPE.h - src/ViennaRNA/probing/basic.h - src/ViennaRNA/probing/probing.c - + src/ViennaRNA/probing/strategy_chain.c - + src/ViennaRNA/probing/strategy_deigan.c - + src/ViennaRNA/probing/strategy_deigan.h - + src/ViennaRNA/probing/strategy_eddy.c - + src/ViennaRNA/probing/strategy_eddy.h - + src/ViennaRNA/probing/strategy_nlogp.c - + src/ViennaRNA/probing/strategy_nlogp.h - + src/ViennaRNA/probing/strategy_zarringhalam.c - + src/ViennaRNA/probing/strategy_zarringhalam.h - src/ViennaRNA/sampling/boltzmann_sampling.c - src/ViennaRNA/static/.gitignore - src/ViennaRNA/static/Makefile.am - + src/ViennaRNA/static/probing_data_priors.h.in - src/ViennaRNA/structures/benchmark.h - src/ViennaRNA/structures/mea.c - src/ViennaRNA/structures/structure_benchmark.c - src/ViennaRNA/structures/structure_pairtable.c - src/ViennaRNA/structures/structure_problist.c - src/ViennaRNA/subopt/subopt.c - src/ViennaRNA/utils/string_utils.c - src/ViennaRNA/utils/strings.h - src/ViennaRNA/utils/utils.c - src/ViennaRNA/wrap_dlib.h - src/bin/Makefile.am - src/bin/RNALalifold.c - src/bin/RNALfold.c - src/bin/RNAalifold.c - src/bin/RNAalifold.ggo - src/bin/RNAcofold.c - src/bin/RNAeval.c - src/bin/RNAfold.c - src/bin/RNAfold.ggo - src/bin/RNAmultifold.c - src/bin/RNAplfold.c - src/bin/RNAsubopt.c - src/bin/RNAsubopt.ggo - src/bin/gengetopt_helpers.h - + src/bin/probing_data_helpers.c - + src/bin/probing_data_helpers.h - src/cephes/expn.c - src/cephes/kn.c - src/cephes/mtherr.c - tests/RNAfold/special - tests/constraints.ts - tests/python/test_RNA-utils.py - tests/python/test_RNA.py - tests/python2/test-RNA-boltzmann-sampling.py2 - tests/python2/test-RNA-combinatorics.py2 - tests/python2/test-RNA-constraints-SHAPE.py2 - tests/python2/test-RNA-constraints-soft.py2 - tests/python2/test-RNA-constraints-special.py2 - tests/python2/test-RNA-constraints.py2 - tests/python2/test-RNA-ensemble_defect.py2 - tests/python2/test-RNA-file-formats.py2 - tests/python2/test-RNA-mfe_eval.py2 - tests/python2/test-RNA-mfe_window.py2 - tests/python2/test-RNA-pf_window.py2 - tests/python2/test-RNA-sc-callbacks.py2 - tests/python2/test-RNA-subopt.py2 - tests/python2/test-RNA-utils.py2 - tests/python2/test-RNA.py2 The diff was not included because it is too large. View it on GitLab: https://salsa.debian.org/med-team/vienna-rna/-/compare/5bd00c2989ed9366d6cc3ecc5a90d7aa7caa58fb...21e07832fab4f28bfaf2bc6365a622fa57810cba -- View it on GitLab: https://salsa.debian.org/med-team/vienna-rna/-/compare/5bd00c2989ed9366d6cc3ecc5a90d7aa7caa58fb...21e07832fab4f28bfaf2bc6365a622fa57810cba You're receiving this email because of your account on salsa.debian.org. Manage all notifications: https://salsa.debian.org/-/profile/notifications | Help: https://salsa.debian.org/help
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