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2022-05-31gnu: Remove nmoldyn....* gnu/packages/chemistry.scm (nmoldyn): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove domainfinder....* gnu/packages/chemistry.scm (domainfinder): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-nose-randomly....* gnu/packages/check.scm (python2-nose-randomly): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pytest-subtesthack....* gnu/packages/check.scm (python2-pytest-subtesthack): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pytest-flakes....* gnu/packages/check.scm (python2-pytest-flakes): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-cov-core....* gnu/packages/check.scm (python2-cov-core): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-discover....* gnu/packages/check.scm (python2-discover): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-flexmock....* gnu/packages/check.scm (python2-flexmock): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-minimock....* gnu/packages/check.scm (python2-minimock): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-rednose....* gnu/packages/check.scm (python2-rednose): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-python-paramunittest....* gnu/packages/check.scm (python2-python-paramunittest): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pytest-capturelog....* gnu/packages/check.scm (python2-pytest-capturelog): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-nose2....* gnu/packages/check.scm (python2-nose2): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-testlib....* gnu/packages/check.scm (python2-testlib): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pytest-catchlog....* gnu/packages/check.scm (python2-pytest-catchlog): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-nose-timer....* gnu/packages/check.scm (python2-nose-timer): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove transmission-remote-cli....* gnu/packages/bittorrent.scm (transmission-remote-cli): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove pyicoteo....* gnu/packages/bioinformatics.scm (pyicoteo): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pbcore....* gnu/packages/bioinformatics.scm (python2-pbcore): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pyfaidx....* gnu/packages/bioinformatics.scm (python2-pyfaidx): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-screed....* gnu/packages/bioinformatics.scm (python2-screed): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove miso....* gnu/packages/bioinformatics.scm (miso): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-warpedlmm....* gnu/packages/bioinformatics.scm (python2-warpedlmm): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove poretools....* gnu/packages/bioinformatics.scm (poretools): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-dendropy....* gnu/packages/bioinformatics.scm (python2-dendropy): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove bamm....* gnu/packages/bioinformatics.scm (bamm): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pybedtools....* gnu/packages/bioinformatics.scm (python2-pybedtools): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-htseq....* gnu/packages/bioinformatics.scm (python2-htseq): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove pepr....* gnu/packages/bioinformatics.scm (pepr): Delete variable. Maxim Cournoyer
2022-05-31gnu: tetoolkit: Update to 2.2.1b....* gnu/packages/bioinformatics.scm (tetoolkit): Update to 2.2.1b. [python]: Delete argument. [phases]: Delete trailing #t. {make-writable}: Delete phase. {adjust-requirements}: New phase. {patch-invocations}: Use search-input-file. {wrap-program}: Use search-input-file. [inputs]: Remove python2-argparse. Replace python2-pysam with python-pysam. [home-page]: Update URL. Maxim Cournoyer
2022-05-31gnu: Remove python2-pybigwig....* gnu/packages/bioinformatics.scm (python2-pybigwig): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove ribodiff....* gnu/packages/bioinformatics.scm (ribodiff): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove grit....* gnu/packages/bioinformatics.scm (grit): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-fastalite....* gnu/packages/bioinformatics.scm (python2-fastalite): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pyaudio....* gnu/packages/audio.scm (python2-pyaudio): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove raul-devel....* gnu/packages/audio.scm (raul-devel): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove raul....* gnu/packages/audio.scm (raul): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove ingen....* gnu/packages/music.scm (ingen): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-pyalsaaudio....* gnu/packages/audio.scm (python2-pyalsaaudio): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove graphios....* gnu/packages/admin.scm (graphios): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python2-langkit....* gnu/packages/ada.scm (python2-langkit): Delete variable. Maxim Cournoyer
2022-05-31gnu: Remove python-pytest-runner-2....* gnu/packages/check.scm (python-pytest-runner-2): Delete variable. (python2-pytest-runner): Likewise. Maxim Cournoyer
2022-05-31diagnostics: Fix typo about 0-indexed COL in location....* guix/diagnostics.scm (source-properties->location): The location column is 0-indexed, not 1-indexed (the same as in source-properties, so the code is accurate). Maxim Cournoyer
2022-05-31utils: Add a %guix-source-root-directory procedure....* guix/utils.scm (%guix-source-root-directory): New procedure. Maxim Cournoyer
2022-05-31utils: Add a 'delete-expression' procedure....* guix/utils.scm: Fix copyright lines and order imports. (edit-expression): Fix typo in doc. Add a new 'include-trailing-newline?' keyword argument. Update doc. (delete-expression): New procedure. Maxim Cournoyer
2022-05-31etc/committer: Teach it how to commit package removal....* etc/committer.scm.in (hunk-types): New variable. (<hunk>): Rename hunk-definition? getter to 'hunk-type'. (diff-info): Mute a git warning by separating file names from arguments with '--'. Rename the 'definitions?' variable to 'type'. Use the 'addition type when a new package addition is detected, 'removal when removed else #f. (add-commit-message): Re-indent. (remove-commit-message): New procedure. (main)[definitions]: Make commit message conditional depending on whether it is an addition or removal. [changes]: Adjust indentation. Maxim Cournoyer
2022-05-31etc/committer: Prefix (sxml xpath) symbols to avoid name conflict....This avoids a naming conflict for 'filter', provided by both (srfi srfi-1) and (sxml xpath). * etc/committer.scm.in: Use 'use-modules' instead of 'import', and use a prefix for the (sxml xpath) module. (new-sexp): Adjust accordingly. (change-commit-message): Likewise. Maxim Cournoyer
2022-05-31packages: Fix typo in package-superseded doc....* guix/packages.scm (package-superseded): Fix typo. Maxim Cournoyer
2022-05-31gnu: icecat: Update to 91.10.0-guix0-preview1 [security fixes]....Includes fixes for CVE-2022-31736, CVE-2022-31737, CVE-2022-31738, CVE-2022-31739, CVE-2022-31740, CVE-2022-31741, CVE-2022-31742, and CVE-2022-31747. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes. Mark H Weaver
2022-05-31gnu: ungoogled-chromium: Update to 102.0.5005.61-3....* gnu/packages/chromium.scm (%ungoogled-revision): Bump to latest. (%ungoogled-origin): Update hash. Marius Bakke