Hi, since I have realised the upload of igdiscover to new and no according commit message in our commit mailing list I added the commit hooks manually. There would be no need for manual intervention if everybody who creates a new repository would use
https://salsa.debian.org/med-team/community/helper-scripts/blob/master/inject-into-salsa-git This script should be called from a new local git repository and will create the remote one on salsa.d.o and sets all the hooks we want. I would be happy if everybody would prefer this over manual creation of repositories since usually this will not include all settings we want to have. Hope this helps Andreas. ----- Forwarded message from Andreas Tille <[email protected]> ----- Date: Fri, 02 Aug 2019 03:28:05 +0000 From: Andreas Tille <[email protected]> To: [email protected] Subject: [Git][med-team/igdiscover][master] 2 commits: Adjusting build dependencies Andreas Tille pushed to branch master at Debian Med / igdiscover Commits: 1cc07041 by Steffen Möller at 2019-02-12T09:25:15Z Adjusting build dependencies - - - - - df76dec7 by Steffen Möller at 2019-08-01T23:06:59Z Fixed FTBFS with new cutadapt (>= 2.3) - - - - - 4 changed files: - debian/changelog - debian/control - + debian/patches/minoverlap.patch - + debian/patches/series Changes: ===================================== debian/changelog ===================================== @@ -1,4 +1,11 @@ -igdiscover (0.11-1) UNRELEASED; urgency=medium +igdiscover (0.11-2) unstable; urgency=medium + + * Introduced patch for compatibility with later versions + of cutadapt - upstream has it already in their master branch. + + -- Steffen Moeller <[email protected]> Fri, 02 Aug 2019 00:55:02 +0200 + +igdiscover (0.11-1) unstable; urgency=medium * Initial release (Closes: #919718) ===================================== debian/control ===================================== @@ -38,9 +38,8 @@ Depends: ${python3:Depends}, python3-cutadapt, python3-scipy (>=0.16.1), python3-xopen (>=0.3.2), + python3-seaborn (>=0.9), python3-ruamel.yaml -Recommends: python3-seaborn (>=0.8.1), - python3-matplotlib Suggests: snakemake, igdiscover-doc Description: analyzes antibody repertoires to find new V genes ===================================== debian/patches/minoverlap.patch ===================================== @@ -0,0 +1,14 @@ +Index: igdiscover/igdiscover/utils.py +=================================================================== +--- igdiscover.orig/igdiscover/utils.py ++++ igdiscover/igdiscover/utils.py +@@ -330,8 +330,7 @@ def find_overlap(s, t, min_overlap=1): + >>> find_overlap('ABC', 'X') is None + True + """ +- aligner = Aligner(s, max_error_rate=0) +- aligner.min_overlap = min_overlap ++ aligner = Aligner(s, max_error_rate=0, min_overlap=min_overlap) + result = aligner.locate(t) + if result is None: + return None ===================================== debian/patches/series ===================================== @@ -0,0 +1 @@ +minoverlap.patch View it on GitLab: https://salsa.debian.org/med-team/igdiscover/compare/dc8ee7231d33b6e526845fcb32a407ead20cb1a1...df76dec71814551cc3d7914005f4a2e15635b7be -- View it on GitLab: https://salsa.debian.org/med-team/igdiscover/compare/dc8ee7231d33b6e526845fcb32a407ead20cb1a1...df76dec71814551cc3d7914005f4a2e15635b7be You're receiving this email because of your account on salsa.debian.org. _______________________________________________ debian-med-commit mailing list [email protected] https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit ----- End forwarded message ----- -- http://fam-tille.de
