Andreas Tille pushed to branch master at Debian Med / libbioparser-dev
Commits: 3c4509d5 by Andreas Tille at 2020-05-03T16:16:33+02:00 Reset to unreleased to run routine-update - - - - - 5b48657e by Andreas Tille at 2020-05-03T16:17:01+02:00 New upstream version 2.1.2 - - - - - 16bf6921 by Andreas Tille at 2020-05-03T16:17:01+02:00 routine-update: New upstream version - - - - - 20ceebb9 by Andreas Tille at 2020-05-03T16:17:04+02:00 Update upstream source from tag 'upstream/2.1.2' Update to upstream version '2.1.2' with Debian dir b906d1eae7c47b4ade439074c076eb9f9f0bb502 - - - - - ec45e02a by Andreas Tille at 2020-05-03T16:17:04+02:00 routine-update: Standards-Version: 4.5.0 - - - - - ab9e171b by Andreas Tille at 2020-05-03T16:17:09+02:00 routine-update: Add salsa-ci file - - - - - 20829d59 by Andreas Tille at 2020-05-03T16:17:09+02:00 routine-update: Rules-Requires-Root: no - - - - - e325e5ea by Andreas Tille at 2020-05-03T16:17:10+02:00 Remove unnecessary Team Upload line in changelog. Fixes: lintian: unnecessary-team-upload See-also: https://lintian.debian.org/tags/unnecessary-team-upload.html - - - - - 25adf00b by Andreas Tille at 2020-05-03T16:17:13+02:00 Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. Fixes: lintian: upstream-metadata-missing-bug-tracking See-also: https://lintian.debian.org/tags/upstream-metadata-missing-bug-tracking.html Fixes: lintian: upstream-metadata-missing-repository See-also: https://lintian.debian.org/tags/upstream-metadata-missing-repository.html - - - - - 917171a6 by Andreas Tille at 2020-05-03T16:17:13+02:00 Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). - - - - - 243b9b01 by Andreas Tille at 2020-05-03T16:20:20+02:00 Upload to unstable - - - - - b32f6c89 by Andreas Tille at 2020-05-03T16:34:31+02:00 DEP3 - - - - - 2b9ffb18 by Andreas Tille at 2020-05-03T16:34:40+02:00 Team upload - - - - - 6 changed files: - debian/changelog - debian/control - debian/patches/gcc10.patch - + debian/salsa-ci.yml - debian/upstream/metadata - include/bioparser/bioparser.hpp Changes: ===================================== debian/changelog ===================================== @@ -1,9 +1,20 @@ -libbioparser-dev (2.1.1-2) unstable; urgency=medium +libbioparser-dev (2.1.2-1) unstable; urgency=medium - * Team upload. + [ Etienne Mollier ] + * Team upload * Add fix for ftbfs with gcc-10 (Closes: #959465) - -- Etienne Mollier <[email protected]> + [ Andreas Tille ] + * New upstream version + * Standards-Version: 4.5.0 (routine-update) + * Add salsa-ci file (routine-update) + * Rules-Requires-Root: no (routine-update) + * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, + Repository-Browse. + * Remove obsolete field Name from debian/upstream/metadata (already + present in machine-readable debian/copyright). + + -- Étienne Mollier <[email protected]> Sun, 03 May 2020 16:17:01 +0200 libbioparser-dev (2.1.1-1) unstable; urgency=medium ===================================== debian/control ===================================== @@ -7,10 +7,11 @@ Build-Depends: debhelper-compat (= 12), cmake, zlib1g-dev, libgtest-dev (>> 1.8.0-10~) -Standards-Version: 4.4.0 +Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/libibioparser-dev Vcs-Git: https://salsa.debian.org/med-team/libbioparser-dev.git Homepage: https://github.com/rvaser/bioparser/ +Rules-Requires-Root: no Package: libbioparser-dev Architecture: all ===================================== debian/patches/gcc10.patch ===================================== @@ -1,3 +1,8 @@ +From: Étienne Mollier <[email protected]> +Date: Sun, 3 May 2020 10:30:58 +0200 +Bug-Debian: https://bugs.debian.org/959465 +Description: Fix gcc-10 build error + --- libbioparser-dev.orig/include/bioparser/bioparser.hpp +++ libbioparser-dev/include/bioparser/bioparser.hpp @@ -10,6 +10,7 @@ ===================================== debian/salsa-ci.yml ===================================== @@ -0,0 +1,4 @@ +--- +include: + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml ===================================== debian/upstream/metadata ===================================== @@ -1 +1,4 @@ -Name: bioparser +Bug-Database: https://github.com/rvaser/bioparser/issues +Bug-Submit: https://github.com/rvaser/bioparser/issues/new +Repository: https://github.com/rvaser/bioparser.git +Repository-Browse: https://github.com/rvaser/bioparser ===================================== include/bioparser/bioparser.hpp ===================================== @@ -17,7 +17,7 @@ namespace bioparser { -static const std::string version = "v2.1.1"; +static const std::string version = "v2.1.2"; /*! * @brief Parser absctract class @@ -727,6 +727,11 @@ inline bool SamParser<T>::parse(std::vector<std::unique_ptr<T>>& dst, quality_length = 0; auto create_T = [&] () -> void { + if (this->storage_[0] == '@') { // header + storage_ptr = 0; + return; + } + this->storage_[storage_ptr] = 0; rightStrip(&(this->storage_[0]), storage_ptr); @@ -828,11 +833,6 @@ inline bool SamParser<T>::parse(std::vector<std::unique_ptr<T>>& dst, for (; this->buffer_ptr_ < this->buffer_bytes_; ++this->buffer_ptr_) { auto c = this->buffer_[this->buffer_ptr_]; if (c == '\n') { - if (this->buffer_[begin_ptr] == '@') { - begin_ptr = this->buffer_ptr_ + 1; - storage_ptr = 0; - continue; - } std::memcpy(&this->storage_[storage_ptr], &this->buffer_[begin_ptr], this->buffer_ptr_ - begin_ptr); View it on GitLab: https://salsa.debian.org/med-team/libbioparser-dev/-/compare/ab7634a04f237875db8ae20c9a70ee59992fa9b6...2b9ffb18d42172cee06dc2af64b2de6b6c9bf642 -- View it on GitLab: https://salsa.debian.org/med-team/libbioparser-dev/-/compare/ab7634a04f237875db8ae20c9a70ee59992fa9b6...2b9ffb18d42172cee06dc2af64b2de6b6c9bf642 You're receiving this email because of your account on salsa.debian.org.
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