[med-svn] [kmer-tools] 01/02: Merge tag 'debian/0_20150903+r2013-1' into debian/jessie-backports
Afif Elghraoui
afif-guest at moszumanska.debian.org
Sat Jan 16 05:33:34 UTC 2016
This is an automated email from the git hooks/post-receive script.
afif-guest pushed a commit to branch debian/jessie-backports
in repository kmer-tools.
commit 55c547ef069201fd3fde5edeb5c8c823ced9d860
Merge: 87104aa 05de1bf
Author: Afif Elghraoui <afif at ghraoui.name>
Date: Fri Jan 15 21:06:53 2016 -0800
Merge tag 'debian/0_20150903+r2013-1' into debian/jessie-backports
Conflicts:
debian/changelog
PACKAGING | 104 +
configure.sh | 6 +-
debian/README.Debian | 10 +
debian/README.source | 24 +-
debian/changelog | 23 +
debian/control | 59 +-
debian/copyright | 101 +-
debian/docs | 3 -
debian/get-orig-source | 32 +-
debian/leaff.docs | 1 +
debian/leaff.install | 1 +
debian/leaff.manpages | 1 +
debian/man/leaff/leaff.1 | 159 +
debian/{ => man/meryl}/existDB.1 | 21 +-
debian/{ => man/meryl}/kmer-mask.1 | 0
debian/{ => man/meryl}/mapMers-depth.1 | 0
debian/{ => man/meryl}/mapMers.1 | 0
debian/{ => man/meryl}/meryl.1 | 0
debian/{ => man/meryl}/positionDB.1 | 0
debian/{ => man/meryl}/simple.1 | 0
debian/man/sim4db/cleanPolishes.1 | 1 +
debian/man/sim4db/comparePolishes.1 | 1 +
debian/man/sim4db/convertPolishes.1 | 1 +
debian/man/sim4db/convertToAtac.1 | 1 +
debian/man/sim4db/convertToExtent.1 | 1 +
debian/man/sim4db/depthOfPolishes.1 | 1 +
debian/man/sim4db/detectChimera.1 | 1 +
debian/man/sim4db/filterPolishes.1 | 1 +
debian/man/sim4db/fixPolishesIID.1 | 1 +
debian/man/sim4db/headPolishes.1 | 1 +
debian/man/sim4db/mappedCoverage.1 | 1 +
debian/man/sim4db/mergePolishes.1 | 1 +
debian/man/sim4db/parseSNP.1 | 1 +
debian/man/sim4db/pickBestPolish.1 | 1 +
debian/man/sim4db/pickUniquePolish.1 | 1 +
debian/man/sim4db/plotCoverageVsIdentity.1 | 1 +
debian/man/sim4db/realignPolishes.1 | 1 +
debian/man/sim4db/removeDuplicate.1 | 1 +
debian/man/sim4db/reportAlignmentDifferences.1 | 1 +
debian/man/sim4db/sim4db.1 | 123 +
debian/man/sim4db/sim4dbutils.1 | 60 +
debian/man/sim4db/sortPolishes.1 | 1 +
debian/man/sim4db/summarizePolishes.1 | 1 +
debian/man/sim4db/uniqPolishes.1 | 1 +
debian/man/sim4db/vennPolishes.1 | 1 +
debian/meryl.manpages | 8 +-
debian/patches/allow-freebsd-build.patch | 121 +
debian/patches/kazlib.patch | 41 -
debian/patches/remove-kazlib.patch | 39 -
debian/patches/series | 3 +-
debian/rules | 19 +-
debian/sim4db.docs | 1 +
debian/sim4db.install | 43 +
debian/sim4db.manpages | 1 +
debian/upstream/metadata | 4 +-
libutil/kazlib/Make.include | 27 +
libutil/kazlib/blast.pl | 33 +
libutil/kazlib/dict.c | 1238 +++++++
libutil/kazlib/dict.h | 142 +
libutil/kazlib/docs/CHANGES | 290 ++
libutil/kazlib/docs/MUST_READ | 25 +
libutil/kazlib/docs/README | 66 +
libutil/kazlib/docs/docs.ist | 4 +
libutil/kazlib/docs/docs.ltx | 4155 ++++++++++++++++++++++++
libutil/kazlib/drivers/dict-main.c | 300 ++
libutil/kazlib/drivers/except-main.c | 57 +
libutil/kazlib/drivers/hash-main.c | 187 ++
libutil/kazlib/drivers/list-main.c | 152 +
libutil/kazlib/drivers/sfx-main.c | 41 +
libutil/kazlib/except.c | 347 ++
libutil/kazlib/except.h | 147 +
libutil/kazlib/hash.c | 837 +++++
libutil/kazlib/hash.h | 238 ++
libutil/kazlib/list.c | 766 +++++
libutil/kazlib/list.h | 152 +
libutil/kazlib/sfx.c | 1138 +++++++
libutil/kazlib/sfx.h | 46 +
meryl/args.C | 2 +-
meryl/build.C | 70 +-
meryl/estimate.C | 136 +-
meryl/kmer-mask.C | 344 +-
meryl/mapMers.C | 26 +-
meryl/meryl.H | 7 +-
sim4dbutils/reportAlignmentDifferences.C | 2 +-
84 files changed, 11585 insertions(+), 421 deletions(-)
diff --cc debian/changelog
index 1c81c24,60ed7ba..21cbbbd
--- a/debian/changelog
+++ b/debian/changelog
@@@ -1,9 -1,26 +1,32 @@@
+ kmer-tools (0~20150903+r2013-1) unstable; urgency=low
+
+ * Simplify get-orig-source script
+ * Imported Upstream version 0~20150903+r2013
+ * Clean up source package: move meryl manpages to a subdirectory of debian/
+ * New binary packages:
+ - leaff
+ - sim4db
+ * Drop build-dependency on libbz2-dev
+ * Drop kazlib quilt patches
+ * Fix section/architecture of the kmer metapackage
+ * Set Vcs-Browser to point to cgit
+ * Don't install other READMEs to metapackage docs
+ * Update d/copyright
+ * Update README.source
+ - document situation with bundled kazlib
+ - document reason for monolithic source package
+ * Make the build system more flexible to hopefully fix build on kFreeBSD
+ * Add README.Debian to let users know some components aren't yet packaged
+ * Add comment for why we can't use dh --parallel
+
+ -- Afif Elghraoui <afif at ghraoui.name> Sat, 02 Jan 2016 16:49:00 -0800
+
+kmer-tools (0~20150520+2004-1~bpo8+1) jessie-backports; urgency=medium
+
+ * Rebuild for jessie-backports.
+
+ -- Afif Elghraoui <afif at ghraoui.name> Sun, 20 Sep 2015 01:41:57 -0700
+
kmer-tools (0~20150520+2004-1) unstable; urgency=low
* Initial release (Closes: #784863)
--
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