[med-svn] [sniffles] 01/02: Merge tag 'debian/1.0.0+ds-1' into debian/jessie-backports
Afif Elghraoui
afif at moszumanska.debian.org
Mon Oct 24 06:49:07 UTC 2016
This is an automated email from the git hooks/post-receive script.
afif pushed a commit to branch debian/jessie-backports
in repository sniffles.
commit f9e43f680fccd15fc0ce1807893b96ca7d1a555e
Merge: f117fb3 4e5e165
Author: Afif Elghraoui <afif at debian.org>
Date: Sun Oct 23 23:41:04 2016 -0700
Merge tag 'debian/1.0.0+ds-1' into debian/jessie-backports
tagging package sniffles version debian/1.0.0+ds-1
CMakeLists.txt | 10 +-
debian/changelog | 9 +
debian/patches/external-libs.patch | 4 +-
debian/patches/no-extra-binary.patch | 11 +-
debian/rules | 2 +
debian/sniffles.1.md | 8 +-
makefile | 62 ++
objects.mk | 8 +
sources.mk | 30 +
src/Alignment.cpp | 933 ++++++++++++++++++-----
src/Alignment.d | 54 ++
src/Alignment.h | 34 +-
src/Alignment.o | Bin 0 -> 628428 bytes
src/BamParser.cpp | 5 +-
src/BamParser.d | 58 ++
src/BamParser.o | Bin 0 -> 298480 bytes
src/CMakeLists.txt | 18 +-
src/Genotyper/Genotyper.cpp | 246 ++++++
src/Genotyper/Genotyper.h | 40 +
src/Paramer.h | 27 +-
src/Parser.cpp | 8 -
src/Parser.d | 56 ++
src/Parser.h | 8 +-
src/Parser.o | Bin 0 -> 8376 bytes
src/Sniffles.cpp | 125 ++-
src/Sniffles.d | 148 ++++
src/Sniffles.o | Bin 0 -> 812932 bytes
src/cluster/Cluster_SVs.cpp | 149 ++++
src/cluster/Cluster_SVs.h | 41 +
src/phasing/PhaserSV.cpp | 13 -
src/phasing/PhaserSV.h | 24 -
src/plane-sweep/Main.d | 1 +
src/plane-sweep/Main.o | Bin 0 -> 1380 bytes
src/plane-sweep/MyHeap.d | 62 ++
src/plane-sweep/MyHeap.o | Bin 0 -> 179100 bytes
src/plane-sweep/MyList.d | 62 ++
src/plane-sweep/MyList.o | Bin 0 -> 91880 bytes
src/plane-sweep/PlaneSweep.d | 67 ++
src/plane-sweep/PlaneSweep.o | Bin 0 -> 125776 bytes
src/plane-sweep/PlaneSweep_slim.cpp | 43 ++
src/plane-sweep/PlaneSweep_slim.h | 40 +
src/plane-sweep/subdir.mk | 33 +
src/print/BedePrinter.cpp | 59 --
src/print/{MariaPrinter.cpp => BedpePrinter.cpp} | 20 +-
src/print/{BedePrinter.h => BedpePrinter.h} | 12 +-
src/print/IPrinter.cpp | 46 +-
src/print/IPrinter.h | 29 +-
src/print/MariaPrinter.h | 24 -
src/print/VCFPrinter.cpp | 42 +-
src/sub/Breakpoint.cpp | 511 ++++++++-----
src/sub/Breakpoint.h | 35 +-
src/sub/Detect_Breakpoints.cpp | 453 +++++++----
src/sub/Detect_Breakpoints.h | 10 +-
src/sub/Detect_Breapoints.d | 82 ++
src/sub/Detect_Breapoints.o | Bin 0 -> 877496 bytes
src/sub/subdir.mk | 24 +
src/subdir.mk | 33 +
src/test | 0
src/tree/Breakpoint_Tree.cpp | 257 +++++++
src/tree/Breakpoint_Tree.h | 50 ++
src/tree/IntervallTree.cpp | 20 +-
src/tree/IntervallTree.d | 67 ++
src/tree/IntervallTree.h | 2 +-
src/tree/IntervallTree.o | Bin 0 -> 297288 bytes
src/tree/Intervall_bed.cpp | 2 +-
src/tree/Scapegoat.cpp | 10 -
src/tree/Scapegoat.d | 66 ++
src/tree/Scapegoat.h | 234 ------
src/tree/Scapegoat.o | Bin 0 -> 8688 bytes
src/tree/subdir.mk | 27 +
70 files changed, 3493 insertions(+), 1061 deletions(-)
diff --cc debian/changelog
index 8383e3e,814c2dc..630c644
--- a/debian/changelog
+++ b/debian/changelog
@@@ -1,9 -1,12 +1,18 @@@
+ sniffles (1.0.0+ds-1) unstable; urgency=medium
+
+ * Imported Upstream version 1.0.0+ds
+ * Update patches
+ * Update "clean" target
+ * Update manpage
+
+ -- Afif Elghraoui <afif at debian.org> Mon, 17 Oct 2016 01:39:00 -0700
+
+sniffles (0.0.1+ds-1~bpo8+1) jessie-backports; urgency=medium
+
+ * Rebuild for jessie-backports.
+
+ -- Afif Elghraoui <afif at debian.org> Sat, 25 Jun 2016 18:23:55 -0700
+
sniffles (0.0.1+ds-1) unstable; urgency=medium
* Initial release (Closes: #827638)
--
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