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sascha-guest pushed a change to branch master
in repository libtabixpp.
from 58408e0 Stumbled upon this one at the end of the chain of
dependencies of free-bayes; just fix the build for the moment
new 8af1d9f Imported Upstream version 0.0.20151117
new e17342b Merge tag 'upstream/0.0.20151117'
new 457e505 flesh out package a bit
The 3 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
.gitmodules | 3 +
ChangeLog | 593 ---------------
Makefile | 90 +--
NEWS | 126 ----
README | 6 -
README.md | 5 +
TabixReader.java | 395 ----------
bam_endian.h | 42 --
bedidx.c | 156 ----
bgzf.c | 714 ------------------
bgzf.h | 157 ----
bgzip.c | 206 ------
debian/README.license | 3 +
debian/changelog | 4 +-
debian/control | 32 +-
debian/libtabixpp-dev.links | 1 +
debian/patches/build_with_debian_htslib.patch | 58 ++
debian/patches/series | 1 +
debian/rules | 22 +-
example.gtf.gz | Bin 3778 -> 0 bytes
example.gtf.gz.tbi | Bin 259 -> 0 bytes
index.c | 998 --------------------------
khash.h | 486 -------------
knetfile.c | 632 ----------------
knetfile.h | 75 --
kseq.h | 227 ------
ksort.h | 271 -------
kstring.c | 165 -----
kstring.h | 68 --
main.c | 290 --------
perl/MANIFEST | 8 -
perl/Makefile.PL | 8 -
perl/Tabix.pm | 76 --
perl/Tabix.xs | 71 --
perl/TabixIterator.pm | 41 --
perl/t/01local.t | 28 -
perl/t/02remote.t | 28 -
perl/typemap | 3 -
python/setup.py | 55 --
python/tabixmodule.c | 408 -----------
python/test.py | 91 ---
tabix.1 | 132 ----
tabix.cpp | 85 ++-
tabix.h | 145 ----
tabix.hpp | 17 +-
tabix.py | 87 ---
tabix.tex | 121 ----
47 files changed, 202 insertions(+), 7028 deletions(-)
create mode 100644 .gitmodules
delete mode 100644 ChangeLog
delete mode 100644 NEWS
delete mode 100644 README
create mode 100644 README.md
delete mode 100644 TabixReader.java
delete mode 100644 bam_endian.h
delete mode 100644 bedidx.c
delete mode 100644 bgzf.c
delete mode 100644 bgzf.h
delete mode 100644 bgzip.c
create mode 100644 debian/README.license
create mode 100644 debian/libtabixpp-dev.links
create mode 100644 debian/patches/build_with_debian_htslib.patch
create mode 100644 debian/patches/series
delete mode 100644 example.gtf.gz
delete mode 100644 example.gtf.gz.tbi
delete mode 100644 index.c
delete mode 100644 khash.h
delete mode 100644 knetfile.c
delete mode 100644 knetfile.h
delete mode 100644 kseq.h
delete mode 100644 ksort.h
delete mode 100644 kstring.c
delete mode 100644 kstring.h
delete mode 100644 main.c
delete mode 100644 perl/MANIFEST
delete mode 100644 perl/Makefile.PL
delete mode 100644 perl/Tabix.pm
delete mode 100644 perl/Tabix.xs
delete mode 100644 perl/TabixIterator.pm
delete mode 100644 perl/t/01local.t
delete mode 100644 perl/t/02remote.t
delete mode 100644 perl/typemap
delete mode 100644 python/setup.py
delete mode 100644 python/tabixmodule.c
delete mode 100755 python/test.py
delete mode 100644 tabix.1
delete mode 100644 tabix.h
delete mode 100755 tabix.py
delete mode 100644 tabix.tex
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