[med-svn] [snp-sites] branch master updated (9761952 -> 64f5774)
Andreas Tille
tille at debian.org
Thu Dec 5 16:30:58 UTC 2013
This is an automated email from the git hooks/post-receive script.
tille pushed a change to branch master
in repository snp-sites.
from 9761952 Changes to Maintainer and Uploader fields inb control file
new 6c0f64b Remove debian packages (source and binary) which are NOT commited to Git
new 398e7a2 Imported Upstream version 1
new c32ca43 Merge tag 'upstream/1'
new 64f5774 (Re)commit Jorge Sebastião Soares debian/ dir
The 4 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:
.travis.yml | 8 +
AUTHORS | 1 +
INSTALL | 15 +
LICENSE | 339 +
Makefile.am | 1 +
Makefile.in | 761 +
README.md | 40 +
VERSION | 1 +
aclocal.m4 | 9559 ++++++++++
autom4te.cache/output.0 | 18297 +++++++++++++++++++
autom4te.cache/output.1 | 18293 ++++++++++++++++++
autom4te.cache/requests | 291 +
autom4te.cache/traces.0 | 2480 +++
autom4te.cache/traces.1 | 589 +
config.guess | 1530 ++
config.h.in | 68 +
config.sub | 1782 ++
configure | 18293 ++++++++++++++++++
configure.ac | 14 +
debian/README.Debian | 6 +
debian/README.source | 9 +
debian/changelog | 5 +
debian/compat | 1 +
debian/control | 40 +
debian/copyright | 38 +
debian/docs | 1 +
debian/emacsen-install.ex | 47 +
debian/emacsen-remove.ex | 15 +
debian/emacsen-startup.ex | 27 +
debian/init.d.ex | 154 +
debian/libsnp-sites0-dev.install | 8 +
debian/libsnp-sites0.install | 1 +
debian/manpage.1.ex | 56 +
debian/manpage.sgml.ex | 154 +
debian/manpage.xml.ex | 291 +
debian/menu.ex | 2 +
debian/patches/added_specific_lib_to_libsnp-sites0 | 321 +
debian/patches/series | 1 +
debian/postinst.ex | 39 +
debian/postrm.ex | 37 +
debian/preinst.ex | 35 +
debian/prerm.ex | 38 +
debian/rules | 13 +
debian/snp-sites.cron.d.ex | 4 +
debian/snp-sites.default.ex | 10 +
debian/snp-sites.doc-base.EX | 20 +
debian/snp-sites.install | 1 +
debian/source/format | 1 +
debian/watch.ex | 23 +
depcomp | 708 +
install-sh | 527 +
libsnp-sites0-dev_1-1_amd64.deb | Bin 6374 -> 0 bytes
libsnp-sites0_1-1_amd64.deb | Bin 14092 -> 0 bytes
ltmain.sh | 9661 ++++++++++
m4/libtool.m4 | 7983 ++++++++
m4/ltoptions.m4 | 384 +
m4/ltsugar.m4 | 123 +
m4/ltversion.m4 | 23 +
m4/lt~obsolete.m4 | 98 +
missing | 331 +
snp-sites_1-1.debian.tar.gz | Bin 14785 -> 0 bytes
snp-sites_1-1.dsc | 25 -
snp-sites_1-1_amd64.changes | 39 -
snp-sites_1-1_amd64.deb | Bin 4846 -> 0 bytes
snp-sites_1.orig.tar.gz | Bin 708910 -> 0 bytes
src/Makefile.am | 22 +
src/Makefile.in | 833 +
src/alignment_file.c | 280 +
src/alignment_file.h | 41 +
src/fasta_of_snp_sites.c | 49 +
src/fasta_of_snp_sites.h | 26 +
src/kseq.h | 235 +
src/main.c | 88 +
src/parse_phylip.c | 51 +
src/parse_phylip.h | 33 +
src/phylib_of_snp_sites.c | 55 +
src/phylib_of_snp_sites.h | 27 +
src/snp_sites.c | 235 +
src/snp_sites.h | 33 +
src/string_cat.c | 42 +
src/string_cat.h | 28 +
src/vcf.c | 178 +
src/vcf.h | 33 +
tests/check_snp_sites.c | 260 +
tests/check_snp_sites.h | 27 +
.../alignment_file_multiple_lines_per_sequence.aln | 226 +
.../data/alignment_file_one_line_per_sequence.aln | 218 +
.../alignment_file_one_line_per_sequence.aln.gz | Bin 0 -> 3447 bytes
...alignment_file_one_line_per_sequence.aln.phylip | 110 +
...nt_file_one_line_per_sequence.aln.snp_sites.aln | 218 +
.../alignment_file_one_line_per_sequence.aln.vcf | 8 +
tests/data/alignment_file_with_n.aln | 218 +
tests/data/alignment_file_with_n.aln.phylip | 110 +
tests/data/alignment_file_with_n.aln.snp_sites.aln | 218 +
tests/data/alignment_file_with_n.aln.vcf | 8 +
tests/data/small_alignment.aln | 6 +
tests/data/uneven_alignment.aln | 6 +
tests/helper_methods.c | 67 +
tests/helper_methods.h | 25 +
tests/run_all_tests.c | 37 +
100 files changed, 97649 insertions(+), 64 deletions(-)
create mode 100644 .travis.yml
create mode 100644 AUTHORS
create mode 100644 INSTALL
create mode 100644 LICENSE
create mode 100644 Makefile.am
create mode 100644 Makefile.in
create mode 100644 README.md
create mode 100644 VERSION
create mode 100644 aclocal.m4
create mode 100644 autom4te.cache/output.0
create mode 100644 autom4te.cache/output.1
create mode 100644 autom4te.cache/requests
create mode 100644 autom4te.cache/traces.0
create mode 100644 autom4te.cache/traces.1
create mode 100755 config.guess
create mode 100644 config.h.in
create mode 100755 config.sub
create mode 100755 configure
create mode 100644 configure.ac
create mode 100644 debian/README.Debian
create mode 100644 debian/README.source
create mode 100644 debian/changelog
create mode 100644 debian/compat
create mode 100644 debian/control
create mode 100644 debian/copyright
create mode 100644 debian/docs
create mode 100644 debian/emacsen-install.ex
create mode 100644 debian/emacsen-remove.ex
create mode 100644 debian/emacsen-startup.ex
create mode 100644 debian/init.d.ex
create mode 100644 debian/libsnp-sites0-dev.install
create mode 100644 debian/libsnp-sites0.install
create mode 100644 debian/manpage.1.ex
create mode 100644 debian/manpage.sgml.ex
create mode 100644 debian/manpage.xml.ex
create mode 100644 debian/menu.ex
create mode 100644 debian/patches/added_specific_lib_to_libsnp-sites0
create mode 100644 debian/patches/series
create mode 100644 debian/postinst.ex
create mode 100644 debian/postrm.ex
create mode 100644 debian/preinst.ex
create mode 100644 debian/prerm.ex
create mode 100755 debian/rules
create mode 100644 debian/snp-sites.cron.d.ex
create mode 100644 debian/snp-sites.default.ex
create mode 100644 debian/snp-sites.doc-base.EX
create mode 100644 debian/snp-sites.install
create mode 100644 debian/source/format
create mode 100644 debian/watch.ex
create mode 100755 depcomp
create mode 100755 install-sh
delete mode 100644 libsnp-sites0-dev_1-1_amd64.deb
delete mode 100644 libsnp-sites0_1-1_amd64.deb
create mode 100644 ltmain.sh
create mode 100644 m4/libtool.m4
create mode 100644 m4/ltoptions.m4
create mode 100644 m4/ltsugar.m4
create mode 100644 m4/ltversion.m4
create mode 100644 m4/lt~obsolete.m4
create mode 100755 missing
delete mode 100644 snp-sites_1-1.debian.tar.gz
delete mode 100644 snp-sites_1-1.dsc
delete mode 100644 snp-sites_1-1_amd64.changes
delete mode 100644 snp-sites_1-1_amd64.deb
delete mode 100644 snp-sites_1.orig.tar.gz
create mode 100644 src/Makefile.am
create mode 100644 src/Makefile.in
create mode 100644 src/alignment_file.c
create mode 100644 src/alignment_file.h
create mode 100644 src/fasta_of_snp_sites.c
create mode 100644 src/fasta_of_snp_sites.h
create mode 100644 src/kseq.h
create mode 100644 src/main.c
create mode 100644 src/parse_phylip.c
create mode 100644 src/parse_phylip.h
create mode 100644 src/phylib_of_snp_sites.c
create mode 100644 src/phylib_of_snp_sites.h
create mode 100644 src/snp_sites.c
create mode 100644 src/snp_sites.h
create mode 100644 src/string_cat.c
create mode 100644 src/string_cat.h
create mode 100644 src/vcf.c
create mode 100644 src/vcf.h
create mode 100644 tests/check_snp_sites.c
create mode 100644 tests/check_snp_sites.h
create mode 100644 tests/data/alignment_file_multiple_lines_per_sequence.aln
create mode 100644 tests/data/alignment_file_one_line_per_sequence.aln
create mode 100644 tests/data/alignment_file_one_line_per_sequence.aln.gz
create mode 100644 tests/data/alignment_file_one_line_per_sequence.aln.phylip
create mode 100644 tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln
create mode 100644 tests/data/alignment_file_one_line_per_sequence.aln.vcf
create mode 100644 tests/data/alignment_file_with_n.aln
create mode 100644 tests/data/alignment_file_with_n.aln.phylip
create mode 100644 tests/data/alignment_file_with_n.aln.snp_sites.aln
create mode 100644 tests/data/alignment_file_with_n.aln.vcf
create mode 100644 tests/data/small_alignment.aln
create mode 100644 tests/data/uneven_alignment.aln
create mode 100644 tests/helper_methods.c
create mode 100644 tests/helper_methods.h
create mode 100644 tests/run_all_tests.c
--
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