[med-svn] [hmmer2] branch master updated (a53d177 -> e83b165)
Andreas Tille
tille at debian.org
Wed Apr 12 11:42:02 UTC 2017
This is an automated email from the git hooks/post-receive script.
tille pushed a change to branch master
in repository hmmer2.
from a53d177 make build reproducible
new 26a12d5 Fix watch file
new 4266571 Provide links to original names of tools that have vanished in hmmer3. This is used by bioperl-run
new f9bf439 Upload to unstable
new 7f5140a Fix spelling in manpage
new 610e469 Link against libsquid instead of code copy
new c71b80a New upstream version 2.3.2+dfsg
new b12ff70 Merge tag 'upstream/2.3.2+dfsg'
new 89dd00b Use Debian packaged biosquid
new e83b165 Fix build against Debian packaged libsquid
The 9 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:
debian/changelog | 15 +
debian/control | 4 +-
debian/copyright | 1 +
debian/hmmer2.links | 4 +
debian/patches/series | 2 +
debian/patches/spelling.patch | 15 +
debian/patches/use_debian_packaged_biosquid.patch | 153 +
debian/watch | 13 +-
squid/00README | 39 -
squid/Makefile.in | 314 -
squid/Testsuite/00README | 21 -
squid/Testsuite/Makefile.in | 90 -
squid/Testsuite/bug-1-sfetch-paths | 29 -
squid/Testsuite/iospeed_main.c | 88 -
squid/Testsuite/rndspeed_main.c | 41 -
squid/Testsuite/sqdconfig_main.c | 33 -
squid/Testsuite/testsuite.pm | 44 -
squid/Testsuite/x-base-afetch | 11 -
squid/Testsuite/x-base-alistat | 14 -
squid/Testsuite/x-base-seqstat | 22 -
squid/Testsuite/x-base-sfetch | 9 -
squid/Testsuite/x-base-shuffle | 7 -
squid/Testsuite/x-base-sindex | 21 -
squid/Testsuite/x-base-sreformat | 13 -
squid/a2m.c | 115 -
squid/afetch_main.c | 184 -
squid/aligneval.c | 510 --
squid/alignio.c | 642 --
squid/alistat_main.c | 275 -
squid/clustal.c | 181 -
squid/cluster.c | 542 --
squid/compalign_main.c | 223 -
squid/compstruct_main.c | 323 -
squid/config.sub | 1375 ----
squid/configure | 8042 ---------------------
squid/dayhoff.c | 173 -
squid/eps.c | 118 -
squid/file.c | 274 -
squid/getopt.c | 253 -
squid/gki.c | 390 -
squid/gki.h | 51 -
squid/gsi.c | 387 -
squid/gsi.h | 85 -
squid/gsi64.c | 397 -
squid/gsi64.h | 101 -
squid/hsregex.c | 1361 ----
squid/install-sh | 251 -
squid/iupac.c | 221 -
squid/msa.c | 1440 ----
squid/msa.h | 298 -
squid/msf.c | 391 -
squid/phylip.c | 176 -
squid/revcomp.c | 90 -
squid/revcomp_main.c | 108 -
squid/rk.c | 132 -
squid/rk.h | 40 -
squid/selex.c | 828 ---
squid/seqencode.c | 176 -
squid/seqsplit_main.c | 277 -
squid/seqstat_main.c | 238 -
squid/sfetch_main.c | 464 --
squid/shuffle.c | 641 --
squid/shuffle_main.c | 336 -
squid/sindex_main.c | 219 -
squid/sqerror.c | 94 -
squid/sqfuncs.h | 272 -
squid/sqio.c | 1933 -----
squid/squid.h.in | 475 --
squid/squidconf.h.in | 122 -
squid/squidcore.c | 55 -
squid/sre_ctype.c | 37 -
squid/sre_math.c | 334 -
squid/sre_random.c | 315 -
squid/sre_random.h | 18 -
squid/sre_string.c | 527 --
squid/sreformat_main.c | 260 -
squid/ssi.c | 1530 ----
squid/ssi.h | 191 -
squid/stack.c | 101 -
squid/stockholm.c | 630 --
squid/stockholm.h | 51 -
squid/stopwatch.c | 309 -
squid/stopwatch.h | 63 -
squid/test_main.c | 27 -
squid/translate.c | 84 -
squid/translate_main.c | 237 -
squid/types.c | 230 -
squid/vectorops.c | 299 -
squid/vectorops.h | 36 -
squid/weight.c | 751 --
squid/weight_main.c | 189 -
91 files changed, 204 insertions(+), 32297 deletions(-)
create mode 100644 debian/hmmer2.links
create mode 100644 debian/patches/spelling.patch
create mode 100644 debian/patches/use_debian_packaged_biosquid.patch
delete mode 100644 squid/00README
delete mode 100644 squid/Makefile.in
delete mode 100644 squid/Testsuite/00README
delete mode 100644 squid/Testsuite/Makefile.in
delete mode 100644 squid/Testsuite/bug-1-sfetch-paths
delete mode 100644 squid/Testsuite/iospeed_main.c
delete mode 100644 squid/Testsuite/rndspeed_main.c
delete mode 100644 squid/Testsuite/sqdconfig_main.c
delete mode 100644 squid/Testsuite/testsuite.pm
delete mode 100644 squid/Testsuite/x-base-afetch
delete mode 100644 squid/Testsuite/x-base-alistat
delete mode 100644 squid/Testsuite/x-base-seqstat
delete mode 100644 squid/Testsuite/x-base-sfetch
delete mode 100644 squid/Testsuite/x-base-shuffle
delete mode 100644 squid/Testsuite/x-base-sindex
delete mode 100644 squid/Testsuite/x-base-sreformat
delete mode 100644 squid/a2m.c
delete mode 100644 squid/afetch_main.c
delete mode 100644 squid/aligneval.c
delete mode 100644 squid/alignio.c
delete mode 100644 squid/alistat_main.c
delete mode 100644 squid/clustal.c
delete mode 100644 squid/cluster.c
delete mode 100644 squid/compalign_main.c
delete mode 100644 squid/compstruct_main.c
delete mode 100644 squid/config.sub
delete mode 100755 squid/configure
delete mode 100644 squid/dayhoff.c
delete mode 100644 squid/eps.c
delete mode 100644 squid/file.c
delete mode 100644 squid/getopt.c
delete mode 100644 squid/gki.c
delete mode 100644 squid/gki.h
delete mode 100644 squid/gsi.c
delete mode 100644 squid/gsi.h
delete mode 100644 squid/gsi64.c
delete mode 100644 squid/gsi64.h
delete mode 100644 squid/hsregex.c
delete mode 100644 squid/install-sh
delete mode 100644 squid/iupac.c
delete mode 100644 squid/msa.c
delete mode 100644 squid/msa.h
delete mode 100644 squid/msf.c
delete mode 100644 squid/phylip.c
delete mode 100644 squid/revcomp.c
delete mode 100644 squid/revcomp_main.c
delete mode 100644 squid/rk.c
delete mode 100644 squid/rk.h
delete mode 100644 squid/selex.c
delete mode 100644 squid/seqencode.c
delete mode 100644 squid/seqsplit_main.c
delete mode 100644 squid/seqstat_main.c
delete mode 100644 squid/sfetch_main.c
delete mode 100644 squid/shuffle.c
delete mode 100644 squid/shuffle_main.c
delete mode 100644 squid/sindex_main.c
delete mode 100644 squid/sqerror.c
delete mode 100644 squid/sqfuncs.h
delete mode 100644 squid/sqio.c
delete mode 100644 squid/squid.h.in
delete mode 100644 squid/squidconf.h.in
delete mode 100644 squid/squidcore.c
delete mode 100644 squid/sre_ctype.c
delete mode 100644 squid/sre_math.c
delete mode 100644 squid/sre_random.c
delete mode 100644 squid/sre_random.h
delete mode 100644 squid/sre_string.c
delete mode 100644 squid/sreformat_main.c
delete mode 100644 squid/ssi.c
delete mode 100644 squid/ssi.h
delete mode 100644 squid/stack.c
delete mode 100644 squid/stockholm.c
delete mode 100644 squid/stockholm.h
delete mode 100644 squid/stopwatch.c
delete mode 100644 squid/stopwatch.h
delete mode 100644 squid/test_main.c
delete mode 100644 squid/translate.c
delete mode 100644 squid/translate_main.c
delete mode 100644 squid/types.c
delete mode 100644 squid/vectorops.c
delete mode 100644 squid/vectorops.h
delete mode 100644 squid/weight.c
delete mode 100644 squid/weight_main.c
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/hmmer2.git
More information about the debian-med-commit
mailing list