This is an automated email from the git hooks/post-receive script. tille pushed a commit to branch master in repository cd-hit.
commit 178c984407bfcc7c826c199b84c074a7a810b3c9 Author: Andreas Tille <[email protected]> Date: Fri Aug 12 13:10:20 2016 +0200 Provide original names choosen by upstream --- debian/README.Debian | 12 +++++++++++- debian/links | 17 ++++++++++++----- debian/rules | 20 +++++--------------- 3 files changed, 28 insertions(+), 21 deletions(-) diff --git a/debian/README.Debian b/debian/README.Debian index 355c93e..979fae8 100644 --- a/debian/README.Debian +++ b/debian/README.Debian @@ -5,5 +5,15 @@ Currently cd-hit is built with MPI support. Please drop the Debian Med team a note (or file a bug report using `reportbug cd-hit`) and ask us for supporting an alternative package without MPI. - -- Andreas Tille <[email protected]> Thu, 26 Apr 2012 07:54:23 +0200 +Note: For some reason the Debian package contained renamed binaries of +cd-hit, cd-hit-2d, cd-hit-454, cd-hit-est and cd-hit-est-2d in /usr/bin. +This is in contrast to the provided documentation. The current package +contains both, the originally named and the renamed version. The +renamed binaries without the '-' will be removed at a later point of +time. + +The renamed version do intentionally not get a manpage to raise awareness +that something is to be done here. + + -- Andreas Tille <[email protected]> Thu, 11 Aug 2016 08:09:28 +0300 diff --git a/debian/links b/debian/links index f625787..cccb2bf 100644 --- a/debian/links +++ b/debian/links @@ -1,10 +1,10 @@ -usr/lib/cd-hit/cd-hit usr/bin/cdhit -usr/lib/cd-hit/cd-hit-2d usr/bin/cdhit-2d +usr/lib/cd-hit/cd-hit usr/bin/cd-hit +usr/lib/cd-hit/cd-hit-2d usr/bin/cd-hit-2d usr/lib/cd-hit/cd-hit-2d-para.pl usr/bin/cd-hit-2d-para -usr/lib/cd-hit/cd-hit-454 usr/bin/cdhit-454 +usr/lib/cd-hit/cd-hit-454 usr/bin/cd-hit-454 usr/lib/cd-hit/cd-hit-div.pl usr/bin/cd-hit-div -usr/lib/cd-hit/cd-hit-est usr/bin/cdhit-est -usr/lib/cd-hit/cd-hit-est-2d usr/bin/cdhit-est-2d +usr/lib/cd-hit/cd-hit-est usr/bin/cd-hit-est +usr/lib/cd-hit/cd-hit-est-2d usr/bin/cd-hit-est-2d usr/lib/cd-hit/cd-hit-para.pl usr/bin/cd-hit-para usr/lib/cd-hit/clstr2tree.pl usr/bin/clstr2tree usr/lib/cd-hit/clstr_merge_noorder.pl usr/bin/clstr_merge_noorder @@ -18,3 +18,10 @@ usr/lib/cd-hit/make_multi_seq.pl usr/bin/make_multi_seq ## Too generic name, please point your PATH to /usr/lib/cd-hit # usr/lib/cd-hit/plot_2d.pl usr/bin/plot_2d # usr/lib/cd-hit/plot_len1.pl usr/bin/plot_len1 +# +# Keep this for compatibility reasons for some time +usr/bin/cd-hit usr/bin/cdhit +usr/bin/cd-hit-2d usr/bin/cdhit-2d +usr/bin/cd-hit-454 usr/bin/cdhit-454 +usr/bin/cd-hit-est usr/bin/cdhit-est +usr/bin/cd-hit-est-2d usr/bin/cdhit-est-2d diff --git a/debian/rules b/debian/rules index a052855..8f718bb 100755 --- a/debian/rules +++ b/debian/rules @@ -25,33 +25,23 @@ override_dh_installman: help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='quickly group sequences' \ - $(CURDIR)/cd-hit | \ - sed -e 's/^cd-\(hit \\-\)/cd\1/' -e 's/^.B cd-hit/.B cdhit/' \ - > $(mandir)/cdhit.1 + $(CURDIR)/cd-hit > $(mandir)/cd-hit.1 help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='quickly group sequences, optimised for 454 data' \ - $(CURDIR)/cd-hit-454 | \ - sed -e 's/^cd-\(hit \\-\)/cd\1/' -e 's/^.B cd-hit/.B cdhit/' \ - > $(mandir)/cdhit-454.1 + $(CURDIR)/cd-hit-454 > $(mandir)/cd-hit-454.1 help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='quickly group sequences in db1 or db2 format' \ - $(CURDIR)/cd-hit-2d | \ - sed -e 's/^cd-\(hit-2d \\-\)/cd\1/' -e 's/^.B cd-hit/.B cdhit/' \ - > $(mandir)/cdhit-2d.1 + $(CURDIR)/cd-hit-2d > $(mandir)/cd-hit-2d.1 help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='run CD-HIT algorithm on RNA/DNA sequences' \ - $(CURDIR)/cd-hit-est | \ - sed -e 's/^cd-\(hit-est \\-\)/cd\1/' -e 's/^.B cd-hit/.B cdhit/' \ - > $(mandir)/cdhit-est.1 + $(CURDIR)/cd-hit-est > $(mandir)/cd-hit-est.1 help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='run CD-HIT algorithm on RNA/DNA sequences in db1 or db2 format' \ - $(CURDIR)/cd-hit-est-2d | \ - sed -e 's/^cd-\(hit-est-2d \\-\)/cd\1/' -e 's/^.B cd-hit/.B cdhit/' \ - > $(mandir)/cdhit-est-2d.1 + $(CURDIR)/cd-hit-est-2d > $(mandir)/cd-hit-est-2d.1 help2man --no-info --no-discard-stderr --version-string='$(ver)' \ --name='divide a big clustering job into pieces to run cd-hit-2d or cd-hit-est-2d jobs' \ -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/cd-hit.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
