Author: lkajan-guest Date: 2012-07-06 17:16:47 +0000 (Fri, 06 Jul 2012) New Revision: 11605
Added: trunk/packages/hmmer2/trunk/debian/hmmer2-doc.doc-base trunk/packages/hmmer2/trunk/debian/hmmer2-doc.docs trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.1 trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.README.Debian trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.install trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.links trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.manpages trunk/packages/hmmer2/trunk/debian/hmmer2.NEWS trunk/packages/hmmer2/trunk/debian/hmmer2.install Removed: trunk/packages/hmmer2/trunk/debian/hmmer-doc.doc-base trunk/packages/hmmer2/trunk/debian/hmmer-doc.docs trunk/packages/hmmer2/trunk/debian/hmmer-pvm.1 trunk/packages/hmmer2/trunk/debian/hmmer-pvm.README.Debian trunk/packages/hmmer2/trunk/debian/hmmer-pvm.install trunk/packages/hmmer2/trunk/debian/hmmer-pvm.links trunk/packages/hmmer2/trunk/debian/hmmer-pvm.manpages trunk/packages/hmmer2/trunk/debian/hmmer.NEWS trunk/packages/hmmer2/trunk/debian/hmmer.install Log: renaming hmmer-* in debian/ to hmmer2-* Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-doc.doc-base =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-doc.doc-base 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-doc.doc-base 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,15 +0,0 @@ -Document: hmmer2 -Title: Hmmer 2.3.2 Userguide -Author: Sean Eddy -Abstract: HMMER is an implementation of profile hidden Markov model methods for - sensitive searches of biological sequence databases using multiple sequence - alignments as queries. - . - Given a multiple sequence alignment as input, HMMER builds a statistical - model called a "hidden Markov model" which can then be used as a query into - a sequence database to find (and/or align) additional homologues of the - sequence family. -Section: Science/Biology - -Format: PDF -Files: /usr/share/doc/hmmer2-doc/Userguide.pdf.gz Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-doc.docs =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-doc.docs 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-doc.docs 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,2 +0,0 @@ -Userguide.pdf -tutorial/ Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-pvm.1 =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-pvm.1 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-pvm.1 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,20 +0,0 @@ -.TH HMMER-PVM 1 "Tue, 08 Aug 2006 20:00:00 -0300" -.SH NAME -hmmer2-pvm \- HMMER utilities for PVM clusters -.SH DESCRIPTION -Information on how to use the programs -.B hmmcalibrate-pvm -, -.B hmmpfam-pvm -and -.B hmmsearch-pvm -is available on the section "Configuring a PVM cluster for HMMER" (page 15) at the User's Guide (/usr/share/doc/hmmer2-doc/Userguide.pdf.gz), installed with the package "hmmer2-doc". -.PP -.SH SEE ALSO -.BR hmmer2 (1), -.BR hmmer (1) -.SH AUTHOR -HMMER was written by Sean Eddy. -.PP -This manual page was written by Nelson A. de Oliveira <[email protected]>, -for the Debian project (but may be used by others). Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-pvm.README.Debian =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-pvm.README.Debian 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-pvm.README.Debian 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,8 +0,0 @@ -hmmer2-pvm for Debian --------------------- - - Please, read the section "Configuring a PVM cluster for HMMER" (page 15) - at the User's Guide (/usr/share/doc/hmmer2-doc/Userguide.pdf.gz), installed with the package "hmmer2-doc", to see how to configure properly Hmmer on a PVM - cluster. - - -- Nelson A. de Oliveira <[email protected]> Tue, 08 Aug 2006 23:07:12 -0300 Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-pvm.install =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-pvm.install 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-pvm.install 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,3 +0,0 @@ -debian/tmp/bin/hmm2calibrate-pvm usr/bin -debian/tmp/bin/hmm2pfam-pvm usr/bin -debian/tmp/bin/hmm2search-pvm usr/bin Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-pvm.links =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-pvm.links 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-pvm.links 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,3 +0,0 @@ -usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2calibrate-pvm.1.gz -usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2pfam-pvm.1.gz -usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2search-pvm.1.gz Deleted: trunk/packages/hmmer2/trunk/debian/hmmer-pvm.manpages =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer-pvm.manpages 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer-pvm.manpages 2012-07-06 17:16:47 UTC (rev 11605) @@ -1 +0,0 @@ -debian/hmmer2-pvm.1 Deleted: trunk/packages/hmmer2/trunk/debian/hmmer.NEWS =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer.NEWS 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer.NEWS 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,14 +0,0 @@ -hmmer (2.3.2-3) unstable; urgency=low - - Hmmer dependency on biosquid has been downgraded to recommends, as there is - no need for this upgrade path anymore. - - -- Nelson A. de Oliveira <[email protected]> Tue, 31 Jul 2007 16:18:00 -0300 - -hmmer (2.3.2-1) unstable; urgency=low - - Some binaries from the old hmmer (version 2.1.4) have been split between two - packages: hmmer and biosquid. To maintain all binaries included on the older - hmmer, the new hmmer package depends on biosquid. - - -- Nelson A. de Oliveira <[email protected]> Tue, 08 Aug 2006 23:07:12 -0300 Deleted: trunk/packages/hmmer2/trunk/debian/hmmer.install =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer.install 2012-07-06 17:14:52 UTC (rev 11604) +++ trunk/packages/hmmer2/trunk/debian/hmmer.install 2012-07-06 17:16:47 UTC (rev 11605) @@ -1,10 +0,0 @@ -debian/tmp/share usr -debian/tmp/bin/hmm2align usr/bin -debian/tmp/bin/hmm2build usr/bin -debian/tmp/bin/hmm2calibrate usr/bin -debian/tmp/bin/hmm2convert usr/bin -debian/tmp/bin/hmm2emit usr/bin -debian/tmp/bin/hmm2fetch usr/bin -debian/tmp/bin/hmm2index usr/bin -debian/tmp/bin/hmm2pfam usr/bin -debian/tmp/bin/hmm2search usr/bin Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-doc.doc-base (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-doc.doc-base) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-doc.doc-base (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-doc.doc-base 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,15 @@ +Document: hmmer2 +Title: Hmmer 2.3.2 Userguide +Author: Sean Eddy +Abstract: HMMER is an implementation of profile hidden Markov model methods for + sensitive searches of biological sequence databases using multiple sequence + alignments as queries. + . + Given a multiple sequence alignment as input, HMMER builds a statistical + model called a "hidden Markov model" which can then be used as a query into + a sequence database to find (and/or align) additional homologues of the + sequence family. +Section: Science/Biology + +Format: PDF +Files: /usr/share/doc/hmmer2-doc/Userguide.pdf.gz Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-doc.docs (from rev 11603, trunk/packages/hmmer2/trunk/debian/hmmer-doc.docs) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-doc.docs (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-doc.docs 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,2 @@ +Userguide.pdf +tutorial/ Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.1 (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-pvm.1) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.1 (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.1 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,20 @@ +.TH HMMER-PVM 1 "Tue, 08 Aug 2006 20:00:00 -0300" +.SH NAME +hmmer2-pvm \- HMMER utilities for PVM clusters +.SH DESCRIPTION +Information on how to use the programs +.B hmmcalibrate-pvm +, +.B hmmpfam-pvm +and +.B hmmsearch-pvm +is available on the section "Configuring a PVM cluster for HMMER" (page 15) at the User's Guide (/usr/share/doc/hmmer2-doc/Userguide.pdf.gz), installed with the package "hmmer2-doc". +.PP +.SH SEE ALSO +.BR hmmer2 (1), +.BR hmmer (1) +.SH AUTHOR +HMMER was written by Sean Eddy. +.PP +This manual page was written by Nelson A. de Oliveira <[email protected]>, +for the Debian project (but may be used by others). Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.README.Debian (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-pvm.README.Debian) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.README.Debian (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.README.Debian 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,8 @@ +hmmer2-pvm for Debian +-------------------- + + Please, read the section "Configuring a PVM cluster for HMMER" (page 15) + at the User's Guide (/usr/share/doc/hmmer2-doc/Userguide.pdf.gz), installed with the package "hmmer2-doc", to see how to configure properly Hmmer on a PVM + cluster. + + -- Nelson A. de Oliveira <[email protected]> Tue, 08 Aug 2006 23:07:12 -0300 Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.install (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-pvm.install) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.install (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.install 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,3 @@ +debian/tmp/bin/hmm2calibrate-pvm usr/bin +debian/tmp/bin/hmm2pfam-pvm usr/bin +debian/tmp/bin/hmm2search-pvm usr/bin Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.links (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-pvm.links) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.links (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.links 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,3 @@ +usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2calibrate-pvm.1.gz +usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2pfam-pvm.1.gz +usr/share/man/man1/hmmer2-pvm.1.gz usr/share/man/man1/hmm2search-pvm.1.gz Copied: trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.manpages (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer-pvm.manpages) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.manpages (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2-pvm.manpages 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1 @@ +debian/hmmer2-pvm.1 Copied: trunk/packages/hmmer2/trunk/debian/hmmer2.NEWS (from rev 11603, trunk/packages/hmmer2/trunk/debian/hmmer.NEWS) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2.NEWS (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2.NEWS 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,14 @@ +hmmer (2.3.2-3) unstable; urgency=low + + Hmmer dependency on biosquid has been downgraded to recommends, as there is + no need for this upgrade path anymore. + + -- Nelson A. de Oliveira <[email protected]> Tue, 31 Jul 2007 16:18:00 -0300 + +hmmer (2.3.2-1) unstable; urgency=low + + Some binaries from the old hmmer (version 2.1.4) have been split between two + packages: hmmer and biosquid. To maintain all binaries included on the older + hmmer, the new hmmer package depends on biosquid. + + -- Nelson A. de Oliveira <[email protected]> Tue, 08 Aug 2006 23:07:12 -0300 Copied: trunk/packages/hmmer2/trunk/debian/hmmer2.install (from rev 11604, trunk/packages/hmmer2/trunk/debian/hmmer.install) =================================================================== --- trunk/packages/hmmer2/trunk/debian/hmmer2.install (rev 0) +++ trunk/packages/hmmer2/trunk/debian/hmmer2.install 2012-07-06 17:16:47 UTC (rev 11605) @@ -0,0 +1,10 @@ +debian/tmp/share usr +debian/tmp/bin/hmm2align usr/bin +debian/tmp/bin/hmm2build usr/bin +debian/tmp/bin/hmm2calibrate usr/bin +debian/tmp/bin/hmm2convert usr/bin +debian/tmp/bin/hmm2emit usr/bin +debian/tmp/bin/hmm2fetch usr/bin +debian/tmp/bin/hmm2index usr/bin +debian/tmp/bin/hmm2pfam usr/bin +debian/tmp/bin/hmm2search usr/bin _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
