[med-svn] r11605 - trunk/packages/hmmer2/trunk/debian
Laszlo Kajan
lkajan-guest at alioth.debian.org
Fri Jul 6 17:16:47 UTC 2012
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 <naoliv at gmail.com>,
-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 <naoliv at gmail.com> 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 <naoliv at debian.org> 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 <naoliv at gmail.com> 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 <naoliv at gmail.com>,
+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 <naoliv at gmail.com> 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 <naoliv at debian.org> 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 <naoliv at gmail.com> 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
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