[med-svn] r13471 - in trunk/packages/infernal/trunk/debian: . patches
Steffen Möller
moeller at alioth.debian.org
Thu May 2 20:17:12 UTC 2013
Author: moeller
Date: 2013-05-02 20:17:12 +0000 (Thu, 02 May 2013)
New Revision: 13471
Modified:
trunk/packages/infernal/trunk/debian/changelog
trunk/packages/infernal/trunk/debian/control
trunk/packages/infernal/trunk/debian/infernal.docs
trunk/packages/infernal/trunk/debian/infernal.install
trunk/packages/infernal/trunk/debian/infernal.manpages
trunk/packages/infernal/trunk/debian/patches/series
trunk/packages/infernal/trunk/debian/rules
trunk/packages/infernal/trunk/debian/watch
Log:
New upstream version.
Modified: trunk/packages/infernal/trunk/debian/changelog
===================================================================
--- trunk/packages/infernal/trunk/debian/changelog 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/changelog 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1,3 +1,14 @@
+infernal (1.1~rc2-1) unstable; urgency=low
+
+ * New upstream version - aiming to support RNAWorld BOINC project,
+ with many thanks and regards to Yoyo!
+ - cmscore no longer available
+ * Bumped policy to 3.9.4 (no changes needed)
+ - introduced hardening, with it build dep on
+ dpkg-dev (>= 1.16.1~)
+
+ -- Steffen Moeller <moeller at debian.org> Wed, 01 May 2013 20:24:17 +0200
+
infernal (1.0.2-3) UNRELEASED; urgency=low
[ Steffen Moeller ]
Modified: trunk/packages/infernal/trunk/debian/control
===================================================================
--- trunk/packages/infernal/trunk/debian/control 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/control 2013-05-02 20:17:12 UTC (rev 13471)
@@ -6,8 +6,8 @@
Uploaders: Steffen Moeller <moeller at debian.org>,
Charles Plessy <plessy at debian.org>,
Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>= 7.0.50~), autotools-dev, quilt
-Standards-Version: 3.9.3
+Build-Depends: dpkg-dev (>= 1.16.1~), debhelper (>= 7.0.50~), autotools-dev, quilt
+Standards-Version: 3.9.4
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/infernal/trunk/
Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/infernal/trunk/
Homepage: http://infernal.janelia.org/
@@ -16,9 +16,9 @@
Architecture: any
Depends: ${shlibs:Depends}, ${misc:Depends}
Description: inference of RNA secondary structural alignments
- Infernal ("INFERence of RNA ALignment") is for searching DNA sequence
- databases for RNA structure and sequence similarities. It is an
- implementation of a special case of profile stochastic context-free
+ Infernal ("INFERence of RNA ALignment") searches DNA sequence
+ databases for RNA structure and sequence similarities. It provides an
+ implementation of a special variant of profile stochastic context-free
grammars called covariance models (CMs). A CM is like a sequence
profile, but it scores a combination of sequence consensus and RNA
secondary structure consensus, so in many cases, it is more capable of
@@ -32,8 +32,8 @@
Section: doc
Depends: ${shlibs:Depends}, ${misc:Depends}
Description: inference of RNA secondary structural alignments – documentation
- Infernal ("INFERence of RNA ALignment") is for searching DNA sequence
- databases for RNA structure and sequence similarities. It is an
+ Infernal ("INFERence of RNA ALignment") searches DNA sequence
+ databases for RNA structure and sequence similarities. It provides an
implementation of a special case of profile stochastic context-free
grammars called covariance models (CMs). A CM is like a sequence
profile, but it scores a combination of sequence consensus and RNA
Modified: trunk/packages/infernal/trunk/debian/infernal.docs
===================================================================
--- trunk/packages/infernal/trunk/debian/infernal.docs 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/infernal.docs 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1,3 +1,2 @@
-00README
-00README-MPI
-documentation/release-notes/RELEASE-1.0
+README
+RELEASE-NOTES
Modified: trunk/packages/infernal/trunk/debian/infernal.install
===================================================================
--- trunk/packages/infernal/trunk/debian/infernal.install 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/infernal.install 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1,9 +1 @@
-src/cmalign usr/bin
-src/cmbuild usr/bin
-src/cmcalibrate usr/bin
-src/cmemit usr/bin
-src/cmscore usr/bin
-src/cmsearch usr/bin
-src/cmstat usr/bin
-src/trcyk usr/bin
-src/truncyk_check usr/bin
+bin/* usr/bin
Modified: trunk/packages/infernal/trunk/debian/infernal.manpages
===================================================================
--- trunk/packages/infernal/trunk/debian/infernal.manpages 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/infernal.manpages 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1 +1,3 @@
-documentation/manpages/*
+#documentation/manpages/*
+#share/man/man1/*.1
+debian/tmp/share/man/man1/*.1
Modified: trunk/packages/infernal/trunk/debian/patches/series
===================================================================
--- trunk/packages/infernal/trunk/debian/patches/series 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/patches/series 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1 +1 @@
-format_security.patch
+#format_security.patch
Modified: trunk/packages/infernal/trunk/debian/rules
===================================================================
--- trunk/packages/infernal/trunk/debian/rules 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/rules 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1,13 +1,17 @@
#!/usr/bin/make -f
# -*- makefile -*-
+export DEB_BUILD_MAINT_OPTIONS = hardening=+all
+DPKG_EXPORT_BUILDFLAGS = 1
+include /usr/share/dpkg/buildflags.mk
+
%:
dh $@ --with quilt
override_dh_auto_clean:
if [ -r Makefile ]; then $(MAKE) distclean; fi
- cd documentation/userguide; make distclean
- cd easel/documentation; make distclean
+ -cd documentation/userguide && if [ -r Makefile ]; then make distclean; fi
+ -cd easel/documentation && if [ -r Makefile ]; then make distclean; fi
dh_clean *.1 */*.log *.log */Makefile Makefile documentation/manpages/*.1
override_dh_compress :
Modified: trunk/packages/infernal/trunk/debian/watch
===================================================================
--- trunk/packages/infernal/trunk/debian/watch 2013-05-02 17:49:18 UTC (rev 13470)
+++ trunk/packages/infernal/trunk/debian/watch 2013-05-02 20:17:12 UTC (rev 13471)
@@ -1,3 +1,3 @@
version=3
opts="passive,uversionmangle=s/(rc\d+)/~$1/" \
- ftp://infernal.janelia.org/pub/software/infernal/infernal-(.*)\.tar\.gz
+ ftp://infernal.janelia.org/pub/software/infernal/infernal-([^-]*)\.tar\.gz
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