[med-svn] [libfreecontact-perl] 04/46: Debianization first version

Thu Sep 19 15:54:59 UTC 2013

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lkajan pushed a commit to branch master
in repository libfreecontact-perl.

commit 0cf231e8815359f0e1389a709b66866549737741
Author: Laszlo Kajan <lkajan at debian.org>
Date:   Fri May 10 18:37:58 2013 +0200

    Debianization first version
---
 .gitignore           |    8 ++++++++
 debian/Description   |   17 +++++++++++++++++
 debian/changelog     |    5 +++++
 debian/compat        |    1 +
 debian/control       |   18 ++++++++++++++++++
 debian/copyright     |   28 ++++++++++++++++++++++++++++
 debian/docs          |    1 +
 debian/examples      |    1 +
 debian/rules         |   25 +++++++++++++++++++++++++
 debian/source/format |    1 +
 debian/watch         |    4 ++++
 11 files changed, 109 insertions(+)

diff --git a/.gitignore b/.gitignore
new file mode 100644
index 0000000..95b9ad0
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1,8 @@
+*.o
+Makefile
+blib/
+debian/files
+debian/libfreecontact-perl.debhelper.log
+debian/libfreecontact-perl.substvars
+debian/libfreecontact-perl/
+pm_to_blib
diff --git a/debian/Description b/debian/Description
new file mode 100644
index 0000000..4a4cba2
--- /dev/null
+++ b/debian/Description
@@ -0,0 +1,17 @@
+FreeContact is a protein residue contact predictor optimized for speed.
+Its input is a multiple sequence alignment. FreeContact can function as an
+accelerated drop-in for the published contact predictors
+EVfold-mfDCA of DS. Marks (2011) and
+PSICOV of D. Jones (2011).
+
+FreeContact is accelerated by a combination of vector instructions, multiple
+threads, and faster implementation of key parts.
+Depending on the alignment, 10-fold or higher speedups are possible.
+
+A sufficiently large alignment is required for meaningful results.
+As a minimum, an alignment with an effective (after-weighting) sequence count
+bigger than the length of the query sequence should be used. Alignments with
+tens of thousands of (effective) sequences are considered good input.
+
+jackhmmer(1) from the hmmer package, or hhblits(1) from hhsuite
+can be used to generate the alignments, for example.
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..19728d4
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+libfreecontact-perl (0.01-1) UNRELEASED; urgency=low
+
+  * Initial release (Closes: #nnnn)
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Fri, 10 May 2013 17:56:55 +0200
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..7f8f011
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+7
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..912c64b
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,18 @@
+Source: libfreecontact-perl
+Section: perl
+Priority: extra
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Laszlo Kajan <lkajan at rostlab.org>
+Build-Depends: debhelper (>= 7.0.50~), libextutils-xspp-perl, perl
+Standards-Version: 3.9.4
+Vcs-Git: git://git.debian.org/debian-med/libfreecontact-perl.git
+Vcs-Browser: http://git.debian.org/?p=debian-med/libfreecontact-perl.git
+Homepage: http://rostlab.org/
+
+Package: libfreecontact-perl
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, ${perl:Depends}
+Description: fast protein contact predictor - binding for Perl
+ ${Description}
+ .
+ This package contains the Perl binding.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..f90eb39
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,28 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: libfreecontact-perl
+Upstream-Contact: Laszlo Kajan <lkajan at rostlab.org>
+Source: http://rostlab.org/
+
+Files: debian/*
+Copyright: 2013 Laszlo Kajan <lkajan at rostlab.org>, Technical University of Munich, Germany
+License: GPL-1+ or Artistic
+
+Files: *
+Copyright: 2012 Laszlo Kajan <lkajan at rostlab.org>, Technical University of Munich, Germany
+License: GPL-1+ or Artistic
+
+License: GPL-1+
+ This program is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 1, or (at your option)
+ any later version.
+ .
+ On Debian systems, the complete text of version 1 of the GNU General
+ Public License can be found in `/usr/share/common-licenses/GPL-1'.
+
+License: Artistic
+ This program is free software; you can redistribute it and/or modify
+ it under the terms of the Artistic License, which comes with Perl.
+ .
+ On Debian systems, the complete text of the Artistic License can be
+ found in `/usr/share/common-licenses/Artistic'.
diff --git a/debian/docs b/debian/docs
new file mode 100644
index 0000000..e845566
--- /dev/null
+++ b/debian/docs
@@ -0,0 +1 @@
+README
diff --git a/debian/examples b/debian/examples
new file mode 100644
index 0000000..d4e7101
--- /dev/null
+++ b/debian/examples
@@ -0,0 +1 @@
+examples/*.aln
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..d8e31ce
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,25 @@
+#!/usr/bin/make -f
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+export CPPFLAGS:=$(shell dpkg-buildflags --get CPPFLAGS)
+export CFLAGS:=$(shell dpkg-buildflags --get CFLAGS)
+export CXXFLAGS:=$(shell dpkg-buildflags --get CXXFLAGS)
+export LDFLAGS:=$(shell dpkg-buildflags --get LDFLAGS)
+
+Description := $(shell sed -e ':a; N; s/\n/$${Newline}/; ta' < debian/Description)
+
+.PHONY: override_dh_auto_configure
+override_dh_auto_configure:
+	dh_auto_configure -- OPTIMIZE="$(CPPFLAGS) $(CFLAGS)" LD="$(shell perl -V::ld:) $(LDFLAGS)"
+
+.PHONY: override_dh_gencontrol
+override_dh_gencontrol:
+	dh_gencontrol -- '-VDescription=$(Description)'
+
+.PHONY: get-orig-source
+get-orig-source:
+	uscan --verbose --force-download --destdir=..
+
+%:
+	dh --parallel $@
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..f9384e9
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,4 @@
+# Compulsory line, this is a version 3 file
+version=3
+opts=passive \
+ftp://rostlab.org/free/FreeContact-([0-9.]+)\.tar\.gz debian uupdate

-- 
Alioth's /git/debian-med/git-commit-notice on /srv/git.debian.org/git/debian-med/libfreecontact-perl.git

