Author: sascha-guest Date: 2016-02-15 23:56:19 +0000 (Mon, 15 Feb 2016) New Revision: 21401
Added: trunk/packages/tantan/trunk/debian/README.status Removed: trunk/packages/tantan/trunk/debian/changelog trunk/packages/tantan/trunk/debian/compat trunk/packages/tantan/trunk/debian/control trunk/packages/tantan/trunk/debian/copyright trunk/packages/tantan/trunk/debian/createmanpages trunk/packages/tantan/trunk/debian/lintian-overrides trunk/packages/tantan/trunk/debian/manpages trunk/packages/tantan/trunk/debian/rules trunk/packages/tantan/trunk/debian/source/ trunk/packages/tantan/trunk/debian/tantan.1 trunk/packages/tantan/trunk/debian/upstream/ trunk/packages/tantan/trunk/debian/watch Log: migrate to Git Added: trunk/packages/tantan/trunk/debian/README.status =================================================================== --- trunk/packages/tantan/trunk/debian/README.status (rev 0) +++ trunk/packages/tantan/trunk/debian/README.status 2016-02-15 23:56:19 UTC (rev 21401) @@ -0,0 +1 @@ +This package has been migrated to Git: https://anonscm.debian.org/git/debian-med/tantan.git Deleted: trunk/packages/tantan/trunk/debian/changelog =================================================================== --- trunk/packages/tantan/trunk/debian/changelog 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/changelog 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,7 +0,0 @@ -tantan (13-1) unstable; urgency=low - - * Initial release (Closes: #793907) - * Add missing copyright holder in d/copyright - * Fix machine readable license code - - -- Sascha Steinbiss <[email protected]> Tue, 04 Aug 2015 23:24:50 +0000 Deleted: trunk/packages/tantan/trunk/debian/compat =================================================================== --- trunk/packages/tantan/trunk/debian/compat 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/compat 2016-02-15 23:56:19 UTC (rev 21401) @@ -1 +0,0 @@ -9 Deleted: trunk/packages/tantan/trunk/debian/control =================================================================== --- trunk/packages/tantan/trunk/debian/control 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/control 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,20 +0,0 @@ -Source: tantan -Section: science -Priority: optional -Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: Sascha Steinbiss <[email protected]> -Build-Depends: debhelper (>= 9) -Standards-Version: 3.9.6 -Homepage: http://www.cbrc.jp/tantan/ -Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/tantan/trunk/ -Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/tantan/trunk/ - -Package: tantan -Architecture: any -Depends: ${shlibs:Depends}, ${misc:Depends} -Description: low complexity and tandem repeat masker for biosequences - tantan is a tool to mask simple regions (low complexity and short-period tandem - repeats) in DNA, RNA, and protein sequences. The aim of tantan is to prevent - false predictions when searching for homologous regions between two sequences. - Simple repeats often align strongly to each other, causing false homology - predictions. \ No newline at end of file Deleted: trunk/packages/tantan/trunk/debian/copyright =================================================================== --- trunk/packages/tantan/trunk/debian/copyright 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/copyright 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,31 +0,0 @@ -Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ -Upstream-Name: tantan -Source: http://www.cbrc.jp/tantan/ - -Files: * -Copyright: © 2010 Martin Frith <[email protected]> - © 2008 Michiaki Hamada <[email protected]> - © Stephen Altschul <[email protected]> - © Yi-Kuo Yu <[email protected]> -License: GPL-3+ - -Files: debian/* -Copyright: © 2015 Sascha Steinbiss <[email protected]> -License: GPL-3+ - -License: GPL-3+ - 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 3 of the License, or - (at your option) any later version. - . - This program is distributed in the hope that it will be useful, - but WITHOUT ANY WARRANTY; without even the implied warranty of - MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the - GNU General Public License for more details. - . - You should have received a copy of the GNU General Public License - along with this program. If not, see <http://www.gnu.org/licenses/>. - . - On Debian Systems you can find a copy of the text of GPL version 3 - at /usr/share/common-licenses/GPL-3. Deleted: trunk/packages/tantan/trunk/debian/createmanpages =================================================================== --- trunk/packages/tantan/trunk/debian/createmanpages 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/createmanpages 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,16 +0,0 @@ -#!/bin/sh -MANDIR=debian -mkdir -p $MANDIR - -VERSION=`dpkg-parsechangelog | awk '/^Version:/ {print $2}' | sed -e 's/^[0-9]*://' -e 's/-.*//' -e 's/[+~]dfsg$//'` - -help2man --no-info --no-discard-stderr --help-option="-h" \ - --name='low complexity and tandem repeat masker for biosequences' \ - --version-string="$VERSION" tantan > $MANDIR/tantan.1 - -cat <<EOT -Please enhance the help2man output. -The following web page might be helpful in doing so: - http://liw.fi/manpages/ -EOT - Deleted: trunk/packages/tantan/trunk/debian/lintian-overrides =================================================================== --- trunk/packages/tantan/trunk/debian/lintian-overrides 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/lintian-overrides 2016-02-15 23:56:19 UTC (rev 21401) @@ -1 +0,0 @@ -tantan binary: hardening-no-fortify-functions * Deleted: trunk/packages/tantan/trunk/debian/manpages =================================================================== --- trunk/packages/tantan/trunk/debian/manpages 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/manpages 2016-02-15 23:56:19 UTC (rev 21401) @@ -1 +0,0 @@ -debian/tantan.1 Deleted: trunk/packages/tantan/trunk/debian/rules =================================================================== --- trunk/packages/tantan/trunk/debian/rules 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/rules 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,16 +0,0 @@ -#!/usr/bin/make -f -# -*- makefile -*- - -export DESTDIR=$(CURDIR)/debian/tantan/usr -export DH_ALWAYS_EXCLUDE=.gitignore - -CPPFLAGS:=$(shell dpkg-buildflags --get CPPFLAGS) -CFLAGS:=$(shell dpkg-buildflags --get CFLAGS) -CXXFLAGS:=$(shell dpkg-buildflags --get CXXFLAGS) -LDFLAGS:=$(shell dpkg-buildflags --get LDFLAGS) - -%: - dh $@ - -override_dh_auto_install: - make prefix=$(DESTDIR) install Deleted: trunk/packages/tantan/trunk/debian/tantan.1 =================================================================== --- trunk/packages/tantan/trunk/debian/tantan.1 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/tantan.1 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,58 +0,0 @@ -.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.46.4. -.TH TANTAN "1" "July 2015" "tantan 13" "User Commands" -.SH NAME -tantan \- low complexity and tandem repeat masker for biosequences -.SH SYNOPSIS -.B tantan -[\fI\,options\/\fR] \fI\,fasta-sequence-file(s)\/\fR -.SH DESCRIPTION -Find simple repeats in sequences -.SS "Options (default settings):" -.TP -\fB\-p\fR -interpret the sequences as proteins -.TP -\fB\-x\fR -letter to use for masking, instead of lowercase -.TP -\fB\-c\fR -preserve uppercase/lowercase in non\-masked regions -.TP -\fB\-m\fR -file for letter pair scores (+1/\-1, but \fB\-p\fR selects BLOSUM62) -.TP -\fB\-r\fR -probability of a repeat starting per position (0.005) -.TP -\fB\-e\fR -probability of a repeat ending per position (0.05) -.TP -\fB\-w\fR -maximum tandem repeat period to consider (100, but \fB\-p\fR selects 50) -.TP -\fB\-d\fR -probability decay per period (0.9) -.TP -\fB\-a\fR -gap existence cost (0) -.TP -\fB\-b\fR -gap extension cost (infinite: no gaps) -.TP -\fB\-s\fR -minimum repeat probability for masking (0.5) -.TP -\fB\-f\fR -output type: 0=masked sequence, 1=repeat probabilities, -.IP -2=repeat counts, 3=BED (0) -.TP -\fB\-h\fR, \fB\-\-help\fR -show help message, then exit -.TP -\fB\-\-version\fR -show version information, then exit -.SH "REPORTING BUGS" -Report bugs to: [email protected] -.br -Home page: http://www.cbrc.jp/tantan/ Deleted: trunk/packages/tantan/trunk/debian/watch =================================================================== --- trunk/packages/tantan/trunk/debian/watch 2016-02-15 19:27:48 UTC (rev 21400) +++ trunk/packages/tantan/trunk/debian/watch 2016-02-15 23:56:19 UTC (rev 21401) @@ -1,2 +0,0 @@ -version=3 -http://cbrc3.cbrc.jp/~martin/tantan/tantan-([0-9]*).zip _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
