Author: christophgil-guest Date: 2011-11-05 21:29:40 +0000 (Sat, 05 Nov 2011) New Revision: 8432
Added: trunk/packages/neobio/trunk/debian/ trunk/packages/neobio/trunk/debian/README.Debian trunk/packages/neobio/trunk/debian/changelog trunk/packages/neobio/trunk/debian/compat trunk/packages/neobio/trunk/debian/control trunk/packages/neobio/trunk/debian/copyright trunk/packages/neobio/trunk/debian/docs trunk/packages/neobio/trunk/debian/files trunk/packages/neobio/trunk/debian/menu trunk/packages/neobio/trunk/debian/neobio.1 trunk/packages/neobio/trunk/debian/neobio.desktop trunk/packages/neobio/trunk/debian/neobio.dirs trunk/packages/neobio/trunk/debian/neobio.install trunk/packages/neobio/trunk/debian/neobio.links trunk/packages/neobio/trunk/debian/neobio.manpages trunk/packages/neobio/trunk/debian/neobio.sh trunk/packages/neobio/trunk/debian/neobio.substvars trunk/packages/neobio/trunk/debian/notNeeded/ trunk/packages/neobio/trunk/debian/notNeeded/control_by_dh_make trunk/packages/neobio/trunk/debian/notNeeded/emacsen-install.ex trunk/packages/neobio/trunk/debian/notNeeded/emacsen-remove.ex trunk/packages/neobio/trunk/debian/notNeeded/emacsen-startup.ex trunk/packages/neobio/trunk/debian/notNeeded/init.d.ex trunk/packages/neobio/trunk/debian/notNeeded/manpage.1.ex trunk/packages/neobio/trunk/debian/notNeeded/manpage.sgml.ex trunk/packages/neobio/trunk/debian/notNeeded/manpage.xml.ex trunk/packages/neobio/trunk/debian/notNeeded/menu.ex trunk/packages/neobio/trunk/debian/notNeeded/neobio.cron.d.ex trunk/packages/neobio/trunk/debian/notNeeded/neobio.default.ex trunk/packages/neobio/trunk/debian/notNeeded/neobio.doc-base.EX trunk/packages/neobio/trunk/debian/notNeeded/neobio.substvars trunk/packages/neobio/trunk/debian/notNeeded/postinst.ex trunk/packages/neobio/trunk/debian/notNeeded/postrm.ex trunk/packages/neobio/trunk/debian/notNeeded/preinst.ex trunk/packages/neobio/trunk/debian/notNeeded/prerm.ex trunk/packages/neobio/trunk/debian/notNeeded/rules_by_dh_make trunk/packages/neobio/trunk/debian/notNeeded/watch.ex trunk/packages/neobio/trunk/debian/rules trunk/packages/neobio/trunk/debian/source/ trunk/packages/neobio/trunk/debian/source/format Log: Added: trunk/packages/neobio/trunk/debian/README.Debian =================================================================== --- trunk/packages/neobio/trunk/debian/README.Debian (rev 0) +++ trunk/packages/neobio/trunk/debian/README.Debian 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,6 @@ +neobio for Debian +----------------- + +<This package is required for the package Strap. http://www.bioinformatics.org/strap/> + + -- Christoph Gille <[email protected]> Sat, 05 Nov 2011 17:25:47 +0100 Added: trunk/packages/neobio/trunk/debian/changelog =================================================================== --- trunk/packages/neobio/trunk/debian/changelog (rev 0) +++ trunk/packages/neobio/trunk/debian/changelog 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,5 @@ +neobio (1-1) unstable; urgency=low + + * Initial release (Closes: #647543) + + -- Christoph Gille <[email protected]> Sat, 05 Nov 2011 17:25:47 +0100 Added: trunk/packages/neobio/trunk/debian/compat =================================================================== --- trunk/packages/neobio/trunk/debian/compat (rev 0) +++ trunk/packages/neobio/trunk/debian/compat 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +7 Added: trunk/packages/neobio/trunk/debian/control =================================================================== --- trunk/packages/neobio/trunk/debian/control (rev 0) +++ trunk/packages/neobio/trunk/debian/control 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,17 @@ +Source: neobio +Section: science +Priority: extra +Maintainer: Christoph Gille <[email protected]> +Build-Depends: debhelper (>= 7.0.50~), openjdk-6-jdk | sun-java6-jdk +Standards-Version: 3.8.4 +Homepage: http://neobio.sourceforge.net/ + +Package: neobio +Architecture: all +Depends: openjdk-6-jre | sun-java6-jre, java-wrappers +Recommends: strap +Enhances: strap +Description: Library and graphical user interface for pairwise + sequence alignments. Implementation of the dynamic programming + methods of Needleman & Wunsch (global alignment) and Smith & Waterman + (local alignment). Added: trunk/packages/neobio/trunk/debian/copyright =================================================================== --- trunk/packages/neobio/trunk/debian/copyright (rev 0) +++ trunk/packages/neobio/trunk/debian/copyright 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,29 @@ +This work was packaged for Debian by: + + Christoph Gille <[email protected]> on Sat, 05 Nov 2011 17:25:47 +0100 + +It was downloaded from: + + http://neobio.sourceforge.net/ + +Upstream Author(s): + + Sergio Anibal de Carvalho Junior, [email protected] + + +Copyright: + + (C) 2003 Sergio Anibal de Carvalho Junior + +License: + + GPL + +The Debian packaging is: + + Copyright (C) 2011 Christoph Gille <[email protected]> + + +and is licensed under the GPL version 3, +see "/usr/share/common-licenses/GPL-3". + Added: trunk/packages/neobio/trunk/debian/docs =================================================================== --- trunk/packages/neobio/trunk/debian/docs (rev 0) +++ trunk/packages/neobio/trunk/debian/docs 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +doc/ Added: trunk/packages/neobio/trunk/debian/files =================================================================== --- trunk/packages/neobio/trunk/debian/files (rev 0) +++ trunk/packages/neobio/trunk/debian/files 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,8 @@ +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra +neobio_1-1_all.deb science extra Added: trunk/packages/neobio/trunk/debian/menu =================================================================== --- trunk/packages/neobio/trunk/debian/menu (rev 0) +++ trunk/packages/neobio/trunk/debian/menu 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,7 @@ +?package(seaview):\ + needs="X11"\ + section="Applications/Science/Biology"\ + hints="Sequence alignment"\ + longtitle="Neobio: sequence alignment computation"\ + title="Neobio"\ + command="/usr/bin/neobio" Added: trunk/packages/neobio/trunk/debian/neobio.1 =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.1 (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.1 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,29 @@ +.TH NEOBIO 1 "October 30, 2011" + +.SH NAME + +neobio \- Pairwise Amino acid sequence and nucleotide sequence alignment in Java +.SH SYNOPSIS +.B neobio +.br +.SH DESCRIPTION + +A graphical user interface is opened. Two amino acid or nucleotide +sequences are entered by the user. The program aligns them +automatically. + +.SH OPTIONS +none + +.SH SEE ALSO + +.BR clustalw (1) +.BR mafft (1) +.BR strap (1) +.BR seaview (1) + +.SH AUTHOR +neobio was written by Sergio Anibal de Carvalho Junior. +.PP +This manual page was written by Christoph Gille <[email protected]>, +for the Debian project and may be used by others. Added: trunk/packages/neobio/trunk/debian/neobio.desktop =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.desktop (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.desktop 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,9 @@ +[Desktop Entry] +Version=1.0 +Name=Sequence alignments neobio +Exec=/usr/bin/neobio +Terminal=false +Type=Application +Categories=Education;Science;Chemistry; +GenericName=neobio +Comment= Added: trunk/packages/neobio/trunk/debian/neobio.dirs =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.dirs (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.dirs 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,3 @@ +usr/share/java +usr/bin + Added: trunk/packages/neobio/trunk/debian/neobio.install =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.install (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.install 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,3 @@ +usr/bin/neobio +usr/share/java/neobio-1.jar +usr/share/applications Added: trunk/packages/neobio/trunk/debian/neobio.links =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.links (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.links 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,2 @@ +usr/share/java/neobio-1.jar usr/share/java/neobio.jar + Added: trunk/packages/neobio/trunk/debian/neobio.manpages =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.manpages (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.manpages 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +debian/*1 Added: trunk/packages/neobio/trunk/debian/neobio.sh =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.sh (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.sh 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,5 @@ +#!/bin/sh +. /usr/lib/java-wrappers/java-wrappers.sh +find_java_runtime java6 + +exec $JAVA_HOME/bin/java -cp /usr/share/java/neobio-1.jar neobio/gui/NeoBio $* Property changes on: trunk/packages/neobio/trunk/debian/neobio.sh ___________________________________________________________________ Added: svn:executable + * Added: trunk/packages/neobio/trunk/debian/neobio.substvars =================================================================== --- trunk/packages/neobio/trunk/debian/neobio.substvars (rev 0) +++ trunk/packages/neobio/trunk/debian/neobio.substvars 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +misc:Depends= Added: trunk/packages/neobio/trunk/debian/notNeeded/control_by_dh_make =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/control_by_dh_make (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/control_by_dh_make 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,15 @@ +Source: neobio +Section: unknown +Priority: extra +Maintainer: Christoph Gille <[email protected]> +Build-Depends: debhelper (>= 7.0.50~) +Standards-Version: 3.8.4 +Homepage: <insert the upstream URL, if relevant> +#Vcs-Git: git://git.debian.org/collab-maint/neobio.git +#Vcs-Browser: http://git.debian.org/?p=collab-maint/neobio.git;a=summary + +Package: neobio +Architecture: all +Depends: ${misc:Depends} +Description: <insert up to 60 chars description> + <insert long description, indented with spaces> Added: trunk/packages/neobio/trunk/debian/notNeeded/emacsen-install.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/emacsen-install.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/emacsen-install.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,45 @@ +#! /bin/sh -e +# /usr/lib/emacsen-common/packages/install/neobio + +# Written by Jim Van Zandt <[email protected]>, borrowing heavily +# from the install scripts for gettext by Santiago Vila +# <[email protected]> and octave by Dirk Eddelbuettel <[email protected]>. + +FLAVOR=$1 +PACKAGE=neobio + +if [ ${FLAVOR} = emacs ]; then exit 0; fi + +echo install/${PACKAGE}: Handling install for emacsen flavor ${FLAVOR} + +#FLAVORTEST=`echo $FLAVOR | cut -c-6` +#if [ ${FLAVORTEST} = xemacs ] ; then +# SITEFLAG="-no-site-file" +#else +# SITEFLAG="--no-site-file" +#fi +FLAGS="${SITEFLAG} -q -batch -l path.el -f batch-byte-compile" + +ELDIR=/usr/share/emacs/site-lisp/${PACKAGE} +ELCDIR=/usr/share/${FLAVOR}/site-lisp/${PACKAGE} + +# Install-info-altdir does not actually exist. +# Maybe somebody will write it. +if test -x /usr/sbin/install-info-altdir; then + echo install/${PACKAGE}: install Info links for ${FLAVOR} + install-info-altdir --quiet --section "" "" --dirname=${FLAVOR} /usr/share/info/${PACKAGE}.info.gz +fi + +install -m 755 -d ${ELCDIR} +cd ${ELDIR} +FILES=`echo *.el` +cp ${FILES} ${ELCDIR} +cd ${ELCDIR} + +cat << EOF > path.el +(setq load-path (cons "." load-path) byte-compile-warnings nil) +EOF +${FLAVOR} ${FLAGS} ${FILES} +rm -f *.el path.el + +exit 0 Added: trunk/packages/neobio/trunk/debian/notNeeded/emacsen-remove.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/emacsen-remove.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/emacsen-remove.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,15 @@ +#!/bin/sh -e +# /usr/lib/emacsen-common/packages/remove/neobio + +FLAVOR=$1 +PACKAGE=neobio + +if [ ${FLAVOR} != emacs ]; then + if test -x /usr/sbin/install-info-altdir; then + echo remove/${PACKAGE}: removing Info links for ${FLAVOR} + install-info-altdir --quiet --remove --dirname=${FLAVOR} /usr/share/info/neobio.info.gz + fi + + echo remove/${PACKAGE}: purging byte-compiled files for ${FLAVOR} + rm -rf /usr/share/${FLAVOR}/site-lisp/${PACKAGE} +fi Added: trunk/packages/neobio/trunk/debian/notNeeded/emacsen-startup.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/emacsen-startup.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/emacsen-startup.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,25 @@ +;; -*-emacs-lisp-*- +;; +;; Emacs startup file, e.g. /etc/emacs/site-start.d/50neobio.el +;; for the Debian neobio package +;; +;; Originally contributed by Nils Naumann <[email protected]> +;; Modified by Dirk Eddelbuettel <[email protected]> +;; Adapted for dh-make by Jim Van Zandt <[email protected]> + +;; The neobio package follows the Debian/GNU Linux 'emacsen' policy and +;; byte-compiles its elisp files for each 'emacs flavor' (emacs19, +;; xemacs19, emacs20, xemacs20...). The compiled code is then +;; installed in a subdirectory of the respective site-lisp directory. +;; We have to add this to the load-path: +(let ((package-dir (concat "/usr/share/" + (symbol-name flavor) + "/site-lisp/neobio"))) +;; If package-dir does not exist, the neobio package must have +;; removed but not purged, and we should skip the setup. + (when (file-directory-p package-dir) + (setq load-path (cons package-dir load-path)) + (autoload 'neobio-mode "neobio-mode" + "Major mode for editing neobio files." t) + (add-to-list 'auto-mode-alist '("\\.neobio$" . neobio-mode)))) + Added: trunk/packages/neobio/trunk/debian/notNeeded/init.d.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/init.d.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/init.d.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,154 @@ +#!/bin/sh +### BEGIN INIT INFO +# Provides: neobio +# Required-Start: $network $local_fs +# Required-Stop: +# Default-Start: 2 3 4 5 +# Default-Stop: 0 1 6 +# Short-Description: <Enter a short description of the sortware> +# Description: <Enter a long description of the software> +# <...> +# <...> +### END INIT INFO + +# Author: Christoph Gille <[email protected]> + +# PATH should only include /usr/* if it runs after the mountnfs.sh script +PATH=/sbin:/usr/sbin:/bin:/usr/bin +DESC=neobio # Introduce a short description here +NAME=neobio # Introduce the short server's name here +DAEMON=/usr/sbin/neobio # Introduce the server's location here +DAEMON_ARGS="" # Arguments to run the daemon with +PIDFILE=/var/run/$NAME.pid +SCRIPTNAME=/etc/init.d/$NAME + +# Exit if the package is not installed +[ -x $DAEMON ] || exit 0 + +# Read configuration variable file if it is present +[ -r /etc/default/$NAME ] && . /etc/default/$NAME + +# Load the VERBOSE setting and other rcS variables +. /lib/init/vars.sh + +# Define LSB log_* functions. +# Depend on lsb-base (>= 3.0-6) to ensure that this file is present. +. /lib/lsb/init-functions + +# +# Function that starts the daemon/service +# +do_start() +{ + # Return + # 0 if daemon has been started + # 1 if daemon was already running + # 2 if daemon could not be started + start-stop-daemon --start --quiet --pidfile $PIDFILE --exec $DAEMON --test > /dev/null \ + || return 1 + start-stop-daemon --start --quiet --pidfile $PIDFILE --exec $DAEMON -- \ + $DAEMON_ARGS \ + || return 2 + # Add code here, if necessary, that waits for the process to be ready + # to handle requests from services started subsequently which depend + # on this one. As a last resort, sleep for some time. +} + +# +# Function that stops the daemon/service +# +do_stop() +{ + # Return + # 0 if daemon has been stopped + # 1 if daemon was already stopped + # 2 if daemon could not be stopped + # other if a failure occurred + start-stop-daemon --stop --quiet --retry=TERM/30/KILL/5 --pidfile $PIDFILE --name $NAME + RETVAL="$?" + [ "$RETVAL" = 2 ] && return 2 + # Wait for children to finish too if this is a daemon that forks + # and if the daemon is only ever run from this initscript. + # If the above conditions are not satisfied then add some other code + # that waits for the process to drop all resources that could be + # needed by services started subsequently. A last resort is to + # sleep for some time. + start-stop-daemon --stop --quiet --oknodo --retry=0/30/KILL/5 --exec $DAEMON + [ "$?" = 2 ] && return 2 + # Many daemons don't delete their pidfiles when they exit. + rm -f $PIDFILE + return "$RETVAL" +} + +# +# Function that sends a SIGHUP to the daemon/service +# +do_reload() { + # + # If the daemon can reload its configuration without + # restarting (for example, when it is sent a SIGHUP), + # then implement that here. + # + start-stop-daemon --stop --signal 1 --quiet --pidfile $PIDFILE --name $NAME + return 0 +} + +case "$1" in + start) + [ "$VERBOSE" != no ] && log_daemon_msg "Starting $DESC " "$NAME" + do_start + case "$?" in + 0|1) [ "$VERBOSE" != no ] && log_end_msg 0 ;; + 2) [ "$VERBOSE" != no ] && log_end_msg 1 ;; + esac + ;; + stop) + [ "$VERBOSE" != no ] && log_daemon_msg "Stopping $DESC" "$NAME" + do_stop + case "$?" in + 0|1) [ "$VERBOSE" != no ] && log_end_msg 0 ;; + 2) [ "$VERBOSE" != no ] && log_end_msg 1 ;; + esac + ;; + status) + status_of_proc "$DAEMON" "$NAME" && exit 0 || exit $? + ;; + #reload|force-reload) + # + # If do_reload() is not implemented then leave this commented out + # and leave 'force-reload' as an alias for 'restart'. + # + #log_daemon_msg "Reloading $DESC" "$NAME" + #do_reload + #log_end_msg $? + #;; + restart|force-reload) + # + # If the "reload" option is implemented then remove the + # 'force-reload' alias + # + log_daemon_msg "Restarting $DESC" "$NAME" + do_stop + case "$?" in + 0|1) + do_start + case "$?" in + 0) log_end_msg 0 ;; + 1) log_end_msg 1 ;; # Old process is still running + *) log_end_msg 1 ;; # Failed to start + esac + ;; + *) + # Failed to stop + log_end_msg 1 + ;; + esac + ;; + *) + #echo "Usage: $SCRIPTNAME {start|stop|restart|reload|force-reload}" >&2 + echo "Usage: $SCRIPTNAME {start|stop|status|restart|force-reload}" >&2 + exit 3 + ;; +esac + +: Added: trunk/packages/neobio/trunk/debian/notNeeded/manpage.1.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/manpage.1.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/manpage.1.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,59 @@ +.\" Hey, EMACS: -*- nroff -*- +.\" First parameter, NAME, should be all caps +.\" Second parameter, SECTION, should be 1-8, maybe w/ subsection +.\" other parameters are allowed: see man(7), man(1) +.TH NEOBIO SECTION "November 5, 2011" +.\" Please adjust this date whenever revising the manpage. +.\" +.\" Some roff macros, for reference: +.\" .nh disable hyphenation +.\" .hy enable hyphenation +.\" .ad l left justify +.\" .ad b justify to both left and right margins +.\" .nf disable filling +.\" .fi enable filling +.\" .br insert line break +.\" .sp <n> insert n+1 empty lines +.\" for manpage-specific macros, see man(7) +.SH NAME +neobio \- program to do something +.SH SYNOPSIS +.B neobio +.RI [ options ] " files" ... +.br +.B bar +.RI [ options ] " files" ... +.SH DESCRIPTION +This manual page documents briefly the +.B neobio +and +.B bar +commands. +.PP +.\" TeX users may be more comfortable with the \fB<whatever>\fP and +.\" \fI<whatever>\fP escape sequences to invode bold face and italics, +.\" respectively. +\fBneobio\fP is a program that... +.SH OPTIONS +These programs follow the usual GNU command line syntax, with long +options starting with two dashes (`-'). +A summary of options is included below. +For a complete description, see the Info files. +.TP +.B \-h, \-\-help +Show summary of options. +.TP +.B \-v, \-\-version +Show version of program. +.SH SEE ALSO +.BR bar (1), +.BR baz (1). +.br +The programs are documented fully by +.IR "The Rise and Fall of a Fooish Bar" , +available via the Info system. +.SH AUTHOR +neobio was written by <upstream author>. +.PP +This manual page was written by Christoph Gille <[email protected]>, +for the Debian project (and may be used by others). Added: trunk/packages/neobio/trunk/debian/notNeeded/manpage.sgml.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/manpage.sgml.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/manpage.sgml.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,154 @@ +<!doctype refentry PUBLIC "-//OASIS//DTD DocBook V4.1//EN" [ + +<!-- Process this file with docbook-to-man to generate an nroff manual + page: `docbook-to-man manpage.sgml > manpage.1'. You may view + the manual page with: `docbook-to-man manpage.sgml | nroff -man | + less'. A typical entry in a Makefile or Makefile.am is: + +manpage.1: manpage.sgml + docbook-to-man $< > $@ + + + The docbook-to-man binary is found in the docbook-to-man package. + Please remember that if you create the nroff version in one of the + debian/rules file targets (such as build), you will need to include + docbook-to-man in your Build-Depends control field. + + --> + + <!-- Fill in your name for FIRSTNAME and SURNAME. --> + <!ENTITY dhfirstname "<firstname>FIRSTNAME</firstname>"> + <!ENTITY dhsurname "<surname>SURNAME</surname>"> + <!-- Please adjust the date whenever revising the manpage. --> + <!ENTITY dhdate "<date>November 5, 2011</date>"> + <!-- SECTION should be 1-8, maybe w/ subsection other parameters are + allowed: see man(7), man(1). --> + <!ENTITY dhsection "<manvolnum>SECTION</manvolnum>"> + <!ENTITY dhemail "<email>[email protected]</email>"> + <!ENTITY dhusername "Christoph Gille"> + <!ENTITY dhucpackage "<refentrytitle>NEOBIO</refentrytitle>"> + <!ENTITY dhpackage "neobio"> + + <!ENTITY debian "<productname>Debian</productname>"> + <!ENTITY gnu "<acronym>GNU</acronym>"> + <!ENTITY gpl "&gnu; <acronym>GPL</acronym>"> +]> + +<refentry> + <refentryinfo> + <address> + &dhemail; + </address> + <author> + &dhfirstname; + &dhsurname; + </author> + <copyright> + <year>2003</year> + <holder>&dhusername;</holder> + </copyright> + &dhdate; + </refentryinfo> + <refmeta> + &dhucpackage; + + &dhsection; + </refmeta> + <refnamediv> + <refname>&dhpackage;</refname> + + <refpurpose>program to do something</refpurpose> + </refnamediv> + <refsynopsisdiv> + <cmdsynopsis> + <command>&dhpackage;</command> + + <arg><option>-e <replaceable>this</replaceable></option></arg> + + <arg><option>--example <replaceable>that</replaceable></option></arg> + </cmdsynopsis> + </refsynopsisdiv> + <refsect1> + <title>DESCRIPTION</title> + + <para>This manual page documents briefly the + <command>&dhpackage;</command> and <command>bar</command> + commands.</para> + + <para>This manual page was written for the &debian; distribution + because the original program does not have a manual page. + Instead, it has documentation in the &gnu; + <application>Info</application> format; see below.</para> + + <para><command>&dhpackage;</command> is a program that...</para> + + </refsect1> + <refsect1> + <title>OPTIONS</title> + + <para>These programs follow the usual &gnu; command line syntax, + with long options starting with two dashes (`-'). A summary of + options is included below. For a complete description, see the + <application>Info</application> files.</para> + + <variablelist> + <varlistentry> + <term><option>-h</option> + <option>--help</option> + </term> + <listitem> + <para>Show summary of options.</para> + </listitem> + </varlistentry> + <varlistentry> + <term><option>-v</option> + <option>--version</option> + </term> + <listitem> + <para>Show version of program.</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + <refsect1> + <title>SEE ALSO</title> + + <para>bar (1), baz (1).</para> + + <para>The programs are documented fully by <citetitle>The Rise and + Fall of a Fooish Bar</citetitle> available via the + <application>Info</application> system.</para> + </refsect1> + <refsect1> + <title>AUTHOR</title> + + <para>This manual page was written by &dhusername; &dhemail; for + the &debian; system (and may be used by others). Permission is + granted to copy, distribute and/or modify this document under + the terms of the &gnu; General Public License, Version 2 any + later version published by the Free Software Foundation. + </para> + <para> + On Debian systems, the complete text of the GNU General Public + License can be found in /usr/share/common-licenses/GPL. + </para> + + </refsect1> +</refentry> + +<!-- Keep this comment at the end of the file +Local variables: +mode: sgml +sgml-omittag:t +sgml-shorttag:t +sgml-minimize-attributes:nil +sgml-always-quote-attributes:t +sgml-indent-step:2 +sgml-indent-data:t +sgml-parent-document:nil +sgml-default-dtd-file:nil +sgml-exposed-tags:nil +sgml-local-catalogs:nil +sgml-local-ecat-files:nil +End: +--> Added: trunk/packages/neobio/trunk/debian/notNeeded/manpage.xml.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/manpage.xml.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/manpage.xml.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,291 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE refentry PUBLIC "-//OASIS//DTD DocBook XML V4.5//EN" +"http://www.oasis-open.org/docbook/xml/4.5/docbookx.dtd"; [ + +<!-- + +`xsltproc -''-nonet \ + -''-param man.charmap.use.subset "0" \ + -''-param make.year.ranges "1" \ + -''-param make.single.year.ranges "1" \ + /usr/share/xml/docbook/stylesheet/docbook-xsl/manpages/docbook.xsl \ + manpage.xml' + +A manual page <package>.<section> will be generated. You may view the +manual page with: nroff -man <package>.<section> | less'. A typical entry +in a Makefile or Makefile.am is: + +DB2MAN = /usr/share/sgml/docbook/stylesheet/xsl/docbook-xsl/manpages/docbook.xsl +XP = xsltproc -''-nonet -''-param man.charmap.use.subset "0" + +manpage.1: manpage.xml + $(XP) $(DB2MAN) $< + +The xsltproc binary is found in the xsltproc package. The XSL files are in +docbook-xsl. A description of the parameters you can use can be found in the +docbook-xsl-doc-* packages. Please remember that if you create the nroff +version in one of the debian/rules file targets (such as build), you will need +to include xsltproc and docbook-xsl in your Build-Depends control field. +Alternatively use the xmlto command/package. That will also automatically +pull in xsltproc and docbook-xsl. + +Notes for using docbook2x: docbook2x-man does not automatically create the +AUTHOR(S) and COPYRIGHT sections. In this case, please add them manually as +<refsect1> ... </refsect1>. + +To disable the automatic creation of the AUTHOR(S) and COPYRIGHT sections +read /usr/share/doc/docbook-xsl/doc/manpages/authors.html. This file can be +found in the docbook-xsl-doc-html package. + +Validation can be done using: `xmllint -''-noout -''-valid manpage.xml` + +General documentation about man-pages and man-page-formatting: +man(1), man(7), http://www.tldp.org/HOWTO/Man-Page/ + +--> + + <!-- Fill in your name for FIRSTNAME and SURNAME. --> + <!ENTITY dhfirstname "FIRSTNAME"> + <!ENTITY dhsurname "SURNAME"> + <!-- dhusername could also be set to "&dhfirstname; &dhsurname;". --> + <!ENTITY dhusername "Christoph Gille"> + <!ENTITY dhemail "[email protected]"> + <!-- SECTION should be 1-8, maybe w/ subsection other parameters are + allowed: see man(7), man(1) and + http://www.tldp.org/HOWTO/Man-Page/q2.html. --> + <!ENTITY dhsection "SECTION"> + <!-- TITLE should be something like "User commands" or similar (see + http://www.tldp.org/HOWTO/Man-Page/q2.html). --> + <!ENTITY dhtitle "neobio User Manual"> + <!ENTITY dhucpackage "NEOBIO"> + <!ENTITY dhpackage "neobio"> +]> + +<refentry> + <refentryinfo> + <title>&dhtitle;</title> + <productname>&dhpackage;</productname> + <authorgroup> + <author> + <firstname>&dhfirstname;</firstname> + <surname>&dhsurname;</surname> + <contrib>Wrote this manpage for the Debian system.</contrib> + <address> + <email>&dhemail;</email> + </address> + </author> + </authorgroup> + <copyright> + <year>2007</year> + <holder>&dhusername;</holder> + </copyright> + <legalnotice> + <para>This manual page was written for the Debian system + (and may be used by others).</para> + <para>Permission is granted to copy, distribute and/or modify this + document under the terms of the GNU General Public License, + Version 2 or (at your option) any later version published by + the Free Software Foundation.</para> + <para>On Debian systems, the complete text of the GNU General Public + License can be found in + <filename>/usr/share/common-licenses/GPL</filename>.</para> + </legalnotice> + </refentryinfo> + <refmeta> + <refentrytitle>&dhucpackage;</refentrytitle> + <manvolnum>&dhsection;</manvolnum> + </refmeta> + <refnamediv> + <refname>&dhpackage;</refname> + <refpurpose>program to do something</refpurpose> + </refnamediv> + <refsynopsisdiv> + <cmdsynopsis> + <command>&dhpackage;</command> + <!-- These are several examples, how syntaxes could look --> + <arg choice="plain"><option>-e <replaceable>this</replaceable></option></arg> + <arg choice="opt"><option>--example=<parameter>that</parameter></option></arg> + <arg choice="opt"> + <group choice="req"> + <arg choice="plain"><option>-e</option></arg> + <arg choice="plain"><option>--example</option></arg> + </group> + <replaceable class="option">this</replaceable> + </arg> + <arg choice="opt"> + <group choice="req"> + <arg choice="plain"><option>-e</option></arg> + <arg choice="plain"><option>--example</option></arg> + </group> + <group choice="req"> + <arg choice="plain"><replaceable>this</replaceable></arg> + <arg choice="plain"><replaceable>that</replaceable></arg> + </group> + </arg> + </cmdsynopsis> + <cmdsynopsis> + <command>&dhpackage;</command> + <!-- Normally the help and version options make the programs stop + right after outputting the requested information. --> + <group choice="opt"> + <arg choice="plain"> + <group choice="req"> + <arg choice="plain"><option>-h</option></arg> + <arg choice="plain"><option>--help</option></arg> + </group> + </arg> + <arg choice="plain"> + <group choice="req"> + <arg choice="plain"><option>-v</option></arg> + <arg choice="plain"><option>--version</option></arg> + </group> + </arg> + </group> + </cmdsynopsis> + </refsynopsisdiv> + <refsect1 id="description"> + <title>DESCRIPTION</title> + <para>This manual page documents briefly the + <command>&dhpackage;</command> and <command>bar</command> + commands.</para> + <para>This manual page was written for the Debian distribution + because the original program does not have a manual page. + Instead, it has documentation in the GNU <citerefentry> + <refentrytitle>info</refentrytitle> + <manvolnum>1</manvolnum> + </citerefentry> format; see below.</para> + <para><command>&dhpackage;</command> is a program that...</para> + </refsect1> + <refsect1 id="options"> + <title>OPTIONS</title> + <para>The program follows the usual GNU command line syntax, + with long options starting with two dashes (`-'). A summary of + options is included below. For a complete description, see the + <citerefentry> + <refentrytitle>info</refentrytitle> + <manvolnum>1</manvolnum> + </citerefentry> files.</para> + <variablelist> + <!-- Use the variablelist.term.separator and the + variablelist.term.break.after parameters to + control the term elements. --> + <varlistentry> + <term><option>-e <replaceable>this</replaceable></option></term> + <term><option>--example=<replaceable>that</replaceable></option></term> + <listitem> + <para>Does this and that.</para> + </listitem> + </varlistentry> + <varlistentry> + <term><option>-h</option></term> + <term><option>--help</option></term> + <listitem> + <para>Show summary of options.</para> + </listitem> + </varlistentry> + <varlistentry> + <term><option>-v</option></term> + <term><option>--version</option></term> + <listitem> + <para>Show version of program.</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + <refsect1 id="files"> + <title>FILES</title> + <variablelist> + <varlistentry> + <term><filename>/etc/foo.conf</filename></term> + <listitem> + <para>The system-wide configuration file to control the + behaviour of <application>&dhpackage;</application>. See + <citerefentry> + <refentrytitle>foo.conf</refentrytitle> + <manvolnum>5</manvolnum> + </citerefentry> for further details.</para> + </listitem> + </varlistentry> + <varlistentry> + <term><filename>${HOME}/.foo.conf</filename></term> + <listitem> + <para>The per-user configuration file to control the + behaviour of <application>&dhpackage;</application>. See + <citerefentry> + <refentrytitle>foo.conf</refentrytitle> + <manvolnum>5</manvolnum> + </citerefentry> for further details.</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + <refsect1 id="environment"> + <title>ENVIONMENT</title> + <variablelist> + <varlistentry> + <term><envar>FOO_CONF</envar></term> + <listitem> + <para>If used, the defined file is used as configuration + file (see also <xref linkend="files"/>).</para> + </listitem> + </varlistentry> + </variablelist> + </refsect1> + <refsect1 id="diagnostics"> + <title>DIAGNOSTICS</title> + <para>The following diagnostics may be issued + on <filename class="devicefile">stderr</filename>:</para> + <variablelist> + <varlistentry> + <term><errortext>Bad configuration file. Exiting.</errortext></term> + <listitem> + <para>The configuration file seems to contain a broken configuration + line. Use the <option>--verbose</option> option, to get more info. + </para> + </listitem> + </varlistentry> + </variablelist> + <para><command>&dhpackage;</command> provides some return codes, that can + be used in scripts:</para> + <segmentedlist> + <segtitle>Code</segtitle> + <segtitle>Diagnostic</segtitle> + <seglistitem> + <seg><errorcode>0</errorcode></seg> + <seg>Program exited successfully.</seg> + </seglistitem> + <seglistitem> + <seg><errorcode>1</errorcode></seg> + <seg>The configuration file seems to be broken.</seg> + </seglistitem> + </segmentedlist> + </refsect1> + <refsect1 id="bugs"> + <!-- Or use this section to tell about upstream BTS. --> + <title>BUGS</title> + <para>The program is currently limited to only work + with the <package>foobar</package> library.</para> + <para>The upstreams <acronym>BTS</acronym> can be found + at <ulink url="http://bugzilla.foo.tld"/>.</para> + </refsect1> + <refsect1 id="see_also"> + <title>SEE ALSO</title> + <!-- In alpabetical order. --> + <para><citerefentry> + <refentrytitle>bar</refentrytitle> + <manvolnum>1</manvolnum> + </citerefentry>, <citerefentry> + <refentrytitle>baz</refentrytitle> + <manvolnum>1</manvolnum> + </citerefentry>, <citerefentry> + <refentrytitle>foo.conf</refentrytitle> + <manvolnum>5</manvolnum> + </citerefentry></para> + <para>The programs are documented fully by <citetitle>The Rise and + Fall of a Fooish Bar</citetitle> available via the <citerefentry> + <refentrytitle>info</refentrytitle> + <manvolnum>1</manvolnum> + </citerefentry> system.</para> + </refsect1> +</refentry> + Added: trunk/packages/neobio/trunk/debian/notNeeded/menu.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/menu.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/menu.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,2 @@ +?package(neobio):needs="X11|text|vc|wm" section="Applications/see-menu-manual"\ + title="neobio" command="/usr/bin/neobio" Added: trunk/packages/neobio/trunk/debian/notNeeded/neobio.cron.d.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/neobio.cron.d.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/neobio.cron.d.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,4 @@ +# +# Regular cron jobs for the neobio package +# +0 4 * * * root [ -x /usr/bin/neobio_maintenance ] && /usr/bin/neobio_maintenance Added: trunk/packages/neobio/trunk/debian/notNeeded/neobio.default.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/neobio.default.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/neobio.default.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,10 @@ +# Defaults for neobio initscript +# sourced by /etc/init.d/neobio +# installed at /etc/default/neobio by the maintainer scripts + +# +# This is a POSIX shell fragment +# + +# Additional options that are passed to the Daemon. +DAEMON_OPTS="" Added: trunk/packages/neobio/trunk/debian/notNeeded/neobio.doc-base.EX =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/neobio.doc-base.EX (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/neobio.doc-base.EX 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,20 @@ +Document: neobio +Title: Debian neobio Manual +Author: <insert document author here> +Abstract: This manual describes what neobio is + and how it can be used to + manage online manuals on Debian systems. +Section: unknown + +Format: debiandoc-sgml +Files: /usr/share/doc/neobio/neobio.sgml.gz + +Format: postscript +Files: /usr/share/doc/neobio/neobio.ps.gz + +Format: text +Files: /usr/share/doc/neobio/neobio.text.gz + +Format: HTML +Index: /usr/share/doc/neobio/html/index.html +Files: /usr/share/doc/neobio/html/*.html Added: trunk/packages/neobio/trunk/debian/notNeeded/neobio.substvars =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/neobio.substvars (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/neobio.substvars 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +misc:Depends= Added: trunk/packages/neobio/trunk/debian/notNeeded/postinst.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/postinst.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/postinst.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,39 @@ +#!/bin/sh +# postinst script for neobio +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * <postinst> `configure' <most-recently-configured-version> +# * <old-postinst> `abort-upgrade' <new version> +# * <conflictor's-postinst> `abort-remove' `in-favour' <package> +# <new-version> +# * <postinst> `abort-remove' +# * <deconfigured's-postinst> `abort-deconfigure' `in-favour' +# <failed-install-package> <version> `removing' +# <conflicting-package> <version> +# for details, see http://www.debian.org/doc/debian-policy/ or +# the debian-policy package + + +case "$1" in + configure) + ;; + + abort-upgrade|abort-remove|abort-deconfigure) + ;; + + *) + echo "postinst called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 Added: trunk/packages/neobio/trunk/debian/notNeeded/postrm.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/postrm.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/postrm.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,37 @@ +#!/bin/sh +# postrm script for neobio +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * <postrm> `remove' +# * <postrm> `purge' +# * <old-postrm> `upgrade' <new-version> +# * <new-postrm> `failed-upgrade' <old-version> +# * <new-postrm> `abort-install' +# * <new-postrm> `abort-install' <old-version> +# * <new-postrm> `abort-upgrade' <old-version> +# * <disappearer's-postrm> `disappear' <overwriter> +# <overwriter-version> +# for details, see http://www.debian.org/doc/debian-policy/ or +# the debian-policy package + + +case "$1" in + purge|remove|upgrade|failed-upgrade|abort-install|abort-upgrade|disappear) + ;; + + *) + echo "postrm called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 Added: trunk/packages/neobio/trunk/debian/notNeeded/preinst.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/preinst.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/preinst.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,35 @@ +#!/bin/sh +# preinst script for neobio +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * <new-preinst> `install' +# * <new-preinst> `install' <old-version> +# * <new-preinst> `upgrade' <old-version> +# * <old-preinst> `abort-upgrade' <new-version> +# for details, see http://www.debian.org/doc/debian-policy/ or +# the debian-policy package + + +case "$1" in + install|upgrade) + ;; + + abort-upgrade) + ;; + + *) + echo "preinst called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 Added: trunk/packages/neobio/trunk/debian/notNeeded/prerm.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/prerm.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/prerm.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,38 @@ +#!/bin/sh +# prerm script for neobio +# +# see: dh_installdeb(1) + +set -e + +# summary of how this script can be called: +# * <prerm> `remove' +# * <old-prerm> `upgrade' <new-version> +# * <new-prerm> `failed-upgrade' <old-version> +# * <conflictor's-prerm> `remove' `in-favour' <package> <new-version> +# * <deconfigured's-prerm> `deconfigure' `in-favour' +# <package-being-installed> <version> `removing' +# <conflicting-package> <version> +# for details, see http://www.debian.org/doc/debian-policy/ or +# the debian-policy package + + +case "$1" in + remove|upgrade|deconfigure) + ;; + + failed-upgrade) + ;; + + *) + echo "prerm called with unknown argument \`$1'" >&2 + exit 1 + ;; +esac + +# dh_installdeb will replace this with shell code automatically +# generated by other debhelper scripts. + +#DEBHELPER# + +exit 0 Added: trunk/packages/neobio/trunk/debian/notNeeded/rules_by_dh_make =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/rules_by_dh_make (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/rules_by_dh_make 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,13 @@ +#!/usr/bin/make -f +# -*- makefile -*- +# Sample debian/rules that uses debhelper. +# This file was originally written by Joey Hess and Craig Small. +# As a special exception, when this file is copied by dh-make into a +# dh-make output file, you may use that output file without restriction. +# This special exception was added by Craig Small in version 0.37 of dh-make. + +# Uncomment this to turn on verbose mode. +#export DH_VERBOSE=1 + +%: + dh $@ Property changes on: trunk/packages/neobio/trunk/debian/notNeeded/rules_by_dh_make ___________________________________________________________________ Added: svn:executable + * Added: trunk/packages/neobio/trunk/debian/notNeeded/watch.ex =================================================================== --- trunk/packages/neobio/trunk/debian/notNeeded/watch.ex (rev 0) +++ trunk/packages/neobio/trunk/debian/notNeeded/watch.ex 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,23 @@ +# Example watch control file for uscan +# Rename this file to "watch" and then you can run the "uscan" command +# to check for upstream updates and more. +# See uscan(1) for format + +# Compulsory line, this is a version 3 file +version=3 + +# Uncomment to examine a Webpage +# <Webpage URL> <string match> +#http://www.example.com/downloads.php neobio-(.*)\.tar\.gz + +# Uncomment to examine a Webserver directory +#http://www.example.com/pub/neobio-(.*)\.tar\.gz + +# Uncommment to examine a FTP server +#ftp://ftp.example.com/pub/neobio-(.*)\.tar\.gz debian uupdate + +# Uncomment to find new files on sourceforge, for devscripts >= 2.9 +# http://sf.net/neobio/neobio-(.*)\.tar\.gz + +# Uncomment to find new files on GooglePages +# http://example.googlepages.com/foo.html neobio-(.*)\.tar\.gz Added: trunk/packages/neobio/trunk/debian/rules =================================================================== --- trunk/packages/neobio/trunk/debian/rules (rev 0) +++ trunk/packages/neobio/trunk/debian/rules 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1,92 @@ +#!/usr/bin/make -f +# -*- makefile -*- + +# Uncomment this to turn on verbose mode. +#export DH_VERBOSE=1 + +SRC_TMP=$(CURDIR)/SRC_TMP +debtmp := $(CURDIR)/debian/tmp + +UVERSION=1 +VERSION=1 +ZIPF=$(CURDIR)/../neobio_$(VERSION).zip +SRC_TMP=$(CURDIR)/SRC_TMP +get-orig-source: + mkdir -p $(SRC_TMP) + [ -f $(ZIPF) ] || wget -O $(ZIPF) http://sourceforge.net/projects/neobio/files/neobio/pre-alpha/neobio.zip + cd $(SRC_TMP) && unzip $(ZIPF) && mkdir neobio-$(VERSION) && mv bin data doc src neobio-$(VERSION) + cd $(SRC_TMP) && tar cvzf ../../neobio_$(VERSION).orig.tar.gz neobio-$(VERSION) +# rm -rf $(SRC_TMP) + +config.status: + +build: build-stamp + +build-indep: build-stamp + + +build-stamp: + echo -e '\033[42m rules build-stamp \033[0m' + mkdir -p classes + javac -cp src -d classes $(shell find src -name "*.java") + cp -r bin/neobio/gui/icons classes/neobio/gui + jar -cf neobio-1.jar -C classes neobio + + +clean: + dh_testdir + dh_testroot + rm -f build-stamp + + # Add here commands to clean up after the build process. + rm neobio-1.jar + rm -r classes + rm -rf $(debtmp) + dh_clean + +install: build + dh_testdir + dh_testroot + dh_prep + dh_installdirs + + # Add here commands to install the package into debian/neobio + mkdir -p $(debtmp)/usr/share/applications + mkdir -p $(debtmp)/usr/bin + mkdir -p $(debtmp)/usr/share/java + mkdir -p $(debtmp)/usr/lib/neobio + mkdir -p $(debtmp)/usr/share/applications + mkdir -p $(debtmp)/usr/share/doc/neobio + cp -a data $(debtmp)/usr/lib/neobio/data + cp -a doc $(debtmp)/usr/share/doc/neobio + cp -a debian/neobio.sh $(debtmp)/usr/bin/neobio + cp -a neobio-1.jar $(debtmp)/usr/share/java/ + cp -a debian/neobio.desktop $(debtmp)/usr/share/applications + +# Build architecture-independent files here. +binary-arch: build install +# We have nothing to do by default. + +# Build architecture-dependent files here. +binary-indep: build install + dh_testdir + dh_testroot + dh_installchangelogs + dh_installdocs + dh_installexamples + dh_install + dh_installman + dh_link + dh_strip + dh_compress + dh_fixperms + dh_makeshlibs + dh_python2 --no-guessing-versions + dh_installdeb + dh_shlibdeps + dh_gencontrol + dh_md5sums + dh_builddeb + +binary: binary-indep binary-arch +.PHONY: build clean binary-indep binary-arch binary install Property changes on: trunk/packages/neobio/trunk/debian/rules ___________________________________________________________________ Added: svn:executable + * Added: trunk/packages/neobio/trunk/debian/source/format =================================================================== --- trunk/packages/neobio/trunk/debian/source/format (rev 0) +++ trunk/packages/neobio/trunk/debian/source/format 2011-11-05 21:29:40 UTC (rev 8432) @@ -0,0 +1 @@ +3.0 (quilt) 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