[med-svn] r5740 - in trunk/packages: . biomaj-watcher biomaj-watcher/trunk biomaj-watcher/trunk/debian biomaj-watcher/trunk/debian/po biomaj-watcher/trunk/debian/source

olivier sallou osallou-guest at alioth.debian.org
Sat Jan 29 15:37:28 UTC 2011


Author: osallou-guest
Date: 2011-01-29 15:37:18 +0000 (Sat, 29 Jan 2011)
New Revision: 5740

Added:
   trunk/packages/biomaj-watcher/
   trunk/packages/biomaj-watcher/trunk/
   trunk/packages/biomaj-watcher/trunk/debian/
   trunk/packages/biomaj-watcher/trunk/debian/README.Debian
   trunk/packages/biomaj-watcher/trunk/debian/README.source
   trunk/packages/biomaj-watcher/trunk/debian/changelog
   trunk/packages/biomaj-watcher/trunk/debian/compat
   trunk/packages/biomaj-watcher/trunk/debian/config
   trunk/packages/biomaj-watcher/trunk/debian/control
   trunk/packages/biomaj-watcher/trunk/debian/copyright
   trunk/packages/biomaj-watcher/trunk/debian/po/
   trunk/packages/biomaj-watcher/trunk/debian/po/POTFILES.in
   trunk/packages/biomaj-watcher/trunk/debian/po/fr.po
   trunk/packages/biomaj-watcher/trunk/debian/po/templates.pot
   trunk/packages/biomaj-watcher/trunk/debian/postinst
   trunk/packages/biomaj-watcher/trunk/debian/postrm
   trunk/packages/biomaj-watcher/trunk/debian/prerm
   trunk/packages/biomaj-watcher/trunk/debian/rules
   trunk/packages/biomaj-watcher/trunk/debian/source/
   trunk/packages/biomaj-watcher/trunk/debian/source/format
   trunk/packages/biomaj-watcher/trunk/debian/templates
Log:
add debian stuff for biomaj-watcher

Added: trunk/packages/biomaj-watcher/trunk/debian/README.Debian
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/README.Debian	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/README.Debian	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,5 @@
+Biomaj-watcher for Debian
+-----------------
+
+ Biomaj watcher configuration file has been adapted to Debian file structure
+

Added: trunk/packages/biomaj-watcher/trunk/debian/README.source
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/README.source	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/README.source	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,2 @@
+
+To recreate the debian package structure, a script biomaj-watcher_deb.sh is available in packaging directory in svn structure. It copies necessary files from svn to a debian structure. For BmajWatcher, the war file must have been uploaded to a repository.

Added: trunk/packages/biomaj-watcher/trunk/debian/changelog
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/changelog	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,6 @@
+biomaj-watcher (1.0-1) unstable; urgency=low
+
+  * Initial release (Closes: #609038)
+    First Debian package
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr>  Wed, 05 Jan 2011 10:39:00 +0100

Added: trunk/packages/biomaj-watcher/trunk/debian/compat
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/compat	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1 @@
+7

Added: trunk/packages/biomaj-watcher/trunk/debian/config
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/config	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/config	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,31 @@
+#!/bin/sh -e
+
+# Source debconf library.
+. /usr/share/debconf/confmodule
+
+# admin login
+db_input critical biomaj/login || true
+db_go
+
+# admin passwd
+db_input critical biomaj/password || true
+db_go
+
+# Configure LDAP ?
+db_input critical biomaj/ldap || true
+db_go
+db_get biomaj/ldap
+if [ $RET = "true" ]; then
+	# LDAP server
+	db_input critical biomaj/ldap_server || true
+	db_go
+
+	# LDAP dn
+	db_input critical biomaj/ldap_dn || true
+	db_go
+
+	# LDAP filter
+	db_input critical biomaj/ldap_filter || true
+	db_go
+fi
+


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/config
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/biomaj-watcher/trunk/debian/control
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/control	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/control	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,20 @@
+Source: biomaj-watcher
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Olivier Sallou <olivier.sallou at irisa.fr>
+DM-Upload-Allowed: yes
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/biomaj-watcher/trunk/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/biomaj-watcher/trunk/?rev=0&sc=0
+Homepage: http://biomaj.genouest.org
+Build-Depends: debhelper (>= 7)
+Build-Depends-Indep: debconf, po-debconf
+Standards-Version: 3.9.1
+
+Package: biomaj-watcher
+Architecture: all
+Depends: openjdk-6-jdk, tomcat6, zip, biomaj (>= 1.1), debconf, ${misc:Depends}
+Description: BioMAJ web interface
+ BioMAJ watcher provide a management interface for the BiomAJ tool.
+ It runs in a web container (tomcat) and is accessible at address:
+ http://myhost:myport/BmajWatcher

Added: trunk/packages/biomaj-watcher/trunk/debian/copyright
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/copyright	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,507 @@
+Copyright: 2011 GenOuest Platform <support at genouest.org>
+Licence: CeCILL
+
+CeCILL FREE SOFTWARE LICENSE AGREEMENT
+
+    Notice
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+This Agreement is a Free Software license agreement that is the result
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+    * firstly, compliance with the principles governing the distribution
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+      users,
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+      intellectual property law, and the protection that it offers to
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+
+The authors of the CeCILL (for Ce[a] C[nrs] I[nria] L[ogiciel] L[ibre])
+license are:
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+Commissariat à l'Energie Atomique - CEA, a public scientific, technical
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+Centre National de la Recherche Scientifique - CNRS, a public scientific
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+reserved for experienced users.
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+      11.1 EXCUSABLE EVENTS
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+
+
+      11.5 LANGUAGE
+
+The Agreement is drafted in both French and English and both versions
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+
+
+    Article 12 - NEW VERSIONS OF THE AGREEMENT
+
+12.1 Any person is authorized to duplicate and distribute copies of this
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+
+    Article 13 - GOVERNING LAW AND JURISDICTION
+
+13.1 The Agreement is governed by French law. The Parties agree to
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+13.2 Failing an amicable solution within two (2) months as from their
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+
+
+Version 2.0 dated 2006-09-05.

Added: trunk/packages/biomaj-watcher/trunk/debian/po/POTFILES.in
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/po/POTFILES.in	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/po/POTFILES.in	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1 @@
+[type: gettext/rfc822deb] templates

Added: trunk/packages/biomaj-watcher/trunk/debian/po/fr.po
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/po/fr.po	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/po/fr.po	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,53 @@
+# Biomaj configuration.
+# Copyright (C) 2011 Olivier Sallou
+# This file is distributed under the same license as the PACKAGE package.
+# Olivier Sallou <olivier.sallou at irisa.fr>, 2011.
+#
+#, fuzzy
+msgid ""
+msgstr ""
+"Project-Id-Version: biomaj-watcher 1.0\n"
+"Report-Msgid-Bugs-To: biomaj-watcher at packages.debian.org\n"
+"POT-Creation-Date: 2011-01-06 14:55+0100\n"
+"PO-Revision-Date: 2011-01-06 14:55+0100\n"
+"Last-Translator: Olivier Sallou <olivier.sallou at irisa.fr>\n"
+"Language-Team: fr_FR <olivier.sallou at irisa.fr>\n"
+"MIME-Version: 1.0\n"
+"Content-Type: text/plain; charset=UTF-8\n"
+"Content-Transfer-Encoding: 8bit\n"
+
+#: ../templates:2001
+msgid "Administration interface admin login:"
+msgstr "Login de l'interface d'administration"
+
+#. Type: password
+#. Description
+#: ../templates:3001
+msgid "Administration interface admin password:"
+msgstr "Mot de passe administrateur"
+
+#. Type: boolean
+#. Description
+#: ../templates:9001
+msgid "Want to configure LDAP now ?"
+msgstr "Souhaitez vous configurer le LDAP?"
+
+#. Type: string
+#. Description
+#: ../templates:10001
+msgid "Enter LDAP server:"
+msgstr "Adresse du LDAP:"
+
+#. Type: string
+#. Description
+#: ../templates:11001
+msgid "Enter LDAP DN:"
+msgstr "DN (directory name) du LDAP:"
+
+#. Type: string
+#. Description
+#: ../templates:12001
+msgid "Enter LDAP filter (empty if not needed):"
+msgstr "Filtre pour la recherche LDAP (vide si non nécessaire):"
+
+

Added: trunk/packages/biomaj-watcher/trunk/debian/po/templates.pot
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/po/templates.pot	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/po/templates.pot	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,54 @@
+# Biomaj-watcher configuration.
+# Copyright (C) 2011 Olivier Sallou
+# This file is distributed under the same license as the PACKAGE package.
+# Olivier Sallou <olivier.sallou at irisa.fr>, 2011.
+#
+#, fuzzy
+msgid ""
+msgstr ""
+"Project-Id-Version: biomaj-watcher 1.0\n"
+"Report-Msgid-Bugs-To: biomaj-watcher at packages.debian.org\n"
+"POT-Creation-Date: 2011-01-06 14:55+0100\n"
+"PO-Revision-Date: 2011-01-06 14:55+0100\n"
+"Last-Translator: Olivier Sallou <olivier.sallou at irisa.fr>\n"
+"Language-Team: fr_FR <olivier.sallou at irisa.fr>\n"
+"MIME-Version: 1.0\n"
+"Content-Type: text/plain; charset=CHARSET\n"
+"Content-Transfer-Encoding: 8bit\n"
+
+#. Type: string
+#. Description
+#: ../templates:2001
+msgid "Administration interface admin login:"
+msgstr "Login de l'interface d'administration"
+
+#. Type: password
+#. Description
+#: ../templates:3001
+msgid "Administration interface admin password:"
+msgstr "Mot de passe administrateur"
+
+#. Type: boolean
+#. Description
+#: ../templates:9001
+msgid "Want to configure LDAP now ?"
+msgstr "Souhaitez vous configurer le LDAP?"
+
+#. Type: string
+#. Description
+#: ../templates:10001
+msgid "Enter LDAP server:"
+msgstr "Adresse du LDAP:"
+
+#. Type: string
+#. Description
+#: ../templates:11001
+msgid "Enter LDAP DN:"
+msgstr "DN (directory name) du LDAP:"
+
+#. Type: string
+#. Description
+#: ../templates:12001
+msgid "Enter LDAP filter (empty if not needed):"
+msgstr "Filtre pour la recherche LDAP (vide si non nécessaire):"
+

Added: trunk/packages/biomaj-watcher/trunk/debian/postinst
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/postinst	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/postinst	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,60 @@
+#!/bin/sh
+
+set -e
+
+# Source debconf library.
+. /usr/share/debconf/confmodule
+
+#DEBHELPER#
+
+
+biomajwatcher_root="/usr/share/biomaj-watcher"
+
+bmajconf="/etc/biomaj-watcher"
+
+bmajroot="/usr/share/biomaj"
+
+
+db_get biomaj/login
+app_login="$RET"
+db_get biomaj/password
+app_passwd="$RET"
+
+db_get biomaj/ldap
+use_ldap="$RET"
+db_get biomaj/ldap_server
+ldap_host="$RET"
+db_get biomaj/ldap_dn
+ldap_dn="$RET"
+db_get biomaj/ldap_filter
+opt_filer="$RET"
+
+# Link general.conf
+cd $biomajwatcher_root
+
+javac -d $biomajwatcher_root/bin $biomajwatcher_root/bin/WatcherConfigurator.java
+
+java -cp $biomajwatcher_root/bin WatcherConfigurator bmajroot:=$bmajroot bmajconf:=$bmajconf use_ldap:=$use_ldap ldap_host:=$ldap_host ldap_dn:=$ldap_dn opt_filter:=$opt_filter app_login:=$app_login app_passwd:=$app_passwd
+
+mkdir -p /usr/share/java/webapps/biomaj-watcher/WEB-INF/lib
+cp /usr/share/biomaj/lib/biomaj.jar /usr/share/java/webapps/biomaj-watcher/WEB-INF/lib
+
+cp /etc/biomaj-watcher/BmajWatcher*.xml /var/lib/tomcat6/conf/Catalina/localhost/
+
+TMPZIP=`mktemp -t biomaj-watcher.1.XXXXXX`
+rm $TMPZIP
+cd /usr/share/java/webapps/biomaj-watcher
+zip -r $TMPZIP *
+mv $TMPZIP /var/lib/tomcat6/webapps/BmajWatcher.war
+
+chown -R tomcat6 /etc/biomaj/db_properties
+chmod -R 775 /etc/biomaj/db_properties
+
+chown -R tomcat6 /var/log/biomaj
+chmod -R 775 /var/log/biomaj
+
+chown -R tomcat6 /var/lib/biomaj
+chmod -R 775 /var/lib/biomaj
+
+chown -R tomcat6 /var/tmp/biomaj
+chmod -R 775 /var/tmp/biomaj


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/postinst
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/biomaj-watcher/trunk/debian/postrm
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/postrm	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/postrm	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,22 @@
+#!/bin/sh
+
+set -e
+
+# Source debconf library.
+. /usr/share/debconf/confmodule
+
+#DEBHELPER#
+
+# Remove all
+if [ -e /var/lib/tomcat6/webapps/BmajWatcher.war ]; then
+    rm  /var/lib/tomcat6/webapps/BmajWatcher.war
+fi
+
+if [ -e /var/lib/tomcat6/shared/biomaj.jar ]; then
+    rm  /var/lib/tomcat6/shared/biomaj.jar
+fi
+
+if [ -e /usr/share/java/webapps/biomaj-watcher ]; then
+    rm  -rf /usr/share/java/webapps/biomaj-watcher
+fi
+


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/postrm
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/biomaj-watcher/trunk/debian/prerm
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/prerm	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/prerm	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,23 @@
+#!/bin/sh
+
+set -e
+
+# Source debconf library.
+. /usr/share/debconf/confmodule
+
+# Remove post installation created files
+
+# Remove admin credentials
+if [ -e /usr/share/biomaj/.bmajwatcherpasswd ]; then
+    rm /usr/share/biomaj/.bmajwatcherpasswd
+fi
+
+if [ -e /var/lib/tomcat6/conf/Catalina/localhost/BmajWatcher.xml ]; then
+    rm /var/lib/tomcat6/conf/Catalina/localhost/BmajWatcher.xml
+fi
+
+if [ -e /var/lib/tomcat6/conf/Catalina/localhost/BmajWatcher#logs.xml ]; then
+    rm /var/lib/tomcat6/conf/Catalina/localhost/BmajWatcher#logs.xml
+fi
+
+#DEBHELPER#


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/prerm
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/biomaj-watcher/trunk/debian/rules
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/rules	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,75 @@
+#!/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.
+#
+# Modified to make a template file for a multi-binary package with separated
+# build-arch and build-indep targets  by Bill Allombert 2001
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+# This has to be exported to make some magic below work.
+export DH_OPTIONS
+
+export ANT_HOME=/usr/share/ant
+
+build: build-stamp
+build-stamp:
+	dh_testdir
+	touch build-stamp
+
+clean:
+	dh_testdir
+	dh_testroot
+	rm -f build-stamp
+	dh_clean
+
+install: build
+	dh_testdir
+	dh_testroot
+	dh_prep
+	dh_installdirs
+
+# Compile here architecture independant files
+binary-indep: build install  biomaj-watcher
+	dh_testdir
+	dh_testroot
+
+biomaj-watcher:
+	dh_installdirs  -p$@
+	dh_install  -p$@
+	dh_install -p$@ usr/share/biomaj-watcher
+	dh_install -p$@ usr/share/java
+	dh_install -p$@ var/log/biomaj-watcher
+	dh_install -p$@ etc/biomaj-watcher
+        # Common stuff
+	dh_installdebconf  -p$@
+	dh_installdocs  -p$@
+	dh_installexamples  -p$@
+	dh_installmenu  -p$@
+	dh_installcron -p$@
+	dh_installman -p$@
+	dh_installinfo -p$@
+	dh_installchangelogs -p$@
+	dh_link -p$@
+	dh_strip -p$@
+	dh_compress -p$@
+	dh_fixperms -p$@
+	dh_installdeb -p$@
+	dh_shlibdeps -p$@
+	dh_gencontrol -p$@
+	dh_md5sums -p$@
+	dh_builddeb -p$@
+
+
+binary-arch:
+
+binary: binary-indep binary-arch
+.PHONY: build clean binary-indep binary-arch binary install
+
+


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *

Added: trunk/packages/biomaj-watcher/trunk/debian/source/format
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/source/format	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/source/format	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1 @@
+3.0 (quilt)

Added: trunk/packages/biomaj-watcher/trunk/debian/templates
===================================================================
--- trunk/packages/biomaj-watcher/trunk/debian/templates	                        (rev 0)
+++ trunk/packages/biomaj-watcher/trunk/debian/templates	2011-01-29 15:37:18 UTC (rev 5740)
@@ -0,0 +1,24 @@
+Template: biomaj/login
+Type: string
+_Description: Administration interface admin login:
+
+Template: biomaj/password
+Type: password
+_Description: Administration interface admin password:
+
+Template: biomaj/ldap
+Type: boolean
+_Description: Want to configure LDAP now ?
+
+Template: biomaj/ldap_server
+Type: string
+_Description: Enter LDAP server:
+
+Template: biomaj/ldap_dn
+Type: string
+_Description: Enter LDAP DN:
+
+Template: biomaj/ldap_filter
+Type: string
+_Description: Enter LDAP filter (empty if not needed):
+


Property changes on: trunk/packages/biomaj-watcher/trunk/debian/templates
___________________________________________________________________
Added: svn:executable
   + *




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