[med-svn] r11694 - in trunk/packages/norsnet/trunk: . debian

Tue Jul 10 14:12:23 UTC 2012

Author: mertes-guest
Date: 2012-07-10 14:12:22 +0000 (Tue, 10 Jul 2012)
New Revision: 11694

Added:
   trunk/packages/norsnet/trunk/debian/
   trunk/packages/norsnet/trunk/debian/changelog
   trunk/packages/norsnet/trunk/debian/compat
   trunk/packages/norsnet/trunk/debian/control
   trunk/packages/norsnet/trunk/debian/copyright
   trunk/packages/norsnet/trunk/debian/rules
Modified:
   trunk/packages/norsnet/trunk/
Log:
init norsnet package


Property changes on: trunk/packages/norsnet/trunk
___________________________________________________________________
Added: svn:ignore
   + tarballs
build-area


Added: trunk/packages/norsnet/trunk/debian/changelog
===================================================================

--- trunk/packages/norsnet/trunk/debian/changelog	                        (rev 0)
+++ trunk/packages/norsnet/trunk/debian/changelog	2012-07-10 14:12:22 UTC (rev 11694)
@@ -0,0 +1,76 @@
+norsnet (1.0.10) stable; urgency=low
+
+  * warning when pp-popcon is not installed
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Mon, 28 Feb 2011 18:08:50 +0100
+
+norsnet (1.0.9) stable; urgency=low
+
+  * bugzilla link corrected
+  * pp-popularity-contest
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Fri, 18 Feb 2011 16:56:41 +0100
+
+norsnet (1.0.8) stable; urgency=low
+
+  * createDataFile.pl too restrictive regexp bug fixed
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Thu, 13 Jan 2011 15:10:44 +0100
+
+norsnet (1.0.7-1) stable; urgency=low
+
+  * New upstream release
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Wed, 30 Jun 2010 13:29:07 +0200
+
+norsnet (1.0.7)
+
+  * Silence in non-debug mode - correctly this time
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Wed, 30 Jun 2010 13:07:02 +0200
+
+norsnet (1.0.6)
+
+  * Silence in non-debug mode
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Thu, 17 Jun 2010 20:32:58 +0200
+
+norsnet (1.0.5)
+
+  * Example without gzip
+  * Output mode 1 documented
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Thu, 17 Jun 2010 12:38:03 +0200
+
+norsnet (1.0.4)
+
+  * Fixed __pkgdatadir__ paths
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Tue, 16 Mar 2010 17:55:41 +0100
+
+norsnet (1.0.3)
+
+  * Fixed version, this actually produces results
+  * Now calls profnet_norsnet and not profnet_bval
+  * Fixed mode 6 issue - there is only mode 1, 2 and 3
+  * Introduced automake + autoconf
+
+ -- Laszlo Kajan <lkajan at rostlab.org>  Tue, 16 Mar 2010 17:55:41 +0100
+
+norsnet (1.0.2)
+
+  * Minor revision.
+
+ -- Guy Yachdav <gyahcdav at rostlab.org>  Thu, 10 Dec 2009 22:57:15 +0100
+
+norsnet (1.0.1)
+
+  * Minor revision.
+
+ -- Guy Yachdav <gyahcdav at rostlab.org>  Thu, 10 Dec 2009 22:40:15 +0100
+
+norsnet (1.0.0)
+
+  * Initial version.
+
+ -- Guy Yachdav <gyahcdav at rostlab.org>  Thu, 10 Dec 2009 22:32:15 +0100

Added: trunk/packages/norsnet/trunk/debian/compat
===================================================================
--- trunk/packages/norsnet/trunk/debian/compat	                        (rev 0)
+++ trunk/packages/norsnet/trunk/debian/compat	2012-07-10 14:12:22 UTC (rev 11694)
@@ -0,0 +1 @@
+7

Added: trunk/packages/norsnet/trunk/debian/control
===================================================================
--- trunk/packages/norsnet/trunk/debian/control	                        (rev 0)
+++ trunk/packages/norsnet/trunk/debian/control	2012-07-10 14:12:22 UTC (rev 11694)
@@ -0,0 +1,22 @@
+Source: norsnet
+Section: science
+Priority: extra
+Maintainer: Guy Yachdav <gyachdav at rostlab.org>
+Uploaders: Laszlo Kajan <lkajan at rostlab.org>
+Build-Depends: debhelper (>= 7)
+Standards-Version: 3.9.1
+Homepage: http://rostlab.org/
+
+Package: norsnet
+Architecture: all
+Depends: ${shlibs:Depends}, ${misc:Depends}, profnet-norsnet
+Recommends: pp-popularity-contest, profphd, profbval
+Description: identifies unstructured loops from sequence
+ NORSnet was trained to distinguish between very long contiguous segments with
+ non-regular secondary structure (NORS regions) and well-folded proteins.
+ NORSnet was trained on predicted information rather than on experimental data.
+ Therefore, it was optimized on a large data, which is not biased by today's
+ experimental means of capturing disorder. Thus, NORSnet reached into regions
+ in sequence space that are not covered by the specialized disorder predictors.
+ One disadvantage of this approach is that it is not optimal for the
+ identification of the "average" disordered region.

Added: trunk/packages/norsnet/trunk/debian/copyright
===================================================================
--- trunk/packages/norsnet/trunk/debian/copyright	                        (rev 0)
+++ trunk/packages/norsnet/trunk/debian/copyright	2012-07-10 14:12:22 UTC (rev 11694)
@@ -0,0 +1,47 @@
+This package was debianized by Guy Yachdav <gyachdav at rostlab.org> on
+Mon, 14 Dec 2009 16:13:56 +0100.
+
+Upstream Authors:
+
+    A. Schlessinger <avnersch at gmail.com>
+
+Copyright:
+
+    Copyright © 2009 Burkhard Rost <rost at rostlab.org>
+
+License:
+
+    NON COMMERCIAL SOFTWARE LICENSE AGREEMENT
+    
+    1. GENERAL.
+    
+    THE TERMS OF THIS LICENSE APPLY TO NON-PROFIT ORGANZIATIONS AND USERS WHO ARE EMPLOYEES OF NON-PROFIT ORGANIZAIONS. FOR PROFIT ORGANIZATION AND INDIVIDIAL USERS SHOULD CONTACT L<info at bio-sof.com> TO OBTAIN A COMMERCIAL LICENSE
+    
+    2. OWNERSHIP OF LICENSED PRODUCT.
+    
+    (a) Licensee acknowledges and agrees that the ``Licensed Product'' and all copies thereof are Licensor's exclusive property.  Licensee has no rights with respect to the Licensed Product except as set forth in this Agreement, and, without limiting the generality of the foregoing, may not distribute, resell, sublicense, assign or transfer the ``Licensed Product'' or any portion thereof, or modify, decompile, disassemble or otherwise change the Licensed Software without Licensor's prior written consent.
+    
+    (b) Upon any termination, cancellation, or expiration hereof, Licensee shall immediately delete the Licensed Software from all of its computer systems and destroy any copies of the Licensed Documentation in its possession.
+    
+    3. GRANT OF LICENSE.
+    
+    a. Licensor hereby grants to Licensee, and Licensee hereby accepts, a personal, Non-exclusive and non-transferable license to Use the Licensed Software at the Licensed Site during the term hereof, and to use the Licensed Documentation during such term in support of the Use of the Licensed Software. Additionally individuals who are employees or contractors of Licensee who log into computers at the Licensed Site from their personal home or while traveling, are entitled to Use the Licensed Software at such remote locations, provided that such Use is undertaken for and on behalf of the Licensee and that such employees or contractors report directly to employees of the Licensee whose usual and regular place of work is the Licensed Site.
+    
+    b. Other than as set forth in paragraph 3(a) above, a separate license shall be required, together with the payment of additional annual license fees and charges, to use the Licensed Software at any location other than the Licensed Site. 
+    
+    4. REPRODUCTION OF LICENSED PRODUCT. 
+    
+    Licensee may reproduce the Software for Use in accordance with the terms of the limited License granted to the Licensee in Section 2.   Reproduction of the Licensed Software for any other reason is strictly prohibited.  All copies of the Software, in whole or in part, shall contain the Licensor's restrictive and proprietary notices as they appear on the copies of Software provided by Licensor. 
+    
+    5. LIMITATION OF LIABILITY.
+    
+    a. IN NO EVENT SHALL LICENSOR BE LIABLE TO LICENSEE FOR ANY INDIRECT, SPECIAL OR CONSEQUENTIAL DAMAGES OR LOST PROFITS, ARISING OUT OF OR RELATED TO THIS LICENSE AGREEMENT OR THE PERFORMANCE OR BREACH THEREOF, EVEN IF THE LICENSOR HAS BEEN ADVISED OF THE POSSIBILITY THEREOF. 
+    
+    b. IN NO EVENT SHALL LICENSOR BE LIABLE TO LICENSEE FOR ANY DAMAGES RESULTING FROM OR RELATED TO ANY FAILURE OF THE SOFTWARE PRODUCTS, INCLUDING, BUT NOT LIMITED TO LOSS OF DATA, OR DELAY OF THE LICENSOR IN THE DELIVERY OF THE LICENSED PRODUCT OR IN THE PERFORMANCE OF SERVICES UNDER THIS LICENSE AGREEMENT.
+    
+    c. IN NO EVENT SHALL LICENSEE BE LIABLE TO LICENSOR FOR ANY LOST PROFITS, LOST OPPORTUNITY COSTS OR ANY SPECIAL, INDIRECT, CONSEQUENTIAL OR INCIDENTAL DAMAGES, HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY. 
+
+The Debian packaging is (C) 2009, Guy Yachdav <gyachdav at rostlab.org> and
+is licensed under the GPL, see `/usr/share/common-licenses/GPL'.
+
+

Added: trunk/packages/norsnet/trunk/debian/rules
===================================================================
--- trunk/packages/norsnet/trunk/debian/rules	                        (rev 0)
+++ trunk/packages/norsnet/trunk/debian/rules	2012-07-10 14:12:22 UTC (rev 11694)
@@ -0,0 +1,105 @@
+#!/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
+
+
+# These are used for cross-compiling and for saving the configure script
+# from having to guess our platform (since we know it already)
+DEB_HOST_GNU_TYPE   ?= $(shell dpkg-architecture -qDEB_HOST_GNU_TYPE)
+DEB_BUILD_GNU_TYPE  ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE)
+ifneq ($(DEB_HOST_GNU_TYPE),$(DEB_BUILD_GNU_TYPE))
+CROSS= --build $(DEB_BUILD_GNU_TYPE) --host $(DEB_HOST_GNU_TYPE)
+else
+CROSS= --build $(DEB_BUILD_GNU_TYPE)
+endif
+
+
+
+config.status: configure
+	dh_testdir
+	# Add here commands to configure the package.
+ifneq "$(wildcard /usr/share/misc/config.sub)" ""
+	cp -f /usr/share/misc/config.sub config.sub
+endif
+ifneq "$(wildcard /usr/share/misc/config.guess)" ""
+	cp -f /usr/share/misc/config.guess config.guess
+endif
+	./configure $(CROSS) --prefix=/usr --mandir=\$${prefix}/share/man --infodir=\$${prefix}/share/info --sysconfdir=/etc CFLAGS="$(CFLAGS)" LDFLAGS="-Wl,-z,defs"
+
+
+build: build-stamp
+
+build-stamp:  config.status 
+	dh_testdir
+
+	# Add here commands to compile the package.
+	$(MAKE)
+	#docbook-to-man debian/norsnet.sgml > norsnet.1
+
+	touch $@
+
+clean: 
+	dh_testdir
+	dh_testroot
+	rm -f build-stamp 
+
+	# Add here commands to clean up after the build process.
+	[ ! -f Makefile ] || $(MAKE) distclean
+	rm -f config.sub config.guess
+
+	dh_clean 
+
+install: build
+	dh_testdir
+	dh_testroot
+	dh_prep
+	dh_installdirs
+
+	# Add here commands to install the package into debian/norsnet.
+	$(MAKE) DESTDIR=$(CURDIR)/debian/norsnet install
+
+
+# Build architecture-independent files here.
+binary-indep: build install
+	dh_testdir
+	dh_testroot
+	dh_installchangelogs ChangeLog
+	dh_installdocs
+	dh_installexamples
+#	dh_install
+#	dh_installmenu
+#	dh_installdebconf	
+#	dh_installlogrotate
+#	dh_installemacsen
+#	dh_installpam
+#	dh_installmime
+#	dh_python
+#	dh_installinit
+#	dh_installcron
+#	dh_installinfo
+	dh_installman
+	dh_link
+	dh_strip
+	dh_compress
+	dh_fixperms
+#	dh_perl
+#	dh_makeshlibs
+	dh_installdeb
+	dh_shlibdeps
+	dh_gencontrol
+	dh_md5sums
+	dh_builddeb
+
+# Build architecture-dependent files here.
+binary-arch: build install
+# We have nothing to do by default.
+
+binary: binary-indep binary-arch
+.PHONY: build clean binary-indep binary-arch binary install 


Property changes on: trunk/packages/norsnet/trunk/debian/rules
___________________________________________________________________
Added: svn:executable
   + *


