[med-svn] r11119 - trunk/packages/R/r-cran-surveillance/trunk/debian

Thu May 31 07:48:05 UTC 2012

Author: tille
Date: 2012-05-31 07:48:05 +0000 (Thu, 31 May 2012)
New Revision: 11119

Added:
   trunk/packages/R/r-cran-surveillance/trunk/debian/README.test
   trunk/packages/R/r-cran-surveillance/trunk/debian/doc-base
Modified:
   trunk/packages/R/r-cran-surveillance/trunk/debian/changelog
   trunk/packages/R/r-cran-surveillance/trunk/debian/compat
   trunk/packages/R/r-cran-surveillance/trunk/debian/control
   trunk/packages/R/r-cran-surveillance/trunk/debian/copyright
   trunk/packages/R/r-cran-surveillance/trunk/debian/rules
Log:
  * Needs rebuild using latest R to get proper NAMESPACE
  * debian/control:
     - Standards-Version: 3.9.3 (no changes needed)
     - Build-Depends: r-base-dev (>= 2.14.2~20120222)
  * debian/rules:
     - Remove R:Depends substitution variable which is now
       included in /usr/share/R/debian/r-cran.mk
     - install manual
  * debian/README.test: explain how package can be tested
  * debian/doc-base: declare manual to doc-base
  * debian/copyright: DEP5
  * debhelper 9 (control+compat)



Added: trunk/packages/R/r-cran-surveillance/trunk/debian/README.test
===================================================================

--- trunk/packages/R/r-cran-surveillance/trunk/debian/README.test	                        (rev 0)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/README.test	2012-05-31 07:48:05 UTC (rev 11119)
@@ -0,0 +1,7 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by loading it into R with the command
+‘library(surveillance)’ in order to confirm its integrity.
+
+ -- Andreas Tille <tille at debian.org>  Thu, 31 May 2012 09:25:50 +0200

Modified: trunk/packages/R/r-cran-surveillance/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/changelog	2012-05-31 07:39:55 UTC (rev 11118)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/changelog	2012-05-31 07:48:05 UTC (rev 11119)
@@ -1,3 +1,20 @@
+r-cran-surveillance (1.2-1-4) UNRELEASED; urgency=low
+
+  * Needs rebuild using latest R to get proper NAMESPACE
+  * debian/control:
+     - Standards-Version: 3.9.3 (no changes needed)
+     - Build-Depends: r-base-dev (>= 2.14.2~20120222)
+  * debian/rules:
+     - Remove R:Depends substitution variable which is now
+       included in /usr/share/R/debian/r-cran.mk
+     - install manual
+  * debian/README.test: explain how package can be tested
+  * debian/doc-base: declare manual to doc-base
+  * debian/copyright: DEP5
+  * debhelper 9 (control+compat)
+
+ -- Andreas Tille <tille at debian.org>  Thu, 31 May 2012 09:25:50 +0200
+
 r-cran-surveillance (1.2-1-3) unstable; urgency=low
 
   * Really applied patch from Sebastian Carneiro

Modified: trunk/packages/R/r-cran-surveillance/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/compat	2012-05-31 07:39:55 UTC (rev 11118)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/compat	2012-05-31 07:48:05 UTC (rev 11119)
@@ -1 +1 @@
-8
+9

Modified: trunk/packages/R/r-cran-surveillance/trunk/debian/control
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/control	2012-05-31 07:39:55 UTC (rev 11118)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/control	2012-05-31 07:48:05 UTC (rev 11119)
@@ -5,9 +5,9 @@
 Uploaders: Andreas Tille <tille at debian.org>,
  Sebastian Carneiro <scarneiro at speedy.com.ar>
 DM-Upload-Allowed: yes
-Build-Depends: debhelper (>= 8), cdbs, r-base-dev, r-cran-xtable,  r-cran-spc,
+Build-Depends: debhelper (>= 9), cdbs, r-base-dev (>= 2.14.2~20120222), r-cran-xtable,  r-cran-spc,
  r-cran-maptools, r-cran-vcd, r-cran-msm, r-cran-mass, r-cran-colorspace, r-cran-matrix
-Standards-Version: 3.9.2
+Standards-Version: 3.9.3
 Homepage: http://surveillance.r-forge.r-project.org
 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-surveillance/trunk/
 Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/R/r-cran-surveillance/trunk/

Modified: trunk/packages/R/r-cran-surveillance/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/copyright	2012-05-31 07:39:55 UTC (rev 11118)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/copyright	2012-05-31 07:48:05 UTC (rev 11119)
@@ -1,12 +1,17 @@
-Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat
-Upstream-Author: Michael Höhle, Michaela Paul
-Packaged-By: Andreas Tille <tille at debian.org>
-Packaged-Date: Mon, 24 Nov 2008 13:12:38 +0100
-Upstream-Source: http://surveillance.r-forge.r-project.org/
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Contact: Michael Höhle <hoehle at stat.uni-muenchen.de>
+Upstream-Name: surveillance
+Source: http://surveillance.r-forge.r-project.org/
 
 Files: *
+Copyright: © 2003-2010 Michael Höhle, Michaela Paul
 License: GPL2+
-Copyright: © 2003-2008 Michael Höhle, Michaela Paul
+
+Files: debian/*
+Copyright: © 2008-2012 Andreas Tille <tille at debian.org>
+License: GPL2+
+
+License: GPL2+
  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 2 of the License, or
@@ -19,10 +24,6 @@
  .
  You should have received a copy of the GNU General Public License
  along with this program.  If not, see <http://www.gnu.org/licenses/>.
-X-Comment: On Debian systems, the complete text of the GNU Public
+ .
+ On Debian systems, the complete text of the GNU Public
  License can be found in `/usr/share/common-licenses/GPL'.
-
-Files: debian/*
-Copyright: © 2008 Andreas Tille <tille at debian.org>
-License: Same as r-cran-surveillance itelf
- (see above)

Added: trunk/packages/R/r-cran-surveillance/trunk/debian/doc-base
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/doc-base	                        (rev 0)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/doc-base	2012-05-31 07:48:05 UTC (rev 11119)
@@ -0,0 +1,20 @@
+Document: surveillance
+Title: Modeling and monitoring discrete response time series
+Author: M. Höhle with contributions from T. Correa, M. Hofmann, C. Lang, M. Paul, A. Riebler, S. Steiner and V. Wimmer
+Abstract: A package implementing statistical methods for the modeling and change-point detection
+ in time series of counts, proportions and categorical data. Focus is on outbreak detection in count
+ data time series originating from public health surveillance of infectious diseases, but
+ applications could just as well originate from environmetrics, reliability engineering,
+ econometrics or social sciences. Currently the package contains implementations typical
+ outbreak detection procedures such as Stroup et. al (1989), Farrington et al, (1996), Rossi et al.
+ (1999), Rogerson and Yamada (2001), a Bayesian approach, negative binomial CUSUM
+ methods and a detector based on generalized likelihood ratios. Furthermore, inference methods
+ for the retrospective infectious disease model in Held et al. (2005), Held et al. (2006) and Paul et
+ al. (2008) are provided. A novel CUSUM approach combining logistic and multinomial logistic
+ modelling is also included. The package contains several real-world datasets, the ability to
+ simulate outbreak data, visualize the results of the monitoring in temporal, spatial or
+ spatio-temporal fashion.
+Section: Science/Biology
+
+Format: pdf
+Files: /usr/share/doc/r-cran-surveillance/manual.pdf

Modified: trunk/packages/R/r-cran-surveillance/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-cran-surveillance/trunk/debian/rules	2012-05-31 07:39:55 UTC (rev 11118)
+++ trunk/packages/R/r-cran-surveillance/trunk/debian/rules	2012-05-31 07:48:05 UTC (rev 11119)
@@ -10,5 +10,4 @@
 
 install/$(package)::
 	chmod 644 debian/$(package)/usr/lib/R/site-library/surveillance/shapes/berlin.*
-	# Require a number equal or superior than the R version the package was built with.
-	echo "R:Depends=r-base-core (>= $(shell R --version | head -n1 | perl -ne 'print / +([0-9]\.[0-9]+\.[0-9])/')~)" >> debian/$(package).substvars
+	cp -a ..pdf debian/$(package)/usr/share/doc/$(package)/manual.pdf


