[med-svn] r2750 - in trunk/packages/R: . r-cran-catools r-cran-catools/trunk r-cran-catools/trunk/debian
smoe-guest at alioth.debian.org
smoe-guest at alioth.debian.org
Mon Dec 1 23:00:36 UTC 2008
Author: smoe-guest
Date: 2008-12-01 23:00:36 +0000 (Mon, 01 Dec 2008)
New Revision: 2750
Added:
trunk/packages/R/r-cran-catools/
trunk/packages/R/r-cran-catools/trunk/
trunk/packages/R/r-cran-catools/trunk/debian/
trunk/packages/R/r-cran-catools/trunk/debian/README.Debian
trunk/packages/R/r-cran-catools/trunk/debian/changelog
trunk/packages/R/r-cran-catools/trunk/debian/compat
trunk/packages/R/r-cran-catools/trunk/debian/control
trunk/packages/R/r-cran-catools/trunk/debian/copyright
trunk/packages/R/r-cran-catools/trunk/debian/rules
trunk/packages/R/r-cran-catools/trunk/debian/watch
Log:
* new upstream version
* packaging first placed under Debian-Med's hood
Added: trunk/packages/R/r-cran-catools/trunk/debian/README.Debian
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/README.Debian 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,12 @@
+The caBIO Software License was found by our FTP-Master Joerg
+for file R/zzz.R and it could be read on
+
+http://ncicb.nci.nih.gov/content/ncicblfs/mageom_JavaDocs/api/gov/nih/nci/mageom/bean/IdentifiableImpl.html
+
+Sadly, the advertising clause of that license renders this package non-free.
+Upstream was contacted and asked to review the license.
+
+Steffen
+
+ -- Sun, 06 Jul 2008 00:33:33 +0200
+
Added: trunk/packages/R/r-cran-catools/trunk/debian/changelog
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/changelog (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/changelog 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,11 @@
+catools (1.9-1) unstable; urgency=low
+
+ * New upstream version.
+
+ -- Steffen Moeller <moeller at debian.org> Mon, 01 Dec 2008 23:41:53 +0100
+
+catools (1.8-1) unstable; urgency=low
+
+ * Initial release (Closes: #487956).
+
+ -- Steffen Moeller <moeller at debian.org> Wed, 25 Jun 2008 14:29:07 +0200
Added: trunk/packages/R/r-cran-catools/trunk/debian/compat
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/compat (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/compat 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1 @@
+5
Added: trunk/packages/R/r-cran-catools/trunk/debian/control
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/control (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/control 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,22 @@
+Source: catools
+Section: math
+Priority: optional
+Maintainer: Steffen Moeller <moeller at debian.org>
+Build-Depends: debhelper (>> 4.1.0), r-base-dev (>= 2.6.2), r-cran-bitops, cdbs
+Standards-Version: 3.8.0
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-catools/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/R/r-cran-catools/trunk/
+Homepage: http://cran.r-project.org/web/packages/caTools/
+
+Package: r-cran-catools
+Architecture: any
+Depends: r-base-core (>= 2.6.2), r-cran-bitops, ${shlibs:Depends}
+Suggests: r-cran-mass, r-cran-rpart
+Description: GNU R package providing various utility functions
+ The packages features several basic utility functions including:
+ moving (rolling, running) window statistic functions, read/write for GIF
+ and ENVI binary files, fast calculation of AUC, LogitBoost classifier, base64
+ encoder/decoder, round-off error free sum and cumsum, etc.
+ .
+ This package of R programming tools for plotting data was written by
+ Jarek Tuszynski.
Added: trunk/packages/R/r-cran-catools/trunk/debian/copyright
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/copyright (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/copyright 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,96 @@
+This is the Debian GNU/Linux r-cran-gplots package of caTools, a
+package with programming tools for plotting data for GNU R. caTools was
+written and compiled by Jarek Tuszynski <jaroslaw.w.tuszynski at saic.com>.
+Parts of the code were adopted from earlier work of David Koblas.
+
+This package was created by Steffen Moeller <moeller at debian.org> following
+a template of Dirk Eddelbuettel <edd at debian.org>. The sources were
+downloaded from
+ http://cran.us.r-project.org/src/contrib/
+
+The package was renamed from its upstream name 'caTools' to
+'r-cran-catools' to fit the pattern of CRAN (and non-CRAN) packages for
+R.
+
+Copyright (C) 2005 - 2007 Jarek Tuszynski
+
+License: GPLv3
+
+On a Debian GNU/Linux system, the GPL license is included in the file
+/usr/share/common-licenses/GPL.
+
+A fraction of the code in GifTools.cpp contained the following message:
+
+ Encoding Algorithm adapted from code by Christoph Hohmann
+ found at http://members.aol.com/rf21exe/gif.htm.
+ Which was adapted from code by Michael A, Mayer
+ found at http://www.danbbs.dk/%7Edino/whirlgif/gifcode.html
+ Parts of Decoding Algorithm were adapted from code by David Koblas.
+ It had the following notice:
+ "Copyright 1990 - 1994, David Koblas. (koblas at netcom.com)
+ Permission to use, copy, modify, and distribute this software and its
+ documentation for any purpose and without fee is hereby granted, provided
+ that the above copyright notice appear in all copies and that both that
+ copyright notice and this permission notice appear in supporting
+ documentation. This software is provided "as is" without express or
+ implied warranty."
+
+The file R/zzz.R states
+
+ Written by Jarek Tuszynski. Copyright 2001-2003 SAIC.
+ Software developed in conjunction with the National Cancer Institute, and
+ distributed under "caBIO Software License" included in "COPYING" file.
+
+and albeit that COPYING file is not part of the package, an internet search found the following:
+
+ The caBIO Software License, Version 1.0 Copyright 2001 SAIC. This
+ software was developed in conjunction with the National Cancer
+ Institute, and so to the extent government employees are co-authors,
+ any rights in such works shall be subject to Title 17 of the United
+ States Code, section 105. Redistribution and use in source and binary
+ forms, with or without modification, are permitted provided that the
+ following conditions are met: 1. Redistributions of source code must
+ retain the above copyright notice, this list of conditions and the
+ disclaimer of Article 3, below. Redistributions in binary form must
+ reproduce the above copyright notice, this list of conditions and the
+ following disclaimer in the documentation and/or other materials
+ provided with the distribution. 2. The end-user documentation
+ included with the redistribution, if any, must include the following
+ acknowledgment: "This product includes software developed by
+ the SAIC and the National Cancer Institute." If no such end-user
+ documentation is to be included, this acknowledgment shall appear
+ in the software itself, wherever such third-party acknowledgments
+ normally appear. 3. The names "The National Cancer Institute",
+ "NCI" and "SAIC" must not be used to endorse or promote products
+ derived from this software. 4. This license does not authorize the
+ incorporation of this software into any proprietary programs. This
+ license does not authorize the recipient to use any trademarks owned
+ by either NCI or SAIC-Frederick. 5. THIS SOFTWARE IS PROVIDED "AS
+ IS," AND ANY EXPRESSED OR IMPLIED WARRANTIES, (INCLUDING, BUT NOT
+ LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
+ A PARTICULAR PURPOSE) ARE DISCLAIMED. IN NO EVENT SHALL THE NATIONAL
+ CANCER INSTITUTE, SAIC, OR THEIR AFFILIATES BE LIABLE FOR ANY DIRECT,
+ INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+ SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
+ HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT,
+ STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING
+ IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+ POSSIBILITY OF SUCH DAMAGE.
+
+For reference, the upstream DESCRIPTION file is included below:
+
+ Package: caTools
+ Version: 1.8
+ Date: Oct 31 2007
+ Title: Tools: moving window statistics, GIF, Base64, ROC AUC, etc.
+ Author: Jarek Tuszynski <jaroslaw.w.tuszynski at saic.com>
+ Maintainer: Jarek Tuszynski <jaroslaw.w.tuszynski at saic.com>
+ Depends: R (>= 2.2.0), bitops
+ Suggests: MASS, rpart
+ Description: Contains several basic utility functions including:
+ moving (rolling, running) window statistic functions, read/write for GIF
+ and ENVI binary files, fast calculation of AUC, LogitBoost classifier, base64
+ encoder/decoder, round-off error free sum and cumsum, etc.
+ License: GPL version 2 or later
+ Packaged: Tue Oct 9 10:43:05 2007; tuszynskij
Added: trunk/packages/R/r-cran-catools/trunk/debian/rules
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/rules (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/rules 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,9 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+# debian/rules file for the Debian/GNU Linux r-cran-gplots package
+# Copyright 2003-2006 by Dirk Eddelbuettel <edd at debian.org>
+
+include /usr/share/R/debian/r-cran.mk
+
+clean::
+ rm -f src/caTools.so
Property changes on: trunk/packages/R/r-cran-catools/trunk/debian/rules
___________________________________________________________________
Name: svn:executable
+ *
Added: trunk/packages/R/r-cran-catools/trunk/debian/watch
===================================================================
--- trunk/packages/R/r-cran-catools/trunk/debian/watch (rev 0)
+++ trunk/packages/R/r-cran-catools/trunk/debian/watch 2008-12-01 23:00:36 UTC (rev 2750)
@@ -0,0 +1,2 @@
+version=3
+http://cran.r-project.org/src/contrib/caTools_([\d.-]*)\.tar.gz
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