[med-svn] r6237 - in trunk/packages/R/r-other-bio3d/tags: . 1.1-2-1/debian
Charles Plessy
plessy at alioth.debian.org
Thu Mar 10 14:37:45 UTC 2011
Author: plessy
Date: 2011-03-10 14:37:42 +0000 (Thu, 10 Mar 2011)
New Revision: 6237
Added:
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.test
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright
Removed:
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control
trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright
Log:
[svn-buildpackage] Tagging r-other-bio3d 1.1-2-1
Deleted: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/README.Debian 2011-03-10 13:58:13 UTC (rev 6233)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian 2011-03-10 14:37:42 UTC (rev 6237)
@@ -1,26 +0,0 @@
-... and I always thought that R would not be good for protein structure
-analysis. This fine work has completely escaped my routine scanning,
-albeit being properly published in bioinformatics. Let this Debian
-packaging help its dissemination a bit.
-
-When using the package, please cite
-
- Bio3D: An R package for the comparative analysis of protein
- structures. Grant, Rodrigues, ElSawy, McCammon, Caves, (2006)
- Bioinformatics 22, 2695-2696
-
-in your publications.
-
-Concerning the packaging, it is is organised via the Debian-Med
-portal at http://debian-med.alioth.debian.org.
-
--- Steffen Moeller <moeller at debian.org> Sat, 26 Jul 2008 19:19:11 +0200
-
-
-Notes on how this package is tested.
-────────────────────────────────────
-
-After building on the maintainer's computer, this package was locally installed
-and the library loaded into R in order to confirm its integrity.
-
- -- Charles Plessy <plessy at debian.org> Thu, 25 Mar 2010 13:57:34 +0900
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/README.Debian)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.Debian 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1,17 @@
+... and I always thought that R would not be good for protein structure
+analysis. This fine work has completely escaped my routine scanning,
+albeit being properly published in bioinformatics. Let this Debian
+packaging help its dissemination a bit.
+
+When using the package, please cite
+
+ Bio3D: An R package for the comparative analysis of protein
+ structures. Grant, Rodrigues, ElSawy, McCammon, Caves, (2006)
+ Bioinformatics 22, 2695-2696
+
+in your publications.
+
+Concerning the packaging, it is is organised via the Debian-Med
+portal at http://debian-med.alioth.debian.org.
+
+-- Steffen Moeller <moeller at debian.org> Sat, 26 Jul 2008 19:19:11 +0200
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.test (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/README.test)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.test (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/README.test 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1,7 @@
+Notes on how this package is tested.
+────────────────────────────────────
+
+After building on the maintainer's computer, this package was locally installed
+and the library loaded into R in order to confirm its integrity.
+
+ -- Charles Plessy <plessy at debian.org> Thu, 25 Mar 2010 13:57:34 +0900
Deleted: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/changelog 2011-03-10 13:58:13 UTC (rev 6233)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog 2011-03-10 14:37:42 UTC (rev 6237)
@@ -1,65 +0,0 @@
-r-other-bio3d (1.1-0-1) unstable; urgency=low
-
- * New upstream version
- * Added myself to uploaders
- * Standards-Version: 3.9.1 (no changes needed)
- * debian/copyright: more generic source location
- * debian/rules: fix cut-n-pasto in header comments
- * debian/source/format: 3.0 (quilt)
-
- -- Andreas Tille <tille at debian.org> Thu, 25 Nov 2010 14:07:10 +0100
-
-r-other-bio3d (1.0-8-1) unstable; urgency=low
-
- * New upstream release (Closes: #577386).
- * Added a tilde to the R:Depends substvar to also accept pre-release
- versions (debian/rules).
- * Allow upload by Debian Maintainers (debian/control).
- * Suggests r-cran-bigmemory, that is not yet available (debian/control).
-
- -- Charles Plessy <plessy at debian.org> Tue, 13 Apr 2010 08:19:29 +0900
-
-r-other-bio3d (1.0-7-1) unstable; urgency=low
-
- * New upstream release.
- * Incremented Standards-Version (debian/control) to reflect compliance
- with Policy 3.8.4.
- * Depend on a version equal or superior than the R upstream release that
- was used to build this package, using a R:Depends substvar
- (debian/control, debian/rules).
- * Added notes to explain how this package is tested (debian/README.Debian).
-
- -- Charles Plessy <plessy at debian.org> Thu, 25 Mar 2010 14:02:42 +0900
-
-r-other-bio3d (1.0-6-1) unstable; urgency=low
-
- * New upstream release.
- * Mended debian/watch thanks to Yan Morin (Closes: #551414).
- * Conforms to Policy 3.8.3:
- - Changed section to gnu-r (debian/control).
- - Added VCS fields (debian/control).
- - Incremented Standards-Version (debian/control).
- * Switched to Debhelper 7 (debian/control, debian/compat).
- * Depend on ${misc:Depends}, not on ${shlibs:Depends} (debian/compat).
- * Added myself to Uploaders (debian/control).
- * Added various upstream informations in debian/upstream-metadata.yaml.
- * Deleted debian/files, not needed.
- * Converted debian/copyright to experimental machine-readable format.
-
- -- Charles Plessy <plessy at debian.org> Thu, 22 Oct 2009 13:07:32 +0900
-
-r-other-bio3d (1.0-5-1.1) unstable; urgency=low
-
- * Non-maintainer upload
-
- * debian/control: Removed myself from uploaders as
- - Steffen never asked me whether I wanted to be included
- - Steffen never removed me despited repeated requests to do so
-
- -- Dirk Eddelbuettel <edd at debian.org> Sat, 29 Nov 2008 13:28:02 -0600
-
-r-other-bio3d (1.0-5-1) unstable; urgency=low
-
- * Initial release (closes: #492499).
-
- -- Steffen Moeller <moeller at debian.org> Sat, 26 Jul 2008 19:08:08 +0200
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/changelog)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/changelog 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1,74 @@
+r-other-bio3d (1.1-2-1) unstable; urgency=low
+
+ * New upstream release.
+ * Reformatted debian/copyright following DEP-5.
+ * Moved test instructions from README.Debian to README.test.
+ * Use Debhelper 8 (debian/control, debian/compat).
+
+ -- Charles Plessy <plessy at debian.org> Thu, 10 Mar 2011 23:22:05 +0900
+
+r-other-bio3d (1.1-0-1) unstable; urgency=low
+
+ * New upstream version
+ * Added myself to uploaders
+ * Standards-Version: 3.9.1 (no changes needed)
+ * debian/copyright: more generic source location
+ * debian/rules: fix cut-n-pasto in header comments
+ * debian/source/format: 3.0 (quilt)
+
+ -- Andreas Tille <tille at debian.org> Thu, 25 Nov 2010 14:07:10 +0100
+
+r-other-bio3d (1.0-8-1) unstable; urgency=low
+
+ * New upstream release (Closes: #577386).
+ * Added a tilde to the R:Depends substvar to also accept pre-release
+ versions (debian/rules).
+ * Allow upload by Debian Maintainers (debian/control).
+ * Suggests r-cran-bigmemory, that is not yet available (debian/control).
+
+ -- Charles Plessy <plessy at debian.org> Tue, 13 Apr 2010 08:19:29 +0900
+
+r-other-bio3d (1.0-7-1) unstable; urgency=low
+
+ * New upstream release.
+ * Incremented Standards-Version (debian/control) to reflect compliance
+ with Policy 3.8.4.
+ * Depend on a version equal or superior than the R upstream release that
+ was used to build this package, using a R:Depends substvar
+ (debian/control, debian/rules).
+ * Added notes to explain how this package is tested (debian/README.Debian).
+
+ -- Charles Plessy <plessy at debian.org> Thu, 25 Mar 2010 14:02:42 +0900
+
+r-other-bio3d (1.0-6-1) unstable; urgency=low
+
+ * New upstream release.
+ * Mended debian/watch thanks to Yan Morin (Closes: #551414).
+ * Conforms to Policy 3.8.3:
+ - Changed section to gnu-r (debian/control).
+ - Added VCS fields (debian/control).
+ - Incremented Standards-Version (debian/control).
+ * Switched to Debhelper 7 (debian/control, debian/compat).
+ * Depend on ${misc:Depends}, not on ${shlibs:Depends} (debian/compat).
+ * Added myself to Uploaders (debian/control).
+ * Added various upstream informations in debian/upstream-metadata.yaml.
+ * Deleted debian/files, not needed.
+ * Converted debian/copyright to experimental machine-readable format.
+
+ -- Charles Plessy <plessy at debian.org> Thu, 22 Oct 2009 13:07:32 +0900
+
+r-other-bio3d (1.0-5-1.1) unstable; urgency=low
+
+ * Non-maintainer upload
+
+ * debian/control: Removed myself from uploaders as
+ - Steffen never asked me whether I wanted to be included
+ - Steffen never removed me despited repeated requests to do so
+
+ -- Dirk Eddelbuettel <edd at debian.org> Sat, 29 Nov 2008 13:28:02 -0600
+
+r-other-bio3d (1.0-5-1) unstable; urgency=low
+
+ * Initial release (closes: #492499).
+
+ -- Steffen Moeller <moeller at debian.org> Sat, 26 Jul 2008 19:08:08 +0200
Deleted: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/compat 2011-03-10 13:58:13 UTC (rev 6233)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat 2011-03-10 14:37:42 UTC (rev 6237)
@@ -1 +0,0 @@
-7
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/compat)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/compat 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1 @@
+8
Deleted: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/control 2011-03-10 13:58:13 UTC (rev 6233)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control 2011-03-10 14:37:42 UTC (rev 6237)
@@ -1,27 +0,0 @@
-Source: r-other-bio3d
-Section: gnu-r
-Priority: optional
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-DM-Upload-Allowed: yes
-Uploaders: Steffen Moeller <moeller at debian.org>, Charles Plessy <plessy at debian.org>,
- Andreas Tille <tille at debian.org>
-Build-Depends: debhelper (>> 7), cdbs, r-base-dev
-Standards-Version: 3.9.1
-Homepage: http://mccammon.ucsd.edu/~bgrant/bio3d/
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-other-bio3d/trunk/?rev=0&sc=0
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/R/r-other-bio3d/trunk/
-
-Package: r-other-bio3d
-Architecture: all
-Depends: ${misc:Depends}, ${R:Depends}
-Suggests: r-cran-ncdf, r-cran-bigmemory, r-cran-rocr, mafft
-Description: GNU R package for biological structure analysis
- The bio3d package contains utilities to process, organize and explore
- protein structure, sequence and dynamics data. Features include the
- ability to read and write structure, sequence and dynamic trajectory
- data, perform atom summaries, atom selection, re-orientation,
- superposition, rigid core identification, clustering, torsion analysis,
- distance matrix analysis, structure and sequence conservation analysis,
- and principal component analysis (PCA). In addition, various utility
- functions are provided to enable the statistical and graphical power of
- the R environment to work with biological sequence and structural data.
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/control)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/control 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1,27 @@
+Source: r-other-bio3d
+Section: gnu-r
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+DM-Upload-Allowed: yes
+Uploaders: Steffen Moeller <moeller at debian.org>, Charles Plessy <plessy at debian.org>,
+ Andreas Tille <tille at debian.org>
+Build-Depends: debhelper (>= 8), cdbs, r-base-dev
+Standards-Version: 3.9.1
+Homepage: http://mccammon.ucsd.edu/~bgrant/bio3d/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-other-bio3d/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/R/r-other-bio3d/trunk/
+
+Package: r-other-bio3d
+Architecture: all
+Depends: ${misc:Depends}, ${R:Depends}
+Suggests: r-cran-ncdf, r-cran-bigmemory, r-cran-rocr, mafft
+Description: GNU R package for biological structure analysis
+ The bio3d package contains utilities to process, organize and explore
+ protein structure, sequence and dynamics data. Features include the
+ ability to read and write structure, sequence and dynamic trajectory
+ data, perform atom summaries, atom selection, re-orientation,
+ superposition, rigid core identification, clustering, torsion analysis,
+ distance matrix analysis, structure and sequence conservation analysis,
+ and principal component analysis (PCA). In addition, various utility
+ functions are provided to enable the statistical and graphical power of
+ the R environment to work with biological sequence and structural data.
Deleted: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright
===================================================================
--- trunk/packages/R/r-other-bio3d/trunk/debian/copyright 2011-03-10 13:58:13 UTC (rev 6233)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright 2011-03-10 14:37:42 UTC (rev 6237)
@@ -1,35 +0,0 @@
-Name : Bio3D
-Contact : Barry Grant <bgrant at mccammon.ucsd.edu>
-Source : http://mccammon.ucsd.edu/~bgrant/bio3d/download/download.html
-Copyright : Barry Grant <bgrant at mccammon.ucsd.edu>
-License : GPL-2+
-
- 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
- (at your option) any later version.
-
- This program is distributed in the hope that it will be useful,
- but WITHOUT ANY WARRANTY; without even the implied warranty of
- MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- GNU General Public License for more details.
-
- You should have received a copy of the GNU General Public License along
- with this program; if not, write to the Free Software Foundation, Inc.,
- 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
-
-On a Debian GNU/Linux system, the GPL license version 2 is included in the file
-‘/usr/share/common-licenses/GPL-2’.
-
-
-Files: debian/*
-Copyright: © 2008 Steffen Moeller <moeller at debian.org>
- © 2009 Charles Plessy <plessy at debian.org>
-License: GPL-2+
-
-This package was created by Steffen Moeller <moeller at debian.org>, based on
-work for the r-cran-rodbc package of Dirk Eddelbuettel <edd at debian.org>.
-
-The package was renamed from its upstream name 'bio3d' to 'r-other-bio3d'
-to highlight the fact that is it a package for R and in neither of the
-CRAN, OmegaHat or the BioConductor archives.
Copied: trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright (from rev 6236, trunk/packages/R/r-other-bio3d/trunk/debian/copyright)
===================================================================
--- trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright (rev 0)
+++ trunk/packages/R/r-other-bio3d/tags/1.1-2-1/debian/copyright 2011-03-10 14:37:42 UTC (rev 6237)
@@ -0,0 +1,33 @@
+Format: DEP-5
+Source: http://mccammon.ucsd.edu/~bgrant/bio3d/download/download.html
+
+Files: *
+Copyright: Barry Grant <bgrant at mccammon.ucsd.edu>
+License: GPL-2+
+ 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
+ (at your option) any later version.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License along
+ with this program; if not, write to the Free Software Foundation, Inc.,
+ 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
+Comment: On a Debian GNU/Linux system, the GPL license version 2 is included
+ in the file ‘/usr/share/common-licenses/GPL-2’.
+
+Files: debian/*
+Copyright: © 2008 Steffen Moeller <moeller at debian.org>
+ © 2009–2011 Charles Plessy <plessy at debian.org>
+License: GPL-2+
+Comment: This package was created by Steffen Moeller <moeller at debian.org>,
+ based on work for the r-cran-rodbc package of Dirk Eddelbuettel
+ <edd at debian.org>.
+ .
+ The package was renamed from its upstream name 'bio3d' to 'r-other-bio3d'
+ to highlight the fact that is it a package for R and in neither of the
+ CRAN, OmegaHat or the BioConductor archives.
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