[med-svn] r3820 - trunk/packages/srf/trunk/debian
Charles Plessy
plessy at alioth.debian.org
Tue Aug 25 11:30:08 UTC 2009
Author: plessy
Date: 2009-08-25 11:30:08 +0000 (Tue, 25 Aug 2009)
New Revision: 3820
Added:
trunk/packages/srf/trunk/debian/README.source
trunk/packages/srf/trunk/debian/libsrf-dev.install
trunk/packages/srf/trunk/debian/srf-doc.doc-base
Removed:
trunk/packages/srf/trunk/debian/README.Debian
trunk/packages/srf/trunk/debian/docs
trunk/packages/srf/trunk/debian/srf.doc-base
Modified:
trunk/packages/srf/trunk/debian/changelog
trunk/packages/srf/trunk/debian/control
trunk/packages/srf/trunk/debian/copyright
trunk/packages/srf/trunk/debian/rules
trunk/packages/srf/trunk/debian/srf-doc.docs
Log:
Added the latest version of the spec, and finished packaging.
Deleted: trunk/packages/srf/trunk/debian/README.Debian
===================================================================
--- trunk/packages/srf/trunk/debian/README.Debian 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/README.Debian 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,6 +0,0 @@
-srf for Debian
---------------
-
-<possible notes regarding this package - if none, delete this file>
-
- -- Charles Plessy <plessy at debian.org> Mon, 07 Jul 2008 19:06:55 +0900
Added: trunk/packages/srf/trunk/debian/README.source
===================================================================
--- trunk/packages/srf/trunk/debian/README.source (rev 0)
+++ trunk/packages/srf/trunk/debian/README.source 2009-08-25 11:30:08 UTC (rev 3820)
@@ -0,0 +1,16 @@
+I have added the latest version of the SRF specification to this package:
+
+ - SRF_v_1_3_2_June_19th_2008-0001.pdf was downloaded from the archives of the
+ Ssrformat mailing list (http://www.bcgsc.ca/pipermail/ssrformat/2008-September/000554.html).
+
+ - SRF_v_1_3_2_June_19th_2008.doc was communicated to me by Asim Siddiqui.
+
+Since SRF_v_1_3_2_June_19th_2008.doc is the latest version, I beleive that this
+makes effectively free the PDF file SequenceReadFormat_v_1_3_1_Feb_27th_08.pdf,
+whose sources were not available in the original upstream archive.
+
+In addition, the Debian binary packages are produced after applying patches to
+the original sources. For more instruction about how to manage the patches,
+please refer to the file ‘/usr/share/doc/quilt/README.source’.
+
+ -- Charles Plessy <plessy at debian.org> Tue, 25 Aug 2009 19:36:31 +0900
Modified: trunk/packages/srf/trunk/debian/changelog
===================================================================
--- trunk/packages/srf/trunk/debian/changelog 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/changelog 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,4 +1,4 @@
-srf (0.1-1) UNRELEASED; urgency=low
+srf (0.1+dfsg-1) UNRELEASED; urgency=low
* Initial release (Closes: #489983)
Modified: trunk/packages/srf/trunk/debian/control
===================================================================
--- trunk/packages/srf/trunk/debian/control 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/control 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,23 +1,18 @@
Source: srf
Section: science
Priority: optional
-Maintainer: Debian-Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
DM-Upload-Allowed: yes
Uploaders: Charles Plessy <plessy at debian.org>
Build-Depends: cdbs, quilt, debhelper (>= 7), autotools-dev, libcurl4-gnutls-dev, libstaden-read-dev
-Standards-Version: 3.8.0
+Standards-Version: 3.8.3
Homepage: http://srf.sourceforge.net/
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/srf/trunk/?rev=0&sc=0
Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/srf/trunk/
-Package: srf
-Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}
-Description: <insert up to 60 chars description>
- <insert long description, indented with spaces>
-
Package: srf-doc
Architecture: all
+Section: doc
Depends: ${misc:Depends}
Description: specification documents for the SRF format DNA sequence data
SRF (sort for Sequence Read Format) is a generic format capable of storing
@@ -28,11 +23,11 @@
formats to reference reads without duplication of all of the read specific
information.
.
- This package contains the version 1.3 and the draft of the version
- 1.3.1 of the SRF specification.
+ This package contains the version 1.3.2 of the specification.
-Package: libsrf1
+Package: libsrf-dev
Architecture: any
+Section: libdevel
Depends: ${shlibs:Depends}, ${misc:Depends}
Description: C++ implementation of the SRF format for DNA sequence data
SRF (sort for Sequence Read Format) is a generic format capable of storing
Modified: trunk/packages/srf/trunk/debian/copyright
===================================================================
--- trunk/packages/srf/trunk/debian/copyright 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/copyright 2009-08-25 11:30:08 UTC (rev 3820)
@@ -4,9 +4,11 @@
Contact : http://www.bcgsc.ca/mailman/listinfo/ssrformat
Source : http://downloads.sourceforge.net/project/srf/srf/v0.1/srf-v0.1.tar.gz
+
Copyright : 2007, Asim Siddiqui
License : Apache-2.0
+
Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at
@@ -19,5 +21,43 @@
See the License for the specific language governing permissions and
limitations under the License.
+
On Debian systems, the complete text of the Apache license version 2 is
distributed in the file ’/usr/share/common-licenses/Apache-2.0’.
+
+
+File : src/SRF_util.cc
+Copyright : Genome Research Ltd (GRL).
+License : GRL
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions
+ are met:
+
+ * Redistributions of source code must retain the above copyright
+ notice, this list of conditions and the following disclaimer.
+
+ * 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.
+
+ * Neither the name of the Genome Research Limited nor the
+ names of its contributors may be used to endorse or promote
+ products derived from this software without specific prior
+ written permission.
+
+ THIS SOFTWARE IS PROVIDED BY GRL ``AS IS'' AND ANY EXPRESS 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 GRL 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.
+
+The upstream autor of src/SRF_util.cc confirmed in a private email that the
+current license the original program where it was taken from, the Staden
+io-lib, applies instead of the non-free statement contained in the file itself.
Deleted: trunk/packages/srf/trunk/debian/docs
===================================================================
--- trunk/packages/srf/trunk/debian/docs 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/docs 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1 +0,0 @@
-README
Added: trunk/packages/srf/trunk/debian/libsrf-dev.install
===================================================================
--- trunk/packages/srf/trunk/debian/libsrf-dev.install (rev 0)
+++ trunk/packages/srf/trunk/debian/libsrf-dev.install 2009-08-25 11:30:08 UTC (rev 3820)
@@ -0,0 +1 @@
+src/libsrf.a usr/lib
Modified: trunk/packages/srf/trunk/debian/rules
===================================================================
--- trunk/packages/srf/trunk/debian/rules 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/rules 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,9 +1,7 @@
#!/usr/bin/make -f
+DEB_COMPRESS_EXCLUDE = .pdf
+
include /usr/share/cdbs/1/rules/patchsys-quilt.mk
include /usr/share/cdbs/1/rules/debhelper.mk
include /usr/share/cdbs/1/class/autotools.mk
-
-#CXXFLAGS += -I/usr/include/io_lib
-
-# Add here any variable or target overrides you need.
Copied: trunk/packages/srf/trunk/debian/srf-doc.doc-base (from rev 3819, trunk/packages/srf/trunk/debian/srf.doc-base)
===================================================================
--- trunk/packages/srf/trunk/debian/srf-doc.doc-base (rev 0)
+++ trunk/packages/srf/trunk/debian/srf-doc.doc-base 2009-08-25 11:30:08 UTC (rev 3820)
@@ -0,0 +1,10 @@
+Document: srf
+Title: SRF specification version 1.3.2
+Author: This format has been developed as an open collaborative effort between many groups and individuals (see inside).
+Abstract:
+ This document describes a machine and technology independent format for storing
+ DNA sequence data and associated quality values.
+Section: Science/Biology
+
+Format: PDF
+Files: /usr/share/doc/srf-doc/SRF_v_1_3_2_June_19th_2008-0001.pdf
Modified: trunk/packages/srf/trunk/debian/srf-doc.docs
===================================================================
--- trunk/packages/srf/trunk/debian/srf-doc.docs 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/srf-doc.docs 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,4 +1,2 @@
-docs/SequenceReadFormat_v_1_3_1_Feb_27th_08.pdf
-docs/ShortSequenceFormatDec18th_v_1_3.doc
-docs/ShortSequenceFormatDec18th_v_1_3.pdf
-docs/ShortSequenceFormatFeb11th_v1_approved.doc
+README
+docs/SRF_v_1_3_2_June_19th_2008-0001.pdf
Deleted: trunk/packages/srf/trunk/debian/srf.doc-base
===================================================================
--- trunk/packages/srf/trunk/debian/srf.doc-base 2009-08-25 10:05:38 UTC (rev 3819)
+++ trunk/packages/srf/trunk/debian/srf.doc-base 2009-08-25 11:30:08 UTC (rev 3820)
@@ -1,22 +0,0 @@
-Document: srf
-Title: Debian srf Manual
-Author: <insert document author here>
-Abstract: This manual describes what srf is
- and how it can be used to
- manage online manuals on Debian systems.
-Section: unknown
-
-Format: debiandoc-sgml
-Files: /usr/share/doc/srf/srf.sgml.gz
-
-Format: postscript
-Files: /usr/share/doc/srf/srf.ps.gz
-
-Format: text
-Files: /usr/share/doc/srf/srf.text.gz
-
-Format: HTML
-Index: /usr/share/doc/srf/html/index.html
-Files: /usr/share/doc/srf/html/*.html
-
-
More information about the debian-med-commit
mailing list