Commit fd131785 authored by Charles Plessy's avatar Charles Plessy

Added the latest version of the spec, and finished packaging.

parent 271f697c
srf for Debian
--------------
<possible notes regarding this package - if none, delete this file>
-- Charles Plessy <plessy@debian.org> Mon, 07 Jul 2008 19:06:55 +0900
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@debian.org> Tue, 25 Aug 2009 19:36:31 +0900
srf (0.1-1) UNRELEASED; urgency=low
srf (0.1+dfsg-1) UNRELEASED; urgency=low
* Initial release (Closes: #489983)
......
Source: srf
Section: science
Priority: optional
Maintainer: Debian-Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
DM-Upload-Allowed: yes
Uploaders: Charles Plessy <plessy@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 @@ Description: specification documents for the SRF format DNA sequence data
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
......
......@@ -4,9 +4,11 @@ Name : SRF
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 @@ License : Apache-2.0
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.
src/libsrf.a usr/lib
#!/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.
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
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
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
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