[med-svn] r5067 - in trunk/packages/staden-io-lib/tags: . 1.12.4-1/debian
Charles Plessy
plessy at alioth.debian.org
Tue Jul 27 13:20:14 UTC 2010
Author: plessy
Date: 2010-07-27 13:20:12 +0000 (Tue, 27 Jul 2010)
New Revision: 5067
Added:
trunk/packages/staden-io-lib/tags/1.12.4-1/
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/libstaden-read1.symbols
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules
Removed:
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/endianness.patch
trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules
Log:
[svn-buildpackage] Tagging staden-io-lib 1.12.4-1
Deleted: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog
===================================================================
--- trunk/packages/staden-io-lib/trunk/debian/changelog 2010-05-26 23:09:09 UTC (rev 4847)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog 2010-07-27 13:20:12 UTC (rev 5067)
@@ -1,26 +0,0 @@
-staden-io-lib (1.12.2-2) unstable; urgency=low
-
- * Restrict staden-io-lib to i386 and amd64 platforms, which are the
- only ones where it is known to work and be used (debian/control).
- * Provide a patch for helping people interested in building this
- package on other architectures (debian/endianness.patch).
- * Incremented Standards-Version to reflect conformance with Policy 3.8.4
- (debian/control, no changes needed).
-
- -- Charles Plessy <plessy at debian.org> Sat, 22 May 2010 22:50:35 +0900
-
-staden-io-lib (1.12.2-1) unstable; urgency=low
-
- * New upstream release: extra options in srf2fastq and API changes in
- HashTable code.
- * Removed the libtool ‘.la’ library (debian/staden-read-dev.install).
- * Incremented Standards-Version to reflect conformance with Policy 3.8.3
- (no changes needed).
-
- -- Charles Plessy <plessy at debian.org> Sun, 17 Jan 2010 22:09:42 +0900
-
-staden-io-lib (1.12.1-1) unstable; urgency=low
-
- * Initial release (Closes: #530753)
-
- -- Charles Plessy <plessy at debian.org> Mon, 10 Aug 2009 23:32:59 +0900
Copied: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog (from rev 5066, trunk/packages/staden-io-lib/trunk/debian/changelog)
===================================================================
--- trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog (rev 0)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/changelog 2010-07-27 13:20:12 UTC (rev 5067)
@@ -0,0 +1,39 @@
+staden-io-lib (1.12.4-1) unstable; urgency=low
+
+ * New upstream release, with changes on endianness detection
+ (closes: #579239).
+ * Build on all architectures, (debian/control).
+ * Added library symbols file (debian/libstaden-read1.symbols).
+ * Incremented Standards-Version to reflect conformance with Policy 3.9.1
+ (debian/control, no changes needed).
+ * Moved io_lib-config from staden-io-lib-utils to libstaden-read-dev
+ (debian/rules, debian/control).
+
+ -- Charles Plessy <plessy at debian.org> Tue, 27 Jul 2010 21:07:57 +0900
+
+staden-io-lib (1.12.2-2) unstable; urgency=low
+
+ * Restrict staden-io-lib to i386 and amd64 platforms, which are the
+ only ones where it is known to work and be used (debian/control).
+ * Provide a patch for helping people interested in building this
+ package on other architectures (debian/endianness.patch).
+ * Incremented Standards-Version to reflect conformance with Policy 3.8.4
+ (debian/control, no changes needed).
+
+ -- Charles Plessy <plessy at debian.org> Sat, 22 May 2010 22:50:35 +0900
+
+staden-io-lib (1.12.2-1) unstable; urgency=low
+
+ * New upstream release: extra options in srf2fastq and API changes in
+ HashTable code.
+ * Removed the libtool ‘.la’ library (debian/staden-read-dev.install).
+ * Incremented Standards-Version to reflect conformance with Policy 3.8.3
+ (no changes needed).
+
+ -- Charles Plessy <plessy at debian.org> Sun, 17 Jan 2010 22:09:42 +0900
+
+staden-io-lib (1.12.1-1) unstable; urgency=low
+
+ * Initial release (Closes: #530753)
+
+ -- Charles Plessy <plessy at debian.org> Mon, 10 Aug 2009 23:32:59 +0900
Deleted: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control
===================================================================
--- trunk/packages/staden-io-lib/trunk/debian/control 2010-05-26 23:09:09 UTC (rev 4847)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control 2010-07-27 13:20:12 UTC (rev 5067)
@@ -1,53 +0,0 @@
-Source: staden-io-lib
-Section: science
-Priority: optional
-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:
- debhelper (>= 7), autotools-dev, zlib1g-dev
-Standards-Version: 3.8.4
-Homepage: http://staden.sourceforge.net/
-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/staden-io-lib/trunk/?rev=0&sc=0
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/staden-io-lib/trunk/
-
-Package: staden-io-lib-utils
-Architecture: i386 amd64
-Depends: ${shlibs:Depends}, ${misc:Depends}
-Description: programs for maniuplating DNA sequencing files
- The io_lib from the Staden package is a library of file reading and writing
- code to provide a general purpose trace file (and Experiment File) reading
- interface. It has been compiled and tested on a variety of unix systems,
- MacOS X and MS Windows.
- .
- This package contains the programs that are distributed with the Staden io_lib
- for manipulating and converting sequencing data files, and in particular files
- to maniuplate short reads generated by second and third generation sequencers
- and stored in SRF format.
-
-Package: libstaden-read-dev
-Section: libdevel
-Architecture: i386 amd64
-Depends: libstaden-read1 (= ${binary:Version}), ${misc:Depends}
-Description: development files for libstaden-read
- This package contains the header and development files needed to build
- programs and packages using the Staden io_lib.
- .
- The io_lib from the Staden package is a library of file reading and writing
- code to provide a general purpose trace file (and Experiment File) reading
- interface. It has been compiled and tested on a variety of unix systems,
- MacOS X and MS Windows.
-
-Package: libstaden-read1
-Section: libs
-Architecture: i386 amd64
-Depends: ${shlibs:Depends}, ${misc:Depends}
-Description: Staden library for reading and writing DNA sequencing results
- This package contains the Staden io_lib, that is renamed in Debian and
- Fedora ‘staden-read’ instead of ‘read’. This library supports various DNA
- sequence read formats, in particular SCF, ABI, ALF, CTF, ZTR, SFF and SRF.
- .
- The io_lib from the Staden package is a library of file reading and writing
- code to provide a general purpose trace file (and Experiment File) reading
- interface. It has been compiled and tested on a variety of unix systems,
- MacOS X and MS Windows.
Copied: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control (from rev 5066, trunk/packages/staden-io-lib/trunk/debian/control)
===================================================================
--- trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control (rev 0)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/control 2010-07-27 13:20:12 UTC (rev 5067)
@@ -0,0 +1,55 @@
+Source: staden-io-lib
+Section: science
+Priority: optional
+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:
+ debhelper (>= 7.0.50~), autotools-dev, zlib1g-dev
+Standards-Version: 3.9.1
+Homepage: http://staden.sourceforge.net/
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/staden-io-lib/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/staden-io-lib/trunk/
+
+Package: staden-io-lib-utils
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: programs for maniuplating DNA sequencing files
+ The io_lib from the Staden package is a library of file reading and writing
+ code to provide a general purpose trace file (and Experiment File) reading
+ interface. It has been compiled and tested on a variety of unix systems,
+ MacOS X and MS Windows.
+ .
+ This package contains the programs that are distributed with the Staden io_lib
+ for manipulating and converting sequencing data files, and in particular files
+ to maniuplate short reads generated by second and third generation sequencers
+ and stored in SRF format.
+
+Package: libstaden-read-dev
+Section: libdevel
+Architecture: any
+Depends: libstaden-read1 (= ${binary:Version}), ${misc:Depends}
+Breaks: staden-io-lib-utils (<< 1.12.4-1~)
+Replaces: staden-io-lib-utils (<< 1.12.4-1~)
+Description: development files for libstaden-read
+ This package contains the header and development files needed to build
+ programs and packages using the Staden io_lib.
+ .
+ The io_lib from the Staden package is a library of file reading and writing
+ code to provide a general purpose trace file (and Experiment File) reading
+ interface. It has been compiled and tested on a variety of unix systems,
+ MacOS X and MS Windows.
+
+Package: libstaden-read1
+Section: libs
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Description: Staden library for reading and writing DNA sequencing results
+ This package contains the Staden io_lib, that is renamed in Debian and
+ Fedora ‘staden-read’ instead of ‘read’. This library supports various DNA
+ sequence read formats, in particular SCF, ABI, ALF, CTF, ZTR, SFF and SRF.
+ .
+ The io_lib from the Staden package is a library of file reading and writing
+ code to provide a general purpose trace file (and Experiment File) reading
+ interface. It has been compiled and tested on a variety of unix systems,
+ MacOS X and MS Windows.
Deleted: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright
===================================================================
--- trunk/packages/staden-io-lib/trunk/debian/copyright 2010-05-26 23:09:09 UTC (rev 4847)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright 2010-07-27 13:20:12 UTC (rev 5067)
@@ -1,90 +0,0 @@
-Machine-readable license summary, see ‘http://dep.debian.net/deps/dep5/’.
-
-Name : io-lib
-Contact : James Bonfield, Simon Dear, Rodger Staden (io-lib)
-Source : http://qa.debian.org/watch/sf.php/staden/io_lib-1.12.2.tar.gz
-
-Copyright: © 1994 Medical Research Council
- © Genome Research Ltd (GRL)
-License: GRL or MRC
-Upstream-Comment: Newer files and changes are copyright Genome Research Ltd
- using the following compatible BSD licence. Disentangling which is which is
- somewhat tricky, but it's sufficient to say that work in the CVS tree from
- August 2002 will be bound by the GRL licence instead.
-
-License: GRL
- Copyright (c), Genome Research Ltd (GRL).
- All rights reserved.
-
- 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.
-
-License: MRC
- Copyright (c) Medical Research Council 1994. All rights reserved.
-
- Permission to use, copy, modify and distribute this software and its
- documentation for any purpose is hereby granted without fee, provided that
- this copyright and notice appears in all copies.
-
- This file was written by James Bonfield, Simon Dear, Rodger Staden,
- as part of the Staden Package at the MRC Laboratory of Molecular
- Biology, Hills Road, Cambridge, CB2 2QH, United Kingdom.
-
- MRC disclaims all warranties with regard to this software.
-
-Files: io_lib/open_trace_file.c
-License: GRL or MRC, and 454
- This file contains some source code owned by 454 Life Sciences Corporation.
-
-License: 454
- Copyright (c)[2001-2005] 454 Life Sciences Corporation. All Rights Reserved.
-
- THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
- EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
- MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
-
- IN NO EVENT SHALL LICENSOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
- LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
- FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE.
-
- Permission to use, copy, modify and distribute this software and its
- documentation for any purpose is hereby granted without fee, provided
- that this copyright and notice appears in all copies.
-
-
-Files: io_lib/sff.c:
-Copyright: © Genome Research Limited (GRL)
- © 2001-2005 454 Life Sciences Corporation.
-License: GRL and 454
- This file contains some extracts from a file owened by the 454 Life Sciences Corporation.
-
-Files: debian/*
-Copyright: 2008–2009 Charles Plessy <plessy at debian.org>
-License: PD
- Please treat these files as if they were in your country’s public domain.
Copied: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright (from rev 5066, trunk/packages/staden-io-lib/trunk/debian/copyright)
===================================================================
--- trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright (rev 0)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/copyright 2010-07-27 13:20:12 UTC (rev 5067)
@@ -0,0 +1,90 @@
+Machine-readable license summary, see ‘http://dep.debian.net/deps/dep5/’.
+
+Name : io-lib
+Contact : James Bonfield, Simon Dear, Rodger Staden (io-lib)
+Source : http://sourceforge.net/projects/staden/files/
+
+Copyright: © 1994 Medical Research Council
+ © Genome Research Ltd (GRL)
+License: GRL or MRC
+Upstream-Comment: Newer files and changes are copyright Genome Research Ltd
+ using the following compatible BSD licence. Disentangling which is which is
+ somewhat tricky, but it's sufficient to say that work in the CVS tree from
+ August 2002 will be bound by the GRL licence instead.
+
+License: GRL
+ Copyright (c), Genome Research Ltd (GRL).
+ All rights reserved.
+
+ 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.
+
+License: MRC
+ Copyright (c) Medical Research Council 1994. All rights reserved.
+
+ Permission to use, copy, modify and distribute this software and its
+ documentation for any purpose is hereby granted without fee, provided that
+ this copyright and notice appears in all copies.
+
+ This file was written by James Bonfield, Simon Dear, Rodger Staden,
+ as part of the Staden Package at the MRC Laboratory of Molecular
+ Biology, Hills Road, Cambridge, CB2 2QH, United Kingdom.
+
+ MRC disclaims all warranties with regard to this software.
+
+Files: io_lib/open_trace_file.c
+License: GRL or MRC, and 454
+ This file contains some source code owned by 454 Life Sciences Corporation.
+
+License: 454
+ Copyright (c)[2001-2005] 454 Life Sciences Corporation. All Rights Reserved.
+
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
+
+ IN NO EVENT SHALL LICENSOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
+ FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE.
+
+ Permission to use, copy, modify and distribute this software and its
+ documentation for any purpose is hereby granted without fee, provided
+ that this copyright and notice appears in all copies.
+
+
+Files: io_lib/sff.c:
+Copyright: © Genome Research Limited (GRL)
+ © 2001-2005 454 Life Sciences Corporation.
+License: GRL and 454
+ This file contains some extracts from a file owened by the 454 Life Sciences Corporation.
+
+Files: debian/*
+Copyright: 2008–2009 Charles Plessy <plessy at debian.org>
+License: PD
+ Please treat these files as if they were in your country’s public domain.
Deleted: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/endianness.patch
===================================================================
--- trunk/packages/staden-io-lib/trunk/debian/endianness.patch 2010-05-26 23:09:09 UTC (rev 4847)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/endianness.patch 2010-07-27 13:20:12 UTC (rev 5067)
@@ -1,107 +0,0 @@
-Description: Corrects description of machine endianness.
-Bug-Debian: 579239
-Forwarded: https://sourceforge.net/tracker/?func=detail&aid=3005086&group_id=100316&atid=627058
-Author: Bastian Blank <waldi at debian.org>
-
-diff -Nru staden-io-lib-1.12.2/io_lib/os.h staden-io-lib-1.12.2/io_lib/os.h
---- staden-io-lib-1.12.2/io_lib/os.h 2009-09-15 13:29:23.000000000 +0000
-+++ staden-io-lib-1.12.2/io_lib/os.h 2010-04-27 16:54:18.000000000 +0000
-@@ -189,91 +189,19 @@
- /*
- *-----------------------------------------------------------------------------
- * Machine endianness.
-- * These are overridden at the end when using autoconf, but are here for
-- * when being built as part of the Staden Package.
- *-----------------------------------------------------------------------------
- */
-
--/*
-- * First guess via autoconf. This is here as endianness can only be computed
-- * by autoconf for the machine we're building on. Hence cross-compilations
-- * or MacOSX "fat binaries" cannot work via autoconf in this manner.
-- *
-- * These provide a default for when the machine specific ifdefs below do you
-- * catch your system type.
-- */
--#ifdef HAVE_CONFIG_H
--# if defined(WORDS_BIGENDIAN)
--# ifdef SP_LITTLE_ENDIAN
--# undef SP_LITTLE_ENDIAN
--# endif
--# define SP_BIG_ENDIAN
--# else
--# ifdef SP_BIG_ENDIAN
--# undef SP_BIG_ENDIAN
--# endif
--# define SP_LITTLE_ENDIAN
--# endif
--#endif
--
--/*
-- * x86 equivalents
-- */
--#if defined(__i386__) || defined(__i386) || defined(__amd64__) || defined(__amd64)
--# if defined(SP_BIG_ENDIAN)
--# undef SP_BIG_ENDIAN
--# endif
--# define SP_LITTLE_ENDIAN
--#endif
--
--/*
-- * DEC Alpha
-- */
--#if defined(__alpha__) || defined(__alpha)
--# if defined(SP_LITTLE_ENDIAN)
--# undef SP_LITTLE_ENDIAN
--# endif
--# define SP_BIG_ENDIAN
--#endif
--
--/*
-- * SUN Sparc
-- */
--#if defined(__sparc__) || defined(__sparc)
--# if defined(SP_LITTLE_ENDIAN)
--# undef SP_LITTLE_ENDIAN
--# endif
--# define SP_BIG_ENDIAN
--#endif
-+#include <endian.h>
-
--/*
-- * PowerPC
-- */
--#if defined(__ppc__) || defined(__ppc)
--# if defined(SP_LITTLE_ENDIAN)
--# undef SP_LITTLE_ENDIAN
--# endif
--# define SP_BIG_ENDIAN
--#endif
--
--/* Some catch-alls */
--#if defined(__LITTLE_ENDIAN__) || defined(__LITTLEENDIAN__)
-+#if __BYTE_ORDER == __LITTLE_ENDIAN
- # define SP_LITTLE_ENDIAN
--#endif
--
--#if defined(__BIG_ENDIAN__) || defined(__BIGENDIAN__)
-+#elif __BYTE_ORDER == __BIG_ENDIAN
- # define SP_BIG_ENDIAN
-+#else
-+# error Unknown endianess
- #endif
-
--#if defined(SP_BIG_ENDIAN) && defined(SP_LITTLE_ENDIAN)
--# error Both BIG and LITTLE endian defined. Fix os.h and/or Makefile
--#endif
--
--#if !defined(SP_BIG_ENDIAN) && !defined(SP_LITTLE_ENDIAN)
--# error Neither BIG nor LITTLE endian defined. Fix os.h and/or Makefile
--#endif
--
--
- /*
- *-----------------------------------------------------------------------------
- * Typedefs for data sizes. Note there's umpteen versions of typedefs here
-
-
Copied: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/libstaden-read1.symbols (from rev 5066, trunk/packages/staden-io-lib/trunk/debian/libstaden-read1.symbols)
===================================================================
--- trunk/packages/staden-io-lib/tags/1.12.4-1/debian/libstaden-read1.symbols (rev 0)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/libstaden-read1.symbols 2010-07-27 13:20:12 UTC (rev 5067)
@@ -0,0 +1,385 @@
+libstaden-read.so.1 libstaden-read1 #MINVER#
+ ArrayCreate at Base 1.12.4
+ ArrayDestroy at Base 1.12.4
+ ArrayError at Base 1.12.4
+ ArrayErrorString at Base 1.12.4
+ ArrayExtend at Base 1.12.4
+ ArrayRef at Base 1.12.4
+ HashFileCreate at Base 1.12.4
+ HashFileDestroy at Base 1.12.4
+ HashFileExtract at Base 1.12.4
+ HashFileFopen at Base 1.12.4
+ HashFileLoad at Base 1.12.4
+ HashFileOpen at Base 1.12.4
+ HashFileQuery at Base 1.12.4
+ HashFileSave at Base 1.12.4
+ HashHsieh at Base 1.12.4
+ HashJenkins3 at Base 1.12.4
+ HashJenkins at Base 1.12.4
+ HashTableAdd at Base 1.12.4
+ HashTableCreate at Base 1.12.4
+ HashTableDel at Base 1.12.4
+ HashTableDestroy at Base 1.12.4
+ HashTableDump at Base 1.12.4
+ HashTableIterCreate at Base 1.12.4
+ HashTableIterDestroy at Base 1.12.4
+ HashTableIterNext at Base 1.12.4
+ HashTableIterReset at Base 1.12.4
+ HashTableNext at Base 1.12.4
+ HashTableRemove at Base 1.12.4
+ HashTableResize at Base 1.12.4
+ HashTableSearch at Base 1.12.4
+ HashTableStats at Base 1.12.4
+ HashTcl at Base 1.12.4
+ abi_reset_data_counts at Base 1.12.4
+ abi_set_data_counts at Base 1.12.4
+ be_read_int_1 at Base 1.12.4
+ be_read_int_2 at Base 1.12.4
+ be_read_int_4 at Base 1.12.4
+ be_read_int_8 at Base 1.12.4
+ be_write_int_1 at Base 1.12.4
+ be_write_int_2 at Base 1.12.4
+ be_write_int_4 at Base 1.12.4
+ be_write_int_8 at Base 1.12.4
+ bit_reverse at Base 1.12.4
+ block_create at Base 1.12.4
+ block_destroy at Base 1.12.4
+ block_resize at Base 1.12.4
+ c2fstr at Base 1.12.4
+ calc_bit_lengths at Base 1.12.4
+ close_fofn at Base 1.12.4
+ codes2codeset at Base 1.12.4
+ compress_chunk at Base 1.12.4
+ compress_file at Base 1.12.4
+ compress_int2str at Base 1.12.4
+ compress_str2int at Base 1.12.4
+ compress_ztr at Base 1.12.4
+ compressed_file_exists at Base 1.12.4
+ conf2str at Base 1.12.4
+ construct_trace_name at Base 1.12.4
+ ctfFRead at Base 1.12.4
+ ctfFWrite at Base 1.12.4
+ decode_sff_common_header at Base 1.12.4
+ decode_sff_read_header at Base 1.12.4
+ decorrelate1 at Base 1.12.4
+ decorrelate1dyn at Base 1.12.4
+ decorrelate2 at Base 1.12.4
+ decorrelate2dyn at Base 1.12.4
+ decorrelate4 at Base 1.12.4
+ delete_ztr at Base 1.12.4
+ determine_trace_type at Base 1.12.4
+ dump_labels at Base 1.12.4
+ eflt_feature_ids at Base 1.12.4
+ encode_sff_common_header at Base 1.12.4
+ encode_sff_read_header at Base 1.12.4
+ errout at Base 1.12.4
+ exp2read at Base 1.12.4
+ exp_close at Base 1.12.4
+ exp_create_info at Base 1.12.4
+ exp_create_range at Base 1.12.4
+ exp_destroy_info at Base 1.12.4
+ exp_extract_range at Base 1.12.4
+ exp_fread_info at Base 1.12.4
+ exp_get_feature_index at Base 1.12.4
+ exp_get_int at Base 1.12.4
+ exp_get_rng at Base 1.12.4
+ exp_get_str at Base 1.12.4
+ exp_mfread_info at Base 1.12.4
+ exp_print_file at Base 1.12.4
+ exp_print_line at Base 1.12.4
+ exp_print_mfile at Base 1.12.4
+ exp_print_mline at Base 1.12.4
+ exp_print_seq at Base 1.12.4
+ exp_put_int at Base 1.12.4
+ exp_put_rng at Base 1.12.4
+ exp_put_str at Base 1.12.4
+ exp_read_info at Base 1.12.4
+ exp_set_entry at Base 1.12.4
+ expand_8to16 at Base 1.12.4
+ expand_8to32 at Base 1.12.4
+ expcr_ at Base 1.12.4
+ exper_ at Base 1.12.4
+ expkil_ at Base 1.12.4
+ expopn_ at Base 1.12.4
+ expri_ at Base 1.12.4
+ exprr_ at Base 1.12.4
+ exprs_ at Base 1.12.4
+ exprsa_ at Base 1.12.4
+ expwi_ at Base 1.12.4
+ expwr_ at Base 1.12.4
+ expws_ at Base 1.12.4
+ expwsa_ at Base 1.12.4
+ f2cstr at Base 1.12.4
+ fcompress_file at Base 1.12.4
+ fdetermine_trace_type at Base 1.12.4
+ file_exists at Base 1.12.4
+ file_size at Base 1.12.4
+ flen at Base 1.12.4
+ follow1 at Base 1.12.4
+ fopen_compressed at Base 1.12.4
+ fread_abi at Base 1.12.4
+ fread_alf at Base 1.12.4
+ fread_ctf at Base 1.12.4
+ fread_pln at Base 1.12.4
+ fread_reading at Base 1.12.4
+ fread_scf at Base 1.12.4
+ fread_ztr at Base 1.12.4
+ free_sff_common_header at Base 1.12.4
+ free_sff_read_data at Base 1.12.4
+ free_sff_read_header at Base 1.12.4
+ freopen_compressed at Base 1.12.4
+ fstrlen at Base 1.12.4
+ fwrite_abi at Base 1.12.4
+ fwrite_alf at Base 1.12.4
+ fwrite_ctf at Base 1.12.4
+ fwrite_pln at Base 1.12.4
+ fwrite_reading at Base 1.12.4
+ fwrite_scf at Base 1.12.4
+ fwrite_ztr at Base 1.12.4
+ generate_code_set at Base 1.12.4
+ getABIIndexEntryLW at Base 1.12.4
+ getABIIndexEntrySW at Base 1.12.4
+ getABIIndexOffset at Base 1.12.4
+ getABIString at Base 1.12.4
+ getABIint1 at Base 1.12.4
+ getABIint2 at Base 1.12.4
+ getABIint4 at Base 1.12.4
+ get_compression_method at Base 1.12.4
+ get_read_conf at Base 1.12.4
+ hash64 at Base 1.12.4
+ hash at Base 1.12.4
+ huffman_codes_destroy at Base 1.12.4
+ huffman_codeset_destroy at Base 1.12.4
+ huffman_decode at Base 1.12.4
+ huffman_multi_decode at Base 1.12.4
+ huffman_multi_encode at Base 1.12.4
+ ichebcomp at Base 1.12.4
+ ichebuncomp at Base 1.12.4
+ init_decode_tables at Base 1.12.4
+ int_to_float at Base 1.12.4
+ iolib_get_exp_path at Base 1.12.4
+ iolib_get_trace_path at Base 1.12.4
+ iolib_set_exp_path at Base 1.12.4
+ iolib_set_trace_path at Base 1.12.4
+ is_directory at Base 1.12.4
+ is_file at Base 1.12.4
+ is_scf at Base 1.12.4
+ le_read_int_1 at Base 1.12.4
+ le_read_int_2 at Base 1.12.4
+ le_read_int_4 at Base 1.12.4
+ le_read_int_8 at Base 1.12.4
+ le_write_int_1 at Base 1.12.4
+ le_write_int_2 at Base 1.12.4
+ le_write_int_4 at Base 1.12.4
+ le_write_int_8 at Base 1.12.4
+ log2_data at Base 1.12.4
+ memgunzip at Base 1.12.4
+ memgzip at Base 1.12.4
+ mfascii at Base 1.12.4
+ mfclose at Base 1.12.4
+ mfcreate at Base 1.12.4
+ mfcreate_from at Base 1.12.4
+ mfdestroy at Base 1.12.4
+ mfdetach at Base 1.12.4
+ mfeof at Base 1.12.4
+ mfflush at Base 1.12.4
+ mfgetc at Base 1.12.4
+ mfgets at Base 1.12.4
+ mfopen at Base 1.12.4
+ mfprintf at Base 1.12.4
+ mfread at Base 1.12.4
+ mfread_abi at Base 1.12.4
+ mfread_alf at Base 1.12.4
+ mfread_ctf at Base 1.12.4
+ mfread_pln at Base 1.12.4
+ mfread_reading at Base 1.12.4
+ mfread_scf at Base 1.12.4
+ mfread_sff at Base 1.12.4
+ mfread_ztr at Base 1.12.4
+ mfrecreate at Base 1.12.4
+ mfreopen at Base 1.12.4
+ mfseek at Base 1.12.4
+ mftell at Base 1.12.4
+ mftruncate at Base 1.12.4
+ mfwrite at Base 1.12.4
+ mfwrite_abi at Base 1.12.4
+ mfwrite_alf at Base 1.12.4
+ mfwrite_ctf at Base 1.12.4
+ mfwrite_pln at Base 1.12.4
+ mfwrite_reading at Base 1.12.4
+ mfwrite_scf at Base 1.12.4
+ mfwrite_ztr at Base 1.12.4
+ mrewind at Base 1.12.4
+ mstderr at Base 1.12.4
+ mstdin at Base 1.12.4
+ mstdout at Base 1.12.4
+ mungetc at Base 1.12.4
+ myfind at Base 1.12.4
+ mystrtok at Base 1.12.4
+ new_ztr at Base 1.12.4
+ next_symbol at Base 1.12.4
+ open_exp_file at Base 1.12.4
+ open_exp_mfile at Base 1.12.4
+ open_fofn at Base 1.12.4
+ open_path_file at Base 1.12.4
+ open_path_mfile at Base 1.12.4
+ open_trace_file at Base 1.12.4
+ open_trace_mfile at Base 1.12.4
+ opos2str at Base 1.12.4
+ pack_trace_suffix at Base 1.12.4
+ partial_decode_ztr at Base 1.12.4
+ pool_alloc at Base 1.12.4
+ pool_create at Base 1.12.4
+ pool_destroy at Base 1.12.4
+ pool_free at Base 1.12.4
+ qshift at Base 1.12.4
+ read2exp at Base 1.12.4
+ read2scf at Base 1.12.4
+ read2ztr at Base 1.12.4
+ read_abi at Base 1.12.4
+ read_alf at Base 1.12.4
+ read_allocate at Base 1.12.4
+ read_ctf at Base 1.12.4
+ read_deallocate at Base 1.12.4
+ read_dup at Base 1.12.4
+ read_experiment_redirect at Base 1.12.4
+ read_fofn at Base 1.12.4
+ read_pln at Base 1.12.4
+ read_reading at Base 1.12.4
+ read_scf at Base 1.12.4
+ read_scf_base at Base 1.12.4
+ read_scf_bases3 at Base 1.12.4
+ read_scf_bases at Base 1.12.4
+ read_scf_comment at Base 1.12.4
+ read_scf_header at Base 1.12.4
+ read_scf_sample1 at Base 1.12.4
+ read_scf_sample2 at Base 1.12.4
+ read_scf_samples1 at Base 1.12.4
+ read_scf_samples2 at Base 1.12.4
+ read_scf_samples31 at Base 1.12.4
+ read_scf_samples32 at Base 1.12.4
+ read_sections at Base 1.12.4
+ read_sff_common_header at Base 1.12.4
+ read_sff_read_data at Base 1.12.4
+ read_sff_read_header at Base 1.12.4
+ read_update_base_positions at Base 1.12.4
+ read_update_confidence_values at Base 1.12.4
+ recorrelate1 at Base 1.12.4
+ recorrelate2 at Base 1.12.4
+ recorrelate4 at Base 1.12.4
+ remove_extension at Base 1.12.4
+ remove_file at Base 1.12.4
+ restore_codes at Base 1.12.4
+ restore_codes_single at Base 1.12.4
+ rle at Base 1.12.4
+ scf2read at Base 1.12.4
+ scf_allocate at Base 1.12.4
+ scf_deallocate at Base 1.12.4
+ scf_delta_samples1 at Base 1.12.4
+ scf_delta_samples2 at Base 1.12.4
+ scf_version_float2str at Base 1.12.4
+ scf_version_str2float at Base 1.12.4
+ set_compression_method at Base 1.12.4
+ set_scf_version at Base 1.12.4
+ shrink_16to8 at Base 1.12.4
+ shrink_32to8 at Base 1.12.4
+ srf_construct_cont_hdr at Base 1.12.4
+ srf_construct_trace_body at Base 1.12.4
+ srf_construct_trace_hdr at Base 1.12.4
+ srf_create at Base 1.12.4
+ srf_destroy at Base 1.12.4
+ srf_destroy_cont_hdr at Base 1.12.4
+ srf_destroy_trace_body at Base 1.12.4
+ srf_destroy_trace_hdr at Base 1.12.4
+ srf_find_trace at Base 1.12.4
+ srf_index_add_cont_hdr at Base 1.12.4
+ srf_index_add_trace_body at Base 1.12.4
+ srf_index_add_trace_hdr at Base 1.12.4
+ srf_index_create at Base 1.12.4
+ srf_index_destroy at Base 1.12.4
+ srf_index_stats at Base 1.12.4
+ srf_index_write at Base 1.12.4
+ srf_next_block_details at Base 1.12.4
+ srf_next_block_type at Base 1.12.4
+ srf_next_trace at Base 1.12.4
+ srf_next_ztr at Base 1.12.4
+ srf_next_ztr_flags at Base 1.12.4
+ srf_open at Base 1.12.4
+ srf_read_cont_hdr at Base 1.12.4
+ srf_read_index_hdr at Base 1.12.4
+ srf_read_pstring at Base 1.12.4
+ srf_read_trace_body at Base 1.12.4
+ srf_read_trace_hdr at Base 1.12.4
+ srf_read_uint32 at Base 1.12.4
+ srf_read_uint64 at Base 1.12.4
+ srf_read_xml at Base 1.12.4
+ srf_write_cont_hdr at Base 1.12.4
+ srf_write_index_hdr at Base 1.12.4
+ srf_write_pstring at Base 1.12.4
+ srf_write_pstringb at Base 1.12.4
+ srf_write_trace_body at Base 1.12.4
+ srf_write_trace_hdr at Base 1.12.4
+ srf_write_uint32 at Base 1.12.4
+ srf_write_uint64 at Base 1.12.4
+ srf_write_xml at Base 1.12.4
+ sthuff at Base 1.12.4
+ store_bytes at Base 1.12.4
+ store_codes at Base 1.12.4
+ store_codes_single at Base 1.12.4
+ str2conf at Base 1.12.4
+ str2opos at Base 1.12.4
+ str_tolower at Base 1.12.4
+ str_toupper at Base 1.12.4
+ trace_type_int2str at Base 1.12.4
+ trace_type_str2int at Base 1.12.4
+ trace_type_str at Base 1.12.4
+ tshift at Base 1.12.4
+ uncompress_chunk at Base 1.12.4
+ uncompress_ztr at Base 1.12.4
+ unfollow1 at Base 1.12.4
+ unlog2_data at Base 1.12.4
+ unqshift at Base 1.12.4
+ unrle at Base 1.12.4
+ unsthuff at Base 1.12.4
+ untshift at Base 1.12.4
+ unxrle2 at Base 1.12.4
+ unxrle at Base 1.12.4
+ vflen at Base 1.12.4
+ write_abi at Base 1.12.4
+ write_alf at Base 1.12.4
+ write_ctf at Base 1.12.4
+ write_pln at Base 1.12.4
+ write_reading at Base 1.12.4
+ write_scf at Base 1.12.4
+ write_scf_base at Base 1.12.4
+ write_scf_bases3 at Base 1.12.4
+ write_scf_bases at Base 1.12.4
+ write_scf_comment at Base 1.12.4
+ write_scf_header at Base 1.12.4
+ write_scf_sample1 at Base 1.12.4
+ write_scf_sample2 at Base 1.12.4
+ write_scf_samples1 at Base 1.12.4
+ write_scf_samples2 at Base 1.12.4
+ write_scf_samples31 at Base 1.12.4
+ write_scf_samples32 at Base 1.12.4
+ xcalloc at Base 1.12.4
+ xfree at Base 1.12.4
+ xmalloc at Base 1.12.4
+ xrealloc at Base 1.12.4
+ xrle2 at Base 1.12.4
+ xrle at Base 1.12.4
+ zlib_dehuff at Base 1.12.4
+ zlib_huff at Base 1.12.4
+ ztr2read at Base 1.12.4
+ ztr_add_hcode at Base 1.12.4
+ ztr_add_text at Base 1.12.4
+ ztr_dup at Base 1.12.4
+ ztr_find_chunks at Base 1.12.4
+ ztr_find_hcode at Base 1.12.4
+ ztr_find_hcode_chunk at Base 1.12.4
+ ztr_lookup_mdata_value at Base 1.12.4
+ ztr_new_chunk at Base 1.12.4
+ ztr_process_text at Base 1.12.4
+ ztr_read_chunk_hdr at Base 1.12.4
+ ztr_read_header at Base 1.12.4
+ ztr_store_hcodes at Base 1.12.4
Deleted: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules
===================================================================
--- trunk/packages/staden-io-lib/trunk/debian/rules 2010-05-26 23:09:09 UTC (rev 4847)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules 2010-07-27 13:20:12 UTC (rev 5067)
@@ -1,3 +0,0 @@
-#!/usr/bin/make -f
-%:
- dh $@
Copied: trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules (from rev 5066, trunk/packages/staden-io-lib/trunk/debian/rules)
===================================================================
--- trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules (rev 0)
+++ trunk/packages/staden-io-lib/tags/1.12.4-1/debian/rules 2010-07-27 13:20:12 UTC (rev 5067)
@@ -0,0 +1,8 @@
+#!/usr/bin/make -f
+%:
+ dh $@
+
+override_dh_install:
+ dh_install
+ mkdir -p $(CURDIR)/debian/libstaden-read-dev/usr/bin
+ mv $(CURDIR)/debian/staden-io-lib-utils/usr/bin/io_lib-config $(CURDIR)/debian/libstaden-read-dev/usr/bin
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