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emboss-lib - EMBOSS Libraries… more info»
The EMBOSS package for Debian was initially prepared by Matt Hope (firstname.lastname@example.org) in 2002-2004 and released on (http://debian.bioinformatics.unsw.edu.au/). The package distributed in Debian was prepared by the "pkg-emboss" project in 2006, using the work of Matt Hope as a starting point. The packaging work of the pkg-emboss project is in the public domain unless stated otherwise. ------------------------------------------------------------------------ EMBOSS License (http://emboss.sourceforge.net/licence/) The AJAX and NUCLEUS libraries are released under the GNU Library General Public Licence. The EMBOSS Administrator’s Guide can be copied, distributed and/or modified under the terms of the GNU Free Documentation License, Version 1.1 or any later version published by the Free Software Foundation; with no Invariant Sections, with no Front-Cover Texts, and with no Back-Cover Texts. A copy of the license is included in the chapter entitled ”GNU Free Documentation License”. The EMBOSS Quick Guide has been relicenced and can be used, modified and distributed under the same terms as EMBOSS itself. EMBOSS applications are released under the GNU General Public Licence. Parsing of ACD files does not constitute a "derived work" and developers are encouraged to do this, for example to write their own GUIs. For developers who have their own licensing conditions already in effect, there will be an additional way to contribute. The EMBASSY collection can include packages that use the EMBOSS core libraries and interfaces but under their own licensing conditions. They will be bound by the Library GPL of the AJAX and NUCLEUS libraries, but not necessarily by the full GPL. ------------------------------------------------------------------------ On Debian systems, the complete text of the GNU General Public License version 2, the GNU Free Documentation License version 1.2, and the GNU Library Public License version 2 can be found in ‘/usr/share/common-licenses/GPL-2’, ‘/usr/share/common-licenses/GFDL-1.2’ and ‘/usr/share/common-licenses/LGPL-2’ respectively. EMBOSS uses the libpcre and libplplot. PCRE LICENCE ------------ PCRE is a library of functions to support regular expressions whose syntax and semantics are as close as possible to those of the Perl 5 language. Written by: Philip Hazel <email@example.com> University of Cambridge Computing Service, Cambridge, England. Phone: +44 1223 334714. Copyright (c) 1997-2000 University of Cambridge Permission is granted to anyone to use this software for any purpose on any computer system, and to redistribute it freely, subject to the following restrictions: 1. This software 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. 2. The origin of this software must not be misrepresented, either by explicit claim or by omission. In practice, this means that if you use PCRE in software which you distribute to others, commercially or otherwise, you must put a sentence like this Regular expression support is provided by the PCRE library package, which is open source software, written by Philip Hazel, and copyright by the University of Cambridge, England. somewhere reasonably visible in your documentation and in any relevant files or online help data or similar. A reference to the ftp site for the source, that is, to ftp://ftp.csx.cam.ac.uk/pub/software/programming/pcre/ should also be given in the documentation. 3. Altered versions must be plainly marked as such, and must not be misrepresented as being the original software. 4. If PCRE is embedded in any software that is released under the GNU General Purpose Licence (GPL), then the terms of that licence shall supersede any condition above with which it is incompatible. PLPLOT LICENCE -------------- The PLplot package may be distributed under the following terms: This library is free software; you can redistribute it and/or modify it under the terms of the GNU Library General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This library 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 Library General Public License for more details. You should have received a copy of the GNU Library General Public License along with this library; if not, write to the Free Software Foundation, Inc. 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA AUTHORS OF EMBOSS ----------------- EMBOSS has been develped by many programmers, who are acknowledged it the AUTHORS and THANK files in the original sources. These two files are reproduced below: Authors of EMBOSS See also the files THANKS and ChangeLog, and the authors in the heading at the start of each source file. Project Coordinator: Alan Bleasby Original Project Coordinator: Peter Rice Developers: Ian Longden, Informatics Division, The Sanger Centre, Hinxton, UK. Peter Rice, formerly Informatics Division, The Sanger Centre, Hinxton, UK. Now at LION Bioscience Ltd, Cambridge, UK. Alan Bleasby, formerly Daresbury Laboratory UK, now Bioinformatics Division, UK Human Genome Mapping Project Resource Centre, Hinxton, UK. Contributors: Gary Williams, HGMP Resource Centre, Hinxton, UK. Sinead O'Leary, HGMP Resource Centre, Hinxton, UK. Mark Faller, HGMP Resource Centre, Hinxton, UK. Youla Karavidopoulou, HGMP Resource Centre, Hinxton, UK. Thon de Boer, HGMP Resource Centre, Hinxton, UK. Mark Faller, HGMP Resource Centre, Hinxton, UK. Jon Ison, HGMP Resource Centre, Hinxton, UK. Val Curwen, HGMP Resource Centre, Hinxton, UK. Tim Carver, HGMP Resource Centre, Hinxton, UK. Lisa Mullan, HGMP Resource Centre, Hinxton, UK. Richard Bruskiewich, Informatics Division, The Sanger Centre, Hinxton, UK. Rodrigo Lopez, European Bioinformatics Institute, Hinxton, UK. David Martin, Norwegian EMBnet Node, Oslo, Norway. Catherine Letondal, Institute Pasteur, Paris, France Thomas Laurent, LION Bioscience Ltd, Cambridge, UK EMBOSS THANKS file EMBOSS is a collaborative project, coordinated at the EBI, Hinxton. In the past EMBOSS was coordinated at the Sanger Centre, Hinxton (1996-2000) and at the HGMP/RFCGR, Hinxton (2000-2005). Many people have further contributed to EMBOSS by reporting problems, suggesting various improvements, or submitting actual code. Here is a list of those people. Help us to keep this complete and free from errors by mailing any changes to firstname.lastname@example.org Peter Rice <email@example.com> Ian Longden <firstname.lastname@example.org> Alan Bleasby <email@example.com> Jon Ison <firstname.lastname@example.org> Gary Williams <email@example.com> Ewan Birney <firstname.lastname@example.org> Bill Pearson <email@example.com> Thomas Laurent <firstname.lastname@example.org> Michael Schuster <email@example.com> Scott McMahan <firstname.lastname@example.org> Henrikki Almusa <email@example.com> Cedric Rossi <firstname.lastname@example.org> Regexp ====== The regular expression library is derived from the PCRE (Perl Compatible Regular Expressions) library. The regular expression functions were originally derived from Henry Spencer's regexp library. CII === Some of the suggestions and code examples from David Hanson's book "C Interfaces and Implementations" are included in the AJAX library. This library is available from http://www.cs.princeton.edu/software/cii/ or ftp://ftp.cs.princeton.edu/pub/packages/cii/ The COPYRIGHT file in release 1.10 says: > The author of this software is David R. Hanson. > > Copyright (c) 1994,1995,1996 by David R. Hanson. All Rights Reserved. > > Permission to use, copy, modify, and distribute this software for any > purpose, subject to the provisions described below, without fee is > hereby granted, provided that this entire notice is included in all > copies of any software that is or includes a copy or modification of > this software and in all copies of the supporting documentation for > such software. > > THIS SOFTWARE IS BEING PROVIDED "AS IS", WITHOUT ANY EXPRESS OR IMPLIED > WARRANTY. IN PARTICULAR, THE AUTHOR DOES MAKE ANY REPRESENTATION OR > WARRANTY OF ANY KIND CONCERNING THE MERCHANTABILITY OF THIS SOFTWARE OR > ITS FITNESS FOR ANY PARTICULAR PURPOSE. > > David Hanson / email@example.com / http://www.cs.princeton.edu/~drh/ > Wed Apr 24 13:44:16 PDT 1996 > Mon Dec 12 15:58:13 EST 1994 Thanks to Michael Schmitz for varargs handling code for linux ppc.