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Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Contact: toolbox@ncbi.nlm.nih.gov
Upstream-Name: ncbi
Source: http://ftp.ncbi.nih.gov/toolbox/ncbi_tools/old/
Files: *
Copyright: 1996-2017 NCBI
License: public_domain
Files: algo/blast/core/boost_erf.c
Copyright: 2006 John Maddock
License: BSL-1.0
Files: connect/mitsock/*
Copyright: 1998-1999 The Massachusetts Institute of Technology
License: MIT
Files: connect/mitsock/OTErrno.c connect/mitsock/OTnetdb.c
connect/mitsock/sock_ext.h
Copyright: ???? National Center for Supercomputing Applications
License: NCSA
Files: connect/mitsock/a_inet.h:
Copyright: 1983 Regents of the University of California
License: BSD-3-Clause
Files: connect/mitsock/carbon_netdb.h:
Copyright: 1980, 1983, 1988 Regents of the University of California
License: BSD-3-Clause
Files: connect/mitsock/neterrno.h:
Copyright: 1982, 1986, 1989 Regents of the University of California
License: BSD-3-Clause
Files: connect/mitsock/neti_in.h:
Copyright: 1982, 1986, 1990 Regents of the University of California
License: BSD-3-Clause
Files: connect/mitsock/s_types.h:
Copyright: 1982 Regents of the University of California
License: BSD-3-Clause
Files: connect/parson.?
Copyright: 2012-2016 Krzysztof Gabis
License: Expat
Files: corelib/regex.c
Copyright: 1993 Free Software Foundation, Inc.
License: GPL-2+
Files: corelib/regex.h
Copyright: 1985, 1989, 1990, 1991, 1992, 1993 Free Software Foundation, Inc.
License: GPL-2+
Files: debian/*
Copyright: 1998-1999 Stephane Bortzmeyer <bortzmeyer@pasteur.fr>
2001 Dr. Guenter Bechly <gbechly@debian.org>
2001-2018 Aaron M. Ucko <ucko@debian.org>
License: public_domain
Files: debian/tests/test-data/* (except for trnascan-se_sample.output)
Copyright: 1996-2018 NCBI
License: public_domain
Comment:
nc0225.aso.gz and dsRNA_viruses.* can be dowloaded by running:
wget ftp://ftp.ncbi.nih.gov/ncbi-asn1/daily-nc/nc0225.aso.gz
wget ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ASN_BINARY/Viruses/dsRNA_viruses.ags.gz
wget ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/GENE_INFO/Viruses/dsRNA_viruses.gene_info.gz
.
spidey_* can be downloaded using their accession numbers with help of idfetch, e.g.:
idfetch -dn -t 5 -c 1 -g 1327850419 -o spidey_mRNA.fasta
idfetch -dn -t 5 -c 1 -g 568802167 -o spidey_genome.fasta
.
Based on the example provided in /usr/share/doc/ncbi-tools-bin/tbl2asn.txt.gz,
Sc_16.sbt was generated using NCBI Submission Portal:
https://submit.ncbi.nlm.nih.gov/genbank/template/submission/
.
The examples for Sc_16.fsa and Sc_16.tbl were taken from here:
https://www.ncbi.nlm.nih.gov/genbank/tbl2asn2/
Files: debian/tests/test-data/trnascan-se_sample.output
Copyright: 2018 Liubov Chuprikova <chuprikovalv@gmail.com>
License: public_domain
Comment:
The file was generated by tRNAscan-SE 2.0:
tRNAscan-SE -d -y -o trnascan-se_sample.output /usr/share/doc/trnascan-se/examples/Example1.fa
License: public_domain
The NCBI toolkit has been put into the public domain, completely unfettered:
.
PUBLIC DOMAIN NOTICE
National Center for Biotechnology Information
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This software/database is a "United States Government Work" under the
terms of the United States Copyright Act. It was written as part of
the author's official duties as a United States Government employee and
thus cannot be copyrighted. This software/database is freely available
to the public for use. The National Library of Medicine and the U.S.
Government have not placed any restriction on its use or reproduction.
.
Although all reasonable efforts have been taken to ensure the accuracy
and reliability of the software and data, the NLM and the U.S.
Government do not and cannot warrant the performance or results that
may be obtained by using this software or data. The NLM and the U.S.
Government disclaim all warranties, express or implied, including
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Please cite the author in any work or product based on this material.
License: BSL-1.0
Permission is hereby granted, free of charge, to any person or organization
obtaining a copy of the software and accompanying documentation covered by
this license (the "Software") to use, reproduce, display, distribute,
execute, and transmit the Software, and to prepare derivative works of the
Software, and to permit third-parties to whom the Software is furnished to
do so, all subject to the following:
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The copyright notices in the Software and this entire statement, including
the above license grant, this restriction and the following disclaimer,
must be included in all copies of the Software, in whole or in part, and
all derivative works of the Software, unless such copies or derivative
works are solely in the form of machine-executable object code generated by
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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, TITLE AND NON-INFRINGEMENT. IN NO EVENT
SHALL THE COPYRIGHT HOLDERS OR ANYONE DISTRIBUTING THE SOFTWARE BE LIABLE
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ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
DEALINGS IN THE SOFTWARE.
License: Expat
Permission is hereby granted, free of charge, to any person obtaining a copy
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The above copyright notice and this permission notice shall be included in
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IN THE SOFTWARE.
License: MIT
Permission to use, copy, modify, and distribute this software and its
documentation for any purpose and without fee is hereby granted,
provided that the above copyright notice appear in all copies and that
both that copyright notice and this permission notice appear in
supporting documentation, and that the name of M.I.T. not be used in
advertising or publicity pertaining to distribution of the software
without specific, written prior permission. Furthermore if you modify
this software you must label your software as modified software and not
distribute it in such a fashion that it might be confused with the
original MIT software. M.I.T. makes no representations about the
suitability of this software for any purpose. It is provided "as is"
without express or implied warranty.
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THIS SOFTWARE IS PROVIDED ``AS IS'' AND WITHOUT ANY EXPRESS OR IMPLIED
WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF
MERCHANTIBILITY AND FITNESS FOR A PARTICULAR PURPOSE.
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Individual source code files are copyright MIT, Cygnus Support,
OpenVision, Oracle, Sun Soft, FundsXpress, and others.
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Project Athena, Athena, Athena MUSE, Discuss, Hesiod, Kerberos, Moira,
and Zephyr are trademarks of the Massachusetts Institute of Technology
(MIT). No commercial use of these trademarks may be made without prior
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"Commercial use" means use of a name in a product or other for-profit
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recognition of their trademark status should be given).
License: NCSA
This source file is placed in the public domian.
Any resemblance to NCSA Telnet, living or dead, is purely coincidental.
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152 Computing Applications Building
605 E. Springfield Ave.
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License: BSD-3-Clause
Redistribution and use in source and binary forms are permitted
provided that: (1) source distributions retain this entire copyright
notice and comment, and (2) distributions including binaries display
the following acknowledgement: ``This product includes software
developed by the University of California, Berkeley and its contributors''
in the documentation or other materials provided with the distribution
and in all advertising materials mentioning features or use of this
software. Neither the name of the University 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 ``AS IS'' AND WITHOUT ANY EXPRESS OR
IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
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.
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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.
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You should have received a copy of the GNU General Public
License along with this package; if not, write to the Free
Software Foundation, Inc., 51 Franklin St, Fifth Floor,
Boston, MA 02110-1301 USA
.
On Debian systems, the full text of the GNU General Public
License version 2 can be found in the file
`/usr/share/common-licenses/GPL-2'.
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