Author: plessy Date: 2014-08-08 13:16:56 +0000 (Fri, 08 Aug 2014) New Revision: 17657
Added: trunk/packages/infernal/tags/1.1.1-1/ trunk/packages/infernal/tags/1.1.1-1/debian/changelog trunk/packages/infernal/tags/1.1.1-1/debian/control trunk/packages/infernal/tags/1.1.1-1/debian/copyright Removed: trunk/packages/infernal/tags/1.1.1-1/debian/changelog trunk/packages/infernal/tags/1.1.1-1/debian/control trunk/packages/infernal/tags/1.1.1-1/debian/copyright Log: [svn-buildpackage] Tagging infernal 1.1.1-1 Deleted: trunk/packages/infernal/tags/1.1.1-1/debian/changelog =================================================================== --- trunk/packages/infernal/trunk/debian/changelog 2014-08-07 16:14:07 UTC (rev 17634) +++ trunk/packages/infernal/tags/1.1.1-1/debian/changelog 2014-08-08 13:16:56 UTC (rev 17657) @@ -1,132 +0,0 @@ -infernal (1.1~rc4-3) UNRELEASED; urgency=low - - * Removed i386 architecture as some processors do not provide SSE2. - - -- Charles Plessy <[email protected]> Sat, 05 Oct 2013 09:48:09 +0900 - -infernal (1.1~rc4-2) unstable; urgency=low - - * Team upload. - * Build-depends on libperl4-corelibs-perl (Closes: #724119). - * debian/control: removed myself from Uploaders. - - -- Charles Plessy <[email protected]> Mon, 23 Sep 2013 10:57:17 +0900 - -infernal (1.1~rc4-1) unstable; urgency=low - - * New upstream source - * debian/source/format: 3.0 (quilt) - * debian/control: - - cme fix dpkg-control - - debhelper 9 - - do not Build-Depend: quilt since source format implies this - - The package builds only on architectures with SSE instructions. - Quoting from build log on armel: - configure: WARNING: Infernal 1.1 requires VMX or SSE capability for - parallel instructions. - configure: error: It appears your platform has neither and will not - support Infernal. - So all non i386/amd64 architectures were excluded - Closes: #718742 - - use anonscm in Vcs fields - * debian/rules: - - remove redundant setting for flags which is handled by debhelper 9 - automatically - - use xz compression - * debian/copyright: DEP5 - - -- Andreas Tille <[email protected]> Mon, 05 Aug 2013 12:06:12 +0200 - -infernal (1.1~rc2-1) unstable; urgency=low - - * New upstream version - aiming to support RNAWorld BOINC project, - with many thanks and regards to Yoyo! - - cmscore no longer available - * Bumped policy to 3.9.4 (no changes needed) - - introduced hardening, with it build dep on - dpkg-dev (>= 1.16.1~) - - -- Steffen Moeller <[email protected]> Wed, 01 May 2013 20:24:17 +0200 - -infernal (1.0.2-3) UNRELEASED; urgency=low - - [ Steffen Moeller ] - * Extra fixed for lintian cleanliness (Steffen) - - [ Andreas Tille ] - * debian/upstream: - - do not specify DOI twice - - Moved PMID to references - * debian/control: - - Fixed Vcs-Svn field - - Standards-Version: 3.9.3 (no changes needed) - - -- Andreas Tille <[email protected]> Thu, 08 Mar 2012 11:44:54 +0100 - -infernal (1.0.2-2) unstable; urgency=low - - * Series of mall fixes (Closes: #643407). - * source/format 3.0 - * Policy to 3.9.2 - * added infernal-dbg - * corrected upstream's email address - - -- Steffen Moeller <[email protected]> Tue, 27 Sep 2011 15:48:27 +0200 - -infernal (1.0.2-1) unstable; urgency=low - - * New upstream version - - -- Andreas Tille <[email protected]> Tue, 03 Nov 2009 11:15:34 +0100 - -infernal (1.0-2) unstable; urgency=low - - * Switch to CDBS to benefit from automagical config.{sub,guess} - update (debian/rules). Closes: #550253. - * debian/control: - - Depend on cdbs, downgraded requirement on debhelper from 7.1 to 7. - - Transferred bibliographic information from the package description - to debian/upstream-metadata.yaml. - - Clarified the short description of the documentation package. - * Removed debian/infernal.dirs, not needed. - * Edited README.source, removing mention that infernal is in contrib. - * debian/copyright points at the version 3 of the GPL. - - -- Charles Plessy <[email protected]> Sat, 10 Oct 2009 11:22:35 +0900 - -infernal (1.0-1) unstable; urgency=low - - [ Charles Plessy ] - * Updated my email address. - - [ Andreas Tille ] - * New upstream version - * debian/control: - - Standards-Version: 3.8.3 (no changes needed) - - Added myself to uploaders - - s/Debian-Med/Debian Med/ - - Build-Depends: debhelper (>= 7.1) autotools-dev - - Package: infernal-doc - * debian/rules rewritten to make use of short dh - * debian/copyright: - - added myself to Copyright holders of debian/* - - squid is not part of the upstream tarball anymore so this - paragraph was deleted - - files/Userguide.pdf: Copied comment about PDF = source from - README.Debian - * debian/infernal-doc.doc-base - * debian/infernal.install: install src/{trcyk,truncyk_check} to - /usr/bin - - * TODO: Convince upstream to release libeazel which is also used in - hmmer as a separate library instead of copying the code into - different projects - - -- Andreas Tille <[email protected]> Fri, 25 Sep 2009 15:17:22 +0200 - -infernal (0.81-1) experimental; urgency=low - - * Initial release (Closes: #441840) - - -- Steffen Moeller <[email protected]> Mon, 10 Sep 2007 23:15:37 +0200 - Copied: trunk/packages/infernal/tags/1.1.1-1/debian/changelog (from rev 17656, trunk/packages/infernal/trunk/debian/changelog) =================================================================== --- trunk/packages/infernal/tags/1.1.1-1/debian/changelog (rev 0) +++ trunk/packages/infernal/tags/1.1.1-1/debian/changelog 2014-08-08 13:16:56 UTC (rev 17657) @@ -0,0 +1,142 @@ +infernal (1.1.1-1) unstable; urgency=medium + + * Team upload. + * New upstream release. + + -- Charles Plessy <[email protected]> Fri, 08 Aug 2014 21:45:26 +0900 + +infernal (1.1-1) unstable; urgency=low + + * Team upload. + * New upstream release. + * Removed i386 architecture as some processors do not provide SSE2. + * Conforms with Policy 3.9.5. + + -- Charles Plessy <[email protected]> Sun, 01 Dec 2013 10:30:00 +0900 + +infernal (1.1~rc4-2) unstable; urgency=low + + * Team upload. + * Build-depends on libperl4-corelibs-perl (Closes: #724119). + * debian/control: removed myself from Uploaders. + + -- Charles Plessy <[email protected]> Mon, 23 Sep 2013 10:57:17 +0900 + +infernal (1.1~rc4-1) unstable; urgency=low + + * New upstream source + * debian/source/format: 3.0 (quilt) + * debian/control: + - cme fix dpkg-control + - debhelper 9 + - do not Build-Depend: quilt since source format implies this + - The package builds only on architectures with SSE instructions. + Quoting from build log on armel: + configure: WARNING: Infernal 1.1 requires VMX or SSE capability for + parallel instructions. + configure: error: It appears your platform has neither and will not + support Infernal. + So all non i386/amd64 architectures were excluded + Closes: #718742 + - use anonscm in Vcs fields + * debian/rules: + - remove redundant setting for flags which is handled by debhelper 9 + automatically + - use xz compression + * debian/copyright: DEP5 + + -- Andreas Tille <[email protected]> Mon, 05 Aug 2013 12:06:12 +0200 + +infernal (1.1~rc2-1) unstable; urgency=low + + * New upstream version - aiming to support RNAWorld BOINC project, + with many thanks and regards to Yoyo! + - cmscore no longer available + * Bumped policy to 3.9.4 (no changes needed) + - introduced hardening, with it build dep on + dpkg-dev (>= 1.16.1~) + + -- Steffen Moeller <[email protected]> Wed, 01 May 2013 20:24:17 +0200 + +infernal (1.0.2-3) UNRELEASED; urgency=low + + [ Steffen Moeller ] + * Extra fixed for lintian cleanliness (Steffen) + + [ Andreas Tille ] + * debian/upstream: + - do not specify DOI twice + - Moved PMID to references + * debian/control: + - Fixed Vcs-Svn field + - Standards-Version: 3.9.3 (no changes needed) + + -- Andreas Tille <[email protected]> Thu, 08 Mar 2012 11:44:54 +0100 + +infernal (1.0.2-2) unstable; urgency=low + + * Series of mall fixes (Closes: #643407). + * source/format 3.0 + * Policy to 3.9.2 + * added infernal-dbg + * corrected upstream's email address + + -- Steffen Moeller <[email protected]> Tue, 27 Sep 2011 15:48:27 +0200 + +infernal (1.0.2-1) unstable; urgency=low + + * New upstream version + + -- Andreas Tille <[email protected]> Tue, 03 Nov 2009 11:15:34 +0100 + +infernal (1.0-2) unstable; urgency=low + + * Switch to CDBS to benefit from automagical config.{sub,guess} + update (debian/rules). Closes: #550253. + * debian/control: + - Depend on cdbs, downgraded requirement on debhelper from 7.1 to 7. + - Transferred bibliographic information from the package description + to debian/upstream-metadata.yaml. + - Clarified the short description of the documentation package. + * Removed debian/infernal.dirs, not needed. + * Edited README.source, removing mention that infernal is in contrib. + * debian/copyright points at the version 3 of the GPL. + + -- Charles Plessy <[email protected]> Sat, 10 Oct 2009 11:22:35 +0900 + +infernal (1.0-1) unstable; urgency=low + + [ Charles Plessy ] + * Updated my email address. + + [ Andreas Tille ] + * New upstream version + * debian/control: + - Standards-Version: 3.8.3 (no changes needed) + - Added myself to uploaders + - s/Debian-Med/Debian Med/ + - Build-Depends: debhelper (>= 7.1) autotools-dev + - Package: infernal-doc + * debian/rules rewritten to make use of short dh + * debian/copyright: + - added myself to Copyright holders of debian/* + - squid is not part of the upstream tarball anymore so this + paragraph was deleted + - files/Userguide.pdf: Copied comment about PDF = source from + README.Debian + * debian/infernal-doc.doc-base + * debian/infernal.install: install src/{trcyk,truncyk_check} to + /usr/bin + + * TODO: Convince upstream to release libeazel which is also used in + hmmer as a separate library instead of copying the code into + different projects + + -- Andreas Tille <[email protected]> Fri, 25 Sep 2009 15:17:22 +0200 + +infernal (0.81-1) experimental; urgency=low + + * Initial release (Closes: #441840) + + -- Steffen Moeller <[email protected]> Mon, 10 Sep 2007 23:15:37 +0200 + Deleted: trunk/packages/infernal/tags/1.1.1-1/debian/control =================================================================== --- trunk/packages/infernal/trunk/debian/control 2014-08-07 16:14:07 UTC (rev 17634) +++ trunk/packages/infernal/tags/1.1.1-1/debian/control 2014-08-08 13:16:56 UTC (rev 17657) @@ -1,61 +0,0 @@ -Source: infernal -Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: Steffen Moeller <[email protected]>, - Andreas Tille <[email protected]> -Section: science -Priority: optional -Build-Depends: dpkg-dev (>= 1.16.1~), - debhelper (>= 9), - libperl4-corelibs-perl, - autotools-dev -Standards-Version: 3.9.4 -Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/infernal/trunk/ -Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/infernal/trunk/ -Homepage: http://infernal.janelia.org/ - -Package: infernal -Architecture: amd64 kfreebsd-amd64 -Depends: ${shlibs:Depends}, - ${misc:Depends} -Description: inference of RNA secondary structural alignments - Infernal ("INFERence of RNA ALignment") searches DNA sequence - databases for RNA structure and sequence similarities. It provides an - implementation of a special variant of profile stochastic context-free - grammars called covariance models (CMs). A CM is like a sequence - profile, but it scores a combination of sequence consensus and RNA - secondary structure consensus, so in many cases, it is more capable of - identifying RNA homologs that conserve their secondary structure more - than their primary sequence. - . - The tool is an integral component of the Rfam database. - -Package: infernal-doc -Architecture: all -Section: doc -Depends: ${shlibs:Depends}, - ${misc:Depends} -Description: inference of RNA secondary structural alignments – documentation - Infernal ("INFERence of RNA ALignment") searches DNA sequence - databases for RNA structure and sequence similarities. It provides an - implementation of a special case of profile stochastic context-free - grammars called covariance models (CMs). A CM is like a sequence - profile, but it scores a combination of sequence consensus and RNA - secondary structure consensus, so in many cases, it is more capable of - identifying RNA homologs that conserve their secondary structure more - than their primary sequence. - . - This package provides the documentation which is shipped with the - code of infernal. - -Package: infernal-dbg -Architecture: amd64 kfreebsd-amd64 -Section: debug -Priority: extra -Depends: ${misc:Depends}, - infernal (= ${binary:Version}) -Description: debug information for infernal - This package contains extra information to help the debugging of the - infernal suite. The package is auto-generated. You may be asked - by the upstream developer to install it to help the identification - of a technical problem. - Copied: trunk/packages/infernal/tags/1.1.1-1/debian/control (from rev 17642, trunk/packages/infernal/trunk/debian/control) =================================================================== --- trunk/packages/infernal/tags/1.1.1-1/debian/control (rev 0) +++ trunk/packages/infernal/tags/1.1.1-1/debian/control 2014-08-08 13:16:56 UTC (rev 17657) @@ -0,0 +1,61 @@ +Source: infernal +Maintainer: Debian Med Packaging Team <[email protected]> +Uploaders: Steffen Moeller <[email protected]>, + Andreas Tille <[email protected]> +Section: science +Priority: optional +Build-Depends: dpkg-dev (>= 1.16.1~), + debhelper (>= 9), + libperl4-corelibs-perl, + autotools-dev +Standards-Version: 3.9.5 +Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/infernal/trunk/ +Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/infernal/trunk/ +Homepage: http://infernal.janelia.org/ + +Package: infernal +Architecture: amd64 kfreebsd-amd64 +Depends: ${shlibs:Depends}, + ${misc:Depends} +Description: inference of RNA secondary structural alignments + Infernal ("INFERence of RNA ALignment") searches DNA sequence + databases for RNA structure and sequence similarities. It provides an + implementation of a special variant of profile stochastic context-free + grammars called covariance models (CMs). A CM is like a sequence + profile, but it scores a combination of sequence consensus and RNA + secondary structure consensus, so in many cases, it is more capable of + identifying RNA homologs that conserve their secondary structure more + than their primary sequence. + . + The tool is an integral component of the Rfam database. + +Package: infernal-doc +Architecture: all +Section: doc +Depends: ${shlibs:Depends}, + ${misc:Depends} +Description: inference of RNA secondary structural alignments – documentation + Infernal ("INFERence of RNA ALignment") searches DNA sequence + databases for RNA structure and sequence similarities. It provides an + implementation of a special case of profile stochastic context-free + grammars called covariance models (CMs). A CM is like a sequence + profile, but it scores a combination of sequence consensus and RNA + secondary structure consensus, so in many cases, it is more capable of + identifying RNA homologs that conserve their secondary structure more + than their primary sequence. + . + This package provides the documentation which is shipped with the + code of infernal. + +Package: infernal-dbg +Architecture: amd64 kfreebsd-amd64 +Section: debug +Priority: extra +Depends: ${misc:Depends}, + infernal (= ${binary:Version}) +Description: debug information for infernal + This package contains extra information to help the debugging of the + infernal suite. The package is auto-generated. You may be asked + by the upstream developer to install it to help the identification + of a technical problem. + Deleted: trunk/packages/infernal/tags/1.1.1-1/debian/copyright =================================================================== --- trunk/packages/infernal/trunk/debian/copyright 2014-08-07 16:14:07 UTC (rev 17634) +++ trunk/packages/infernal/tags/1.1.1-1/debian/copyright 2014-08-08 13:16:56 UTC (rev 17657) @@ -1,144 +0,0 @@ -Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ -Upstream-Contact: Infernal developer team at HHMI Janelia Farm: - Diana Kolbe <kolbed janelia.hhmi.org> - Eric Nawrocki <nawrockie janelia.hhmi.org> - Sean Eddy <eddys janelia.hhmi.org>. -Source: ftp://infernal.janelia.org/pub/software/infernal - -Files: debian/* -Copyright: © 2007-2008 Steffen Moeller <[email protected]> - © 2007-2008 Charles Plessy <[email protected]> - © 2009-2013 Andreas Tille <[email protected]> -License: GPL-3 - -Files: rigfilters/* -Copyright: © 2004, Zasha Weinberg -License: BSD-like - 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 University of Washington 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 THE COPYRIGHT HOLDERS AND CONTRIBUTORS - "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 THE COPYRIGHT OWNER OR CONTRIBUTORS 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. - -Files: easel/esl_sse.c easel/esl_vmx.c -Copyright: © 2007 Julien Pommier - © 1992 Stephen Moshier -License: BSD-Easel - -Files: easel/easel.c::esl_tmpfile() -Copyright: © 1999-2001 David A. Wheeler -License: BSD-Easel - -Files: easel/esl_regexp.c -Copyright: © 1986, 1993, 1995 by University of Toronto -License: BSD-Easel - -Files: easel/* -Copyright: © 2004-2008 Sean R. Eddy - © 2006-2008 Howard Hughes Medical Institute -License: BSD-Easel - -License: BSD-Easel - @EASEL_COPYRIGHT@ - . - The Easel library is freely modifiable and redistributable under the - Janelia Farm Software License, a BSD license: - . - Redistribution and use in source and binary forms, with or without - modification, are permitted provided that the following conditions are - met: - . - 1. Redistributions of source code must retain the above copyright - notice, this list of conditions and the following disclaimer. - . - 2. 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. - . - 3. Neither the name of the Howard Hughes Medical Institute 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 THE COPYRIGHT HOLDERS AND CONTRIBUTORS - "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT - LIMITED TO, ANY IMPLIED WARRANTIES OF MERCHANTABILITY, - NON-INFRINGEMENT, OR FITNESS FOR A PARTICULAR PURPOSE ARE - DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS 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; - REASONABLE ROYALTIES; 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. - - -Files: Userguide.pdf -Copyright: Sean R. Eddy -License: GPL-3 -Comment: The PDFs that are coming with the sources from which the userguide is - built are indeed upstream's original sources. They are edited with a PDF - editor. Upstream, Dr Eddy, was consulted in this issue. - - -Files: * -Copyright: © 2001-2013 HHMI Janelia Farm - © 1991-2013 Sean R. Eddy - © 2005-2013 Eric P. Nawrocki - © 2005-2011 Diana L. Kolbe - © 2004 Zasha Weinberg - © 1990 Don G. Gilbert - © 1995-2006 Washington University in St. Louis - © 1992-1995 Medical Research Council, UK - © 2004 University of Washington, Seattle - © 1986,1993,1995 University of Toronto - © 1989-2001 Free Software Foundation - © 1991 Massachusetts Institute of Technology -License: GPL-3 - -License: GPL-3 - This suite of programs 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. - . - In other words, you may modify, copy, or redistribute this source code - and its documentation, but if you do, you must preserve all these - copyrights and distribute all derivative versions as free software - under the GNU General Public License. - . - 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. See the GNU - General Public License for more details. - . - You should have received a copy of the GNU General Public License - along with this software, in the file LICENSE; if not, write to the - Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, - MA 02110-1301, USA or see http://www.gnu.org/ -Comment: On Debian systems, the complete text of the GNU General Public - License version 3 can be found in `/usr/share/common-licenses/GPL-3'. Copied: trunk/packages/infernal/tags/1.1.1-1/debian/copyright (from rev 17646, trunk/packages/infernal/trunk/debian/copyright) =================================================================== --- trunk/packages/infernal/tags/1.1.1-1/debian/copyright (rev 0) +++ trunk/packages/infernal/tags/1.1.1-1/debian/copyright 2014-08-08 13:16:56 UTC (rev 17657) @@ -0,0 +1,143 @@ +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Contact: Infernal developer team at HHMI Janelia Farm: + Diana Kolbe <kolbed janelia.hhmi.org> + Eric Nawrocki <nawrockie janelia.hhmi.org> + Sean Eddy <eddys janelia.hhmi.org>. +Source: ftp://infernal.janelia.org/pub/software/infernal/infernal-1.1.1.tar.gz + +Files: debian/* +Copyright: © 2007-2008 Steffen Moeller <[email protected]> + © 2009-2013 Andreas Tille <[email protected]> +License: GPL-3 + +Files: rigfilters/* +Copyright: © 2004, Zasha Weinberg +License: BSD-like + 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 University of Washington 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 THE COPYRIGHT HOLDERS AND CONTRIBUTORS + "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 THE COPYRIGHT OWNER OR CONTRIBUTORS 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. + +Files: easel/esl_sse.c easel/esl_vmx.c +Copyright: © 2007 Julien Pommier + © 1992 Stephen Moshier +License: BSD-Easel + +Files: easel/easel.c::esl_tmpfile() +Copyright: © 1999-2001 David A. Wheeler +License: BSD-Easel + +Files: easel/esl_regexp.c +Copyright: © 1986, 1993, 1995 by University of Toronto +License: BSD-Easel + +Files: easel/* +Copyright: © 2004-2008 Sean R. Eddy + © 2006-2008 Howard Hughes Medical Institute +License: BSD-Easel + +License: BSD-Easel + @EASEL_COPYRIGHT@ + . + The Easel library is freely modifiable and redistributable under the + Janelia Farm Software License, a BSD license: + . + Redistribution and use in source and binary forms, with or without + modification, are permitted provided that the following conditions are + met: + . + 1. Redistributions of source code must retain the above copyright + notice, this list of conditions and the following disclaimer. + . + 2. 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. + . + 3. Neither the name of the Howard Hughes Medical Institute 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 THE COPYRIGHT HOLDERS AND CONTRIBUTORS + "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT + LIMITED TO, ANY IMPLIED WARRANTIES OF MERCHANTABILITY, + NON-INFRINGEMENT, OR FITNESS FOR A PARTICULAR PURPOSE ARE + DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS 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; + REASONABLE ROYALTIES; 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. + + +Files: Userguide.pdf +Copyright: Sean R. Eddy +License: GPL-3 +Comment: The PDFs that are coming with the sources from which the userguide is + built are indeed upstream's original sources. They are edited with a PDF + editor. Upstream, Dr Eddy, was consulted in this issue. + + +Files: * +Copyright: © 2001-2014 HHMI Janelia Farm + © 1991-2013 Sean R. Eddy + © 2005-2013 Eric P. Nawrocki + © 2005-2011 Diana L. Kolbe + © 2004 Zasha Weinberg + © 1990 Don G. Gilbert + © 1995-2006 Washington University in St. Louis + © 1992-1995 Medical Research Council, UK + © 2004 University of Washington, Seattle + © 1986,1993,1995 University of Toronto + © 1989-2001 Free Software Foundation + © 1991 Massachusetts Institute of Technology +License: GPL-3 + +License: GPL-3 + This suite of programs 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. + . + In other words, you may modify, copy, or redistribute this source code + and its documentation, but if you do, you must preserve all these + copyrights and distribute all derivative versions as free software + under the GNU General Public License. + . + 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. See the GNU + General Public License for more details. + . + You should have received a copy of the GNU General Public License + along with this software, in the file LICENSE; if not, write to the + Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, + MA 02110-1301, USA or see http://www.gnu.org/ +Comment: On Debian systems, the complete text of the GNU General Public + License version 3 can be found in `/usr/share/common-licenses/GPL-3'. _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
