[med-svn] [Git][med-team/hhsuite][master] 6 commits: Mark hhsuite-data as Multi-Arch: foreign
Michael R. Crusoe
gitlab at salsa.debian.org
Fri Mar 1 13:09:04 GMT 2019
Michael R. Crusoe pushed to branch master at Debian Med / hhsuite
Commits:
d88e87c3 by Michael R. Crusoe at 2019-03-01T10:10:43Z
Mark hhsuite-data as Multi-Arch: foreign
- - - - -
2ba87486 by Michael R. Crusoe at 2019-03-01T10:17:39Z
add missing ${perl:Depends}
- - - - -
bb8d63d8 by Michael R. Crusoe at 2019-03-01T10:24:17Z
add new reference to 10.1101/560029
- - - - -
424fb601 by Michael R. Crusoe at 2019-03-01T10:53:24Z
update copyright
- - - - -
87d1893f by Michael R. Crusoe at 2019-03-01T10:53:43Z
misc
- - - - -
27e34bf7 by Michael R. Crusoe at 2019-03-01T10:55:44Z
docs are gone
- - - - -
4 changed files:
- debian/changelog
- debian/control
- debian/copyright
- debian/upstream/metadata
Changes:
=====================================
debian/changelog
=====================================
@@ -1,10 +1,16 @@
hhsuite (3.1.0-1) UNRELEASED; urgency=medium
+ * Team upload.
* New upstream release.
"Added hhsearch_omp, hhsearch_mpi, hhalign_omp and haling_mpi binaries
Removed non-GPLv3 compatible code
ffindex_apply_mpi will not crash anymore on systems with low amount of
virtual memory"
+ * The non-GPLv3 code was in src/hhprefilter.cpp; now gone
+ * Mark hhsuite-data as Multi-Arch: foreign
+ * Drop hhsuite-doc: documentation moved by upstream to
+ https://github.com/soedinglab/hh-suite/wiki
+ * Removed '-march=native'
-- Michael R. Crusoe <michael.crusoe at gmail.com> Thu, 28 Feb 2019 08:16:48 -0600
=====================================
debian/control
=====================================
@@ -8,8 +8,6 @@ Priority: optional
Build-Depends: debhelper (>= 11~),
libffindex0-dev (>= 0.9.9.8),
cmake,
- texlive-latex-base,
- texlive-latex-recommended,
imagemagick,
help2man
Standards-Version: 4.3.0
@@ -21,6 +19,7 @@ Package: hhsuite
Architecture: amd64
Depends: ${shlibs:Depends},
${misc:Depends},
+ ${perl:Depends},
ffindex (>= 0.9.9.8),
hhsuite-data (= ${source:Version}),
python
@@ -46,6 +45,7 @@ Description: sensitive protein sequence searching based on HMM-HMM alignment
Package: hhsuite-data
Architecture: all
+Multi-Arch: foreign
Depends: ${misc:Depends}
Description: sensitive protein sequence searching based on HMM-HMM alignment (data)
HH-suite is an open-source software package for sensitive protein sequence
=====================================
debian/copyright
=====================================
@@ -3,12 +3,14 @@ Upstream-Name: hhsuite
Upstream-Contact: Andreas Hauser <hauser at genzentrum.lmu.de>
Johannes Soeding <soeding at genzentrum.lmu.de>
Source: ftp://toolkit.lmb.uni-muenchen.de/HH-suite/releases/hhsuite-([0-9.]+)\.tar\.gz
+File-Excluded: scripts/hhpred/
+ lib/ffindex/
Files: *
Copyright: 2006, 2012 Johannes Soeding
2012 Michael Remmert
2012 Andreas Hauser <hauser at genzentrum.lmu.de>
- 2006, 2009, 2012 Andreas Biegert
+ 2006, 2009-2012 Andreas Biegert
2009-2012 Christof Angermueller
License: GPL-3.0+
@@ -16,13 +18,25 @@ Files: src/cs/getopt_pp.h src/cs/getopt_pp.cc
Copyright: 2007, 2008 Daniel Gutson, FuDePAN
License: GPL-3.0+
+Files: src/hhprefilter.h
+Copyright: 2012-2015, Boston College.
+License: Expat
+
Files: debian/*
Copyright: 2012 Laszlo Kajan <lkajan at rostlab.org>
+ 2019 Michael R. Crusoe <michael.crusoe at gmail.com>
License: GPL-3.0+
+Files: cmake/xxdi.pl
+Copyright: 2013, Linux Foundation
+ 2013, Greg Kroah-Hartman <gregkh at linuxfoundation.org>
+License: GPL-2
+
Files: cmake/FindASan.cmake cmake/FindMSan.cmake cmake/FindTSan.cmake cmake/FindUBSan.cmake
Copyright: 2013 Matthew Arsenault
-License: MIT
+License: Expat
+
+License: Expat
Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the rights
@@ -41,15 +55,6 @@ License: MIT
OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
THE SOFTWARE.
-Files: doc/UseLATEX.cmake
-Copyright: 2004 Sandia Corporation
-License: Sandia
- Under the terms of Contract DE-AC04-94AL85000, there is a non-exclusive
- license for use of this work by or on behalf of the
- U.S. Government. Redistribution and use in source and binary forms, with
- or without modification, are permitted provided that this Notice and any
- statement of authorship are reproduced on all copies.
-
License: GPL-3.0+
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
=====================================
debian/upstream/metadata
=====================================
@@ -26,6 +26,18 @@ Reference:
URL: http://bioinformatics.oxfordjournals.org/content/21/7/951.abstract
eprint: "http://bioinformatics.oxfordjournals.org/content/\
21/7/951.full.pdf+html"
+ - Author: >
+ Martin Steinegger and Markus Meier and Milot Mirdita and Harald Voehringer
+ and Stephan J. Haunsberger and Johannes Söding
+ Title: >
+ HH-suite3 for fast remote homology detection and deep protein
+ annotation
+ Journal: bioRxiv
+ publisher: Cold Spring Harbor Laboratory
+ Year: 2019
+ DOI: 10.1101/560029
+ URL: https://www.biorxiv.org/content/early/2019/02/25/560029
+ eprint: https://www.biorxiv.org/content/early/2019/02/25/560029.full.pdf
Registry:
- Name: OMICtools
Entry: OMICS_28407
View it on GitLab: https://salsa.debian.org/med-team/hhsuite/compare/4b9bf32a4f1f7fc5dcdf6c97a8d42d3d542c48e5...27e34bf7f7e5850fb280fb7e23da4fda70f88bde
--
View it on GitLab: https://salsa.debian.org/med-team/hhsuite/compare/4b9bf32a4f1f7fc5dcdf6c97a8d42d3d542c48e5...27e34bf7f7e5850fb280fb7e23da4fda70f88bde
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