debian/0000755000000000000000000000000012236353517007175 5ustar debian/changelog0000644000000000000000000000060212236216113011033 0ustar aragorn (1.2.36-2) unstable; urgency=low * Adjust weekday in changelog (fixes lintian warning) * Fix spelling error in manpage -- Sascha Steinbiss Tue, 05 Nov 2013 15:22:41 +0100 aragorn (1.2.36-1) unstable; urgency=low * Initial release (Closes: #701571) -- Sascha Steinbiss Sat, 16 Feb 2013 10:02:30 +0100 debian/source/0000755000000000000000000000000012236353350010470 5ustar debian/source/format0000644000000000000000000000001412105454303011671 0ustar 3.0 (quilt) debian/copyright0000644000000000000000000000175212105454303011123 0ustar Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: aragorn Source: http://mbio-serv2.mbioekol.lu.se/ARAGORN/ Files: * Copyright: Copyright: 2003-2015 Dean Laslett License: GPL-2+ This package 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. . This package 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 program. If not, see . On Debian systems, the complete text of the GNU General Public License version 2 can be found in "/usr/share/common-licenses/GPL-2". debian/control0000644000000000000000000000156212114741654010602 0ustar Source: aragorn Section: science Priority: optional Maintainer: Debian Med Packaging Team Uploaders: Sascha Steinbiss Build-Depends: debhelper (>= 9), hardening-includes Standards-Version: 3.9.4 Homepage: http://mbio-serv2.mbioekol.lu.se/ARAGORN/ Vcs-Browser: http://svn.debian.org/viewvc/debian-med/trunk/packages/aragorn/trunk/ Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/aragorn/trunk/ Package: aragorn Architecture: any Depends: ${shlibs:Depends}, ${misc:Depends} Description: tRNA and tmRNA detection in nucleotide sequences The program employs heuristic algorithms to predict tRNA secondary structure, based on homology with recognized tRNA consensus sequences and ability to form a base-paired cloverleaf. tmRNA genes are identified using a modified version of the BRUCE program. debian/upstream0000644000000000000000000000100112114673264010747 0ustar Name: aragorn Contact: Bjorn Canback Homepage: http://mbio-serv2.mbioekol.lu.se/ARAGORN/ Reference: Author: Laslett, Dean and Canback, Bjorn Title: > ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences. Journal: Nucleic Acids Research Year: 2004 Volume: 32 Number: 1 Pages: 11-16 DOI: 10.1093/nar/gkh152 PMID: 14704338 URL: http://nar.oxfordjournals.org/content/32/1/11.long eprint: http://nar.oxfordjournals.org/content/32/1/11.full.pdf debian/patches/0000755000000000000000000000000012236353350010617 5ustar debian/patches/series0000644000000000000000000000001612236201105012017 0ustar spelling.diff debian/patches/spelling.diff0000644000000000000000000000035712236216054013272 0ustar --- a/aragorn.1 +++ b/aragorn.1 @@ -362,7 +362,7 @@ .PP \fB\-q\fR .RS 4 -Dont print configuration line (which switchs and files were used)\&. +Do not print configuration line (which switchs and files were used)\&. .RE .PP \fB\-rn\fR debian/rules0000755000000000000000000000120612236203613010243 0ustar #!/usr/bin/make -f # -*- makefile -*- export DESTDIR=$(CURDIR)/debian/aragorn export DH_ALWAYS_EXCLUDE=.gitignore include /usr/share/hardening-includes/hardening.make CFLAGS=$(shell dpkg-buildflags --get CFLAGS) LDFLAGS=$(shell dpkg-buildflags --get LDFLAGS) CFLAGS+=$(HARDENING_CFLAGS) LDFLAGS+=$(HARDENING_LDFLAGS) %: dh $@ override_dh_auto_clean: rm -f aragorn override_dh_auto_build: $(CC) $(CFLAGS) $(LDFLAGS) -O3 -ffast-math -finline-functions -o aragorn *.c override_dh_auto_install: mkdir -p $(DESTDIR)/usr/bin cp aragorn $(DESTDIR)/usr/bin mkdir -p $(DESTDIR)/usr/share/man/man1 cp aragorn.1 $(DESTDIR)/usr/share/man/man1 debian/compat0000644000000000000000000000000212105454303010361 0ustar 9 debian/watch0000644000000000000000000000011512114716130010210 0ustar version=3 http://mbio-serv2.mbioekol.lu.se/ARAGORN/Downloads/aragorn(.*).tgz