Initial debian packaging.

parent 3f0aaeb3
.TH "CB2BIB" "1" "2009/05/17" "" ""
.SH "NAME"
cb2bib \- software to extract bibliographic references from various sources
.SH "SYNOPSIS"
.HP 7
\fBcb2bib\fR
.SH "DESCRIPTION"
.PP
\fBcb2bib\fR is a software for the de novo interpretation of
peptide CID spectra. It takes peptide CID data and some ancillary
data files (of which the location is specified on the command line)
and output a results file containing all the sequences hypothetically
matching the CID data.
When you invoke \fBcb2bib\fR with the \fB-h\fR option, the program
lists all the options that are available on the command line.
.SH "KEY SHORTCUTS"
.PP
.HP 4
\fBKey:\fR Description
.PP
\fBAlt A:\fR Open cb2Bib Annote
.PP
\fBAlt B:\fR Edit Bookmarks
.PP
\fBAlt C:\fR Preparses cb2Bib's clipboard
.PP
\fBAlt D:\fR Deletes temporary BibTeX output file
.PP
\fBAlt E:\fR Edit Regular Expressions
.PP q
\fBAlt F:\fR Select File source filename
.PP
\fBAlt I:\fR Insert Regular Expression
.PP
\fBAlt J:\fR Edit Journal Abbreviations
.PP
\fBAlt O:\fR Open File Document
.PP
\fBAlt P:\fR Postprocess BibTeX
.PP
\fBAlt R:\fR Restarts automatic recognition
.PP
\fBEsc:\fR Quits cb2Bib popup menu
.PP
\fBRight:\fR Click Editor popup menu
.RE
.SH "BIBLIOGRAPHICAL REFERENCES TO BE CITED"
.PP
R. S. Johnson and J. A. Taylor (2002) "Searching sequence databases
via de novo peptide sequencing by tandem mass spectrometry",
Mol. Biotechnology Vol. 22, No. 3. (November 2002), pp. 301-315.
.PP
J. A. Taylor and R. S. Johnson (2000) "Implementation and uses of
automated de novo peptide sequencing by tandem mass
spectrometry". Anal. Chem. 73:2594-2604.
.PP
R. S. Johnson and J. A. Taylor (2000) "Searching sequence databases
via de novo peptide sequencing by tandem mass spectrometry", "Protein
and Peptide Analysis: Advances in the Use of Mass Spectrometry",
146:41-61 (Methods in Molecular Biology series, Humana Press).
.PP
J. A. Taylor and R. S. Johnson (1997) "Sequence database searches via
de novo peptide sequencing by tandem mass spectrometry". Rapid
Comm. Mass Spec. 11:1067-1075.
.RE
.SH "AUTHORS"
.PP
\fB Richard S\&. Johnson\fR <jsrichar\&@alum\&.mit\&.edu>
.sp -1n
.IP "" 4
Program author\&.
.PP
\fBFilippo Rusconi\fR <\&rusconi\&-debian\&@laposte\&.net\&>
.sp -1n
.IP "" 4
Man\-page author for the Debian distribution\&.
.SH "COPYRIGHT"
Copyright \(co 1995-1999
.br
Copyright \(co 2009 Filippo Rusconi
.br
.PP
This manual page was written for the Debian system (but may be used by others)\&.
.PP
Permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 or (at your option) any later version published by the Free Software Foundation\&.
.sp
usr/bin
usr/share/cb2bib/c2btools
debian/build/bin/* usr/bin
c2btools/dl_cb2bib /usr/bin
c2btools/* usr/share/cb2bib/c2btools
data /usr/share/cb2bib
testPDFImport /usr/share/cb2bib
debian/cb2bib.xpm usr/share/pixmaps
src/icons/cb2bib.png usr/share/pixmaps
cb2bib.desktop usr/share/applications
dl_cb2bib.desktop usr/share/applications
debian/cb2bib.1
\ No newline at end of file
?package(cb2bib):needs="X11" section="Applications/Text" \
title="cb2bib" \
longtitle="Extract bibliographical data from various sources" \
icon="/usr/share/pixmaps/cb2bib.xpm" \
command="/usr/bin/cb2bib"
cb2bib (1.2.3-1) unstable; urgency=low
* Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
-- Filippo Rusconi <rusconi-debian@laposte.net> Sat, 16 May 2009 20:56:59 +0200
Source: cb2bib
Section: text
Priority: optional
Maintainer: Filippo Rusconi <rusconi-debian@laposte.net>
Uploaders: Filippo Rusconi <rusconi-debian@laposte.net>
DM-Upload-Allowed: yes
Build-Depends: debhelper (>= 7), libqt4-dev (>=4.4), imagemagick
Standards-Version: 3.8.1
Homepage: http://www.molspaces.com/cb2bib/
Package: cb2bib
Architecture: any
Depends: ${shlibs:Depends}, ${misc:Depends}
Suggests: libimage-exiftool-perl, konqueror, poppler-utils
Description: extract bibliographic references from various sources
cb2bib is a program to extract bibliographic references from
unformatted and non standard sources, like:
- email alerts;
- journal Web pages;
- and most interestingly PDF files.
.
Output references are written to BibTeX-formatted files. Other
features include:
- article files can be linked and renamed by dragging them onto the
cb2Bib window;
- editing and browsing BibTeX files;
- citing references, searching references and the full contents of the
referenced documents;
- inserting bibliographic metadata to documents;
- writing short notes that interrelate several references.
This package was debianized by Filippo Rusconi <rusconi-debian@laposte.net> on
Sat, 16 May 2009 20:56:59 +0200.
It was downloaded from http://www.molspaces.com/cb2bib/
Author: Pere Constans <constans@molspaces.com>
cb2bib Copyright (C) 2004-2008 Pere Constans
License for cb2bib: GNU General Public License version 3
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 3 of the License, or
(at your option) any later version.
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.
You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
The Debian packaging is (C) 2009, Filippo Rusconi
<rusconi-debian@laposte.net> and is licensed under the GPL, see
`/usr/share/common-licenses/GPL'.
?package(cb2bib):needs="X11" section="Applications/Text" \
title="dl_cb2bib" \
longtitle="Extract bibliographical data from various sources" \
icon="/usr/share/pixmaps/cb2bib.xpm" \
command="/usr/bin/dl_cb2bib"
?package(cb2bib):needs="X11|text|vc|wm" section="Applications/see-menu-manual"\
title="cb2bib" command="/usr/bin/cb2bib"
#!/usr/bin/make -f
# Based on the initial work of Joey Hess and Craig Small.
# Uncomment this to turn on verbose mode.
export DH_VERBOSE=1
DEB_HOST_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_HOST_GNU_TYPE)
DEB_BUILD_GNU_TYPE ?= $(shell dpkg-architecture -qDEB_BUILD_GNU_TYPE)
ifneq ($(DEB_HOST_GNU_TYPE),$(DEB_BUILD_GNU_TYPE))
CROSS= --build $(DEB_BUILD_GNU_TYPE) --host $(DEB_HOST_GNU_TYPE)
else
CROSS= --build $(DEB_BUILD_GNU_TYPE)
endif
PACKAGE=cb2bib
BUILDDIR=$(CURDIR)/debian/build
clean:
dh_testdir
dh_testroot
dh_clean
rm -rf $(BUILDDIR)
rm -f debian/cb2bib.xpm
configure-stamp:
dh_testdir
rm -rf $(BUILDDIR)
rm -f debian/cb2bib.xpm
mkdir $(BUILDDIR)
cp -rpf cb2bib.pro cb2bib.rc configure src $(BUILDDIR)
cd $(BUILDDIR) && ./configure --qmakepath /usr/bin/qmake-qt4 \
--prefix /usr --bindir /usr/bin --datadir /usr/share \
--desktopdatadir /usr/share/applications --icondir \
/usr/share/pixmaps
touch configure-stamp
build-arch-stamp: configure-stamp
dh_testdir
dh_prep -a
make -C $(BUILDDIR)
convert src/icons/cb2bib.png debian/cb2bib.xpm
touch build-arch-stamp
.PHONY: build-indep
build-indep:
.PHONY: build-arch
build-arch: build-arch-stamp
.PHONY: build
build: build-indep build-arch
# Build architecture-independent files here.
.PHONY: binary-indep
binary-indep:
# We have nothing to do: no arch-dependent package"
# Build architecture-dependent files here.
.PHONY: binary-arch
binary-arch: build-arch-stamp
dh_testdir -a
dh_testroot -a
dh_installchangelogs -a
dh_installdocs -a
dh_installexamples -a
dh_install -a
dh_installmenu -a cb2bib.menu dl_cb2bib.menu
dh_desktop -a cb2bib.desktop dl_cb2bib.desktop
dh_installman -a
dh_strip -a
dh_compress
dh_fixperms
dh_installdeb
dh_shlibdeps
dh_gencontrol
dh_md5sums
dh_builddeb
.PHONY: binary
binary: binary-indep binary-arch
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