Source: vienna-rna
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Olivier Sallou <osallou@debian.org>,
           Steffen Moeller <moeller@debian.org>
Section: non-free/science
XS-Autobuild: yes
Priority: optional
Build-Depends: debhelper-compat (= 13),
               dh-python,
               python3-dev,
               pkg-config,
               libtool,
               gettext,
               swig (>= 4.0.2),
               perl-doc,
               perl,
               graphviz,
               libdlib-dev,
               libgsl-dev,
               liblapack-dev,
               libmpfr-dev,
               libsvm-dev,
               xxd,
               texlive-latex-extra,
               help2man,
               gengetopt,
               cthreadpool-dev,
               ghostscript,
               doxygen,
               texinfo
#               libg2-dev,
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/vienna-rna
Vcs-Git: https://salsa.debian.org/med-team/vienna-rna.git
Homepage: https://www.tbi.univie.ac.at/RNA/
Rules-Requires-Root: no

Package: vienna-rna
Architecture: any
Depends: ${shlibs:Depends},
         ${misc:Depends}
Recommends: readseq
Description: RNA sequence analysis
 The Vienna RNA Package consists of a C code library and several
 stand-alone programs for the prediction and comparison of RNA secondary
 structures. It is developed and maintained by the group of Ivo Hofacker
 in Vienna.
 .
 RNA secondary structure prediction through energy minimization is the
 most used function in the package. It provides three kinds of dynamic
 programming algorithms for structure prediction:
  * the minimum free energy algorithm of (Zuker & Stiegler 1981) which
    yields a single optimal structure,
  * the partition function algorithm of (McCaskill 1990) which calculates
    base pair probabilities in the thermodynamic ensemble, and the
    suboptimal folding algorithm of (Wuchty et.al 1999) which generates
    all suboptimal structures within a given energy range of the optimal
    energy.
 .
 For secondary structure comparison, the package contains several
 measures of distance (dissimilarities) using either string alignment or
 tree-editing (Shapiro & Zhang 1990). Finally, is provided an algorithm
 to design sequences with a predefined structure (inverse folding).
 The RNAforester package is a tool for aligning RNA secondary structures
 and it's user interface integrates to those of the tools of the
 Vienna RNA package.

Package: python3-rna
Architecture: any
Section: non-free/python
Depends: python3,
         ${python3:Depends},
         ${shlibs:Depends},
         ${misc:Depends},
Description: ViennaRNA Python wrappers
 Python wrappers above ViennaRNA library.
 .
 The Vienna RNA Package consists of a C code library and several
 stand-alone programs for the prediction and comparison of RNA secondary
 structures

Package: librna-perl
Architecture: any
Section: non-free/perl
Depends: ${perl:Depends},
         ${shlibs:Depends},
         ${misc:Depends}
Description: ViennaRNA perl wrappers
 Perl wrappers above ViennaRNA library.
 .
 The Vienna RNA Package consists of a C code library and several
 stand-alone programs for the prediction and comparison of RNA secondary
 structures

#Package: vienna-rna-doc
#Architecture: all
#Section: non-free/doc
#Depends: ${misc:Depends},
#         libjs-jquery
#Suggests: libviennarna0 (= ${binary:Version}),
#          libviennarna-dev (= ${binary:Version})
#Description: RNA sequence analysis documentation package
# The Vienna RNA Package consists of a C code library and several
# stand-alone programs for the prediction and comparison of RNA secondary
# structures. It is developed and maintained by the group of Ivo Hofacker
# in Vienna.
# .
# This package contains the documentation for vienna-rna.