diff options
| author | Rob van Nues <sborg63@disroot.org> | 2019-07-13 08:25:08 +0700 |
|---|---|---|
| committer | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2019-07-13 08:25:23 +0700 |
| commit | f383bf9d2ceffa3b5bbea777fd14dae9ce0fb5af (patch) | |
| tree | b821b9dda2c7b1609814db45e8ddd8f44194db2d /academic/ViennaRNA/README | |
| parent | 543a2f92ac942e08e784a6be7292c35e58eee05a (diff) | |
academic/ViennaRNA: Updated for version 2.4.13.
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic/ViennaRNA/README')
| -rw-r--r-- | academic/ViennaRNA/README | 36 |
1 files changed, 23 insertions, 13 deletions
diff --git a/academic/ViennaRNA/README b/academic/ViennaRNA/README index a8fb799e7974b..6ad531d628a7f 100644 --- a/academic/ViennaRNA/README +++ b/academic/ViennaRNA/README @@ -1,8 +1,21 @@ # ViennaRNA Package -A C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. +A C code library and several stand-alone programs for the prediction +and comparison of RNA secondary structures. -Amongst other things, our implementations allow you to: +A tutorial (see /usr/doc/$PRGNAM-$VERSION/RNA-tutorial-$VERSION.pdf) +and examples can be found in /usr/share/$PRGNAM/tutorial and +/usr/share/$PRGNAM/examples + +For those who wish to link the Vienna package to their own C, perl or python programs (see below), +the RNAlib Reference Manual can be assessed at: + +https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/html/index.html +(or unpacked from the src: $PRGNAM-$VERSION/doc/html/) +https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/RNAlib-$VERSION.pdf +(or unpacked from the src: $PRGNAM-$VERSION/doc/RNAlib-$VERSION.pdf) + +Amongst other things, the ViennRNA implementations allow you to: - predict minimum free energy secondary structures - calculate the partition function for the ensemble of structures @@ -15,9 +28,15 @@ Amongst other things, our implementations allow you to: - compare two secondary structures - predict hybridization structures of two RNA molecules -The package includes `Perl 5`, `Python 2`, and `Python 3` modules that give +The package includes `Perl 5` and `Python 3` modules that give access to almost all functions of the C library from within the respective -scripting languages. +scripting languages. For this reason, python3 is a dependency + +The `Python 2` module can be built as well, or instead of the one for `Python 3`; +just edit the SlackBuild or run it by setting build options PYTHON=yes PYTHON3=no. +(e.g. in sbopkg or run it from the commandline -within the directory containing +the SlackBuild script and downloaded source archive- as: +`PYTHON=yes PYTHON3=no ./ViennaRNA.SlackBuild`) There is also a set of programs for analyzing sequence and distance data using split decomposition, statistical geometry, and cluster methods. @@ -27,15 +46,6 @@ The code very rarely uses static arrays, and all programs should work for sequences up to a length of 32,700 (if you have huge amounts of memory that is). -For those who wish to link the Vienna package their own C, perl or python programs, -the RNAlib Reference Manual can be assessed at: - -https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/html/index.html - -or downloaded from: - -https://www.tbi.univie.ac.at/RNA/ViennaRNA/doc/RNAlib-$VERSION.pdf - For further info see: https://www.tbi.univie.ac.at/RNA/documentation.html |