Package: viennarna Version: 1.8.1 Revision: 2 Source: http://www.tbi.univie.ac.at/~ivo/RNA/ViennaRNA-%v.tar.gz Source-MD5: c16af060448fd890ff483839dff0777a SourceDirectory: ViennaRNA-%v NoSetCPPFLAGS: true NoSetLDFLAGS: true InfoDocs: RNAlib.info ConfigureParams: --mandir=%p/share/man --infodir=%p/share/info Depends: perl586-core | system-perl586 | perl588-core | system-perl588 | perl5100-core | system-perl5100 UpdatePOD: true Description: RNA structural prediction DescDetail: << The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. The package allows you to - predict minimum free energy secondary structures - calculate the partition function for the ensemble of structures - calculate suboptimal structures in a given energy range - predict consensus secondary structures from a multiple sequence alignment - predict melting curves - search for sequences folding into a given structure - compare two secondary structures - The package includes a Perl5 module that gives access to almost all functions of the C library from Perl. - The following executables are provided in /sw/bin: RNAfold -- predict minimum energy secondary structures and pair probabilities RNAeval -- evaluate energy of RNA secondary structures RNAheat -- calculate the specific heat (melting curve) of an RNA sequence RNAinverse -- inverse fold (design) sequences with predefined structure RNAdistance -- compare secondary structures RNApdist -- compare base pair probabilities RNAsubopt -- complete suboptimal folding RNAplot -- RNA structure drawings in PostScript, SVG, or GML RNAcofold -- predict hybrid structure of two sequences RNAduplex -- predict possible hybridization sites between two sequences RNAalifold -- predict the consensus structure of several aligned sequences RNALfold -- predict locally stable structure of long sequences RNAplfold -- compute average pair probabilities for local base pairs RNApaln -- fast structural alignment of RNA sequences using string alignments Kinfold -- explores the folding kinetics of RNA RNAforester -- computes tree-alignments of RNA structures Several small but helpful Perl Utilities are in /sw/share/ViennaRNA/bin which is not added to your PATH by default. -- For more detailed information on these please enter the command info RNA . << PatchScript: << #!/bin/zsh -efv #perl -pi -e 's|Version 1.6|Version 1.7|g' NEWS perl -pi -e 's|Version 1.6|Version 1.8|g' README perl -pi -e 's|Version 1.6|Version 1.8|g' man/RNAlib.texinfo << InstallScript: << #!/bin/zsh -efv perl -pi.bak -e 's|/usr/local|%p/share|g' Perl/Makefile.perl perl -pi.bak -e 's;/usr/share/man;%p/share/man;g' Perl/Makefile.perl mkdir -p %i/share/man/man3/ mkdir -p %i/lib mkdir -p %i/include perl -pi.bak -e 's|%p/|%i/|g' RNAforester/g2-0.70/Makefile if [[ $(sw_vers -productVersion) < 10.6 ]]; then make -j1 install DESTDIR=%d INSTALLPRIVLIB=%p/lib/perl5/5.8.8/ INSTALLARCHLIB=%p/lib/perl5/5.8.8/darwin-thread-multi-2level/ INSTALLSITELIB=%p/lib/perl5/5.8.8/ INSTALLSITEARCH=%p/lib/perl5/5.8.8/darwin-thread-multi-2level INSTALLSCRIPT=%p/share/viennarna/scripts else make -j1 install DESTDIR=%d INSTALLPRIVLIB=%p/lib/perl5/5.10.0/ INSTALLARCHLIB=%p/lib/perl5/5.10.0/darwin-thread-multi-2level/ INSTALLSITELIB=%p/lib/perl5/5.10.0/ INSTALLSITEARCH=%p/lib/perl5/5.10.0/darwin-thread-multi-2level INSTALLSCRIPT=%p/share/viennarna/scripts fi << # ############################################################################### # SplitOff: << Package: %N-dev BuildDependsOnly: True Files: << include/*.h include/ViennaRNA/*.h lib/*.a << << ############################################################################### DocFiles: AUTHORS ChangeLog COPYING INSTALL INSTALL.configure NEWS README THANKS License: GPL Homepage: http://www.tbi.univie.ac.at/~ivo/RNA/ Maintainer: W. G. Scott