Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 165 Depends: libc6 (>= 2.29), perl Filename: amd64/barriers_1.8.1-1_amd64.deb Size: 60652 MD5sum: 467b26a29d1a3d2e94e070bcae569537 SHA1: adc708eef65894a7ee0fec58e311fe21eb8787e3 SHA256: 10b2f5d3e906f84e82343dca8db735ddcd31c5c7654a6bd2d9070d1a854f4a4a Section: science Priority: optional Homepage: http://www.tbi.univie.ac.at/RNA/Barriers Description: Compute local minima and energy barriers of a landscape The program barriers reads an energy sorted list of conformations of a landscape, and computes local minima and energy barriers of the landscape. For RNA secondary structures, suitable input is produced by RNAsubopt For each local minimum found it prints to stdout, the conformation of the minimum, its energy, the number of the "parent"-minimum it merges with, and the height of the energy barrier. Additional information on each minimum, such as saddle point conformation and basin sizes can be included via options. A PostScript drawing of the resulting tree is written to "tree.ps" in the current directory. Package: mlapack-dev Source: mlapack Version: 0.8.1-2 Architecture: amd64 Maintainer: Maho Nakata Installed-Size: 121429 Depends: libc6 (>= 2.29), libgcc-s1 (>= 4.3), libstdc++6 (>= 5.2), libgomp1, libquadmath0, libgmp-dev, libmpfr-dev, libmpc-dev, libqd-dev Conflicts: mlapack-dev Provides: mlapack-dev Filename: amd64/mlapack-dev_0.8.1-2_amd64.deb Size: 21643932 MD5sum: 097667348e3d148262d9f18da4916aed SHA1: 485bb60f8f33de12cf1690279eed75ece5f2ca07 SHA256: 465b8d9368d5dc2cc75cc6eee2a9e862800c8377143552a261d2c49fa331ad4b Section: devel Priority: optional Description: mlapack - MPACK multi precision linear algebra package development files The MPACK is a multiprecision linear algebra package based on BLAS and LAPACK. This package is rewritten in C++, and supports several high precision libraries like GMP, MPFR and QD etc so that users can choose for user's convenience. The MPACK is a free software (2-clause BSD style license with original license by LAPACK). Package: perl-rna Source: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11858 Depends: perl (>= 5.30.0-9build1), perlapi-5.30.0, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/perl-rna_2.8.0-1_amd64.deb Size: 2199800 MD5sum: b642d85b63b6cf56a1a2e8a8e2998355 SHA1: 6e225f82c9b8d1a75e553b628e8ded2af9c7576e SHA256: 1ab484b63827fe4fc6ae0af55f9b8051cd6ed806c5c2ef20fac19f21febb6e3a Section: perl Priority: optional Description: Perl bindings to ViennaRNA RNAlib The RNA module to access RNAlib C-library functions from within Perl scripts Package: perl-rna-barrier Source: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 27 Depends: perl:any, perl, perl-rna Filename: amd64/perl-rna-barrier_1.8.1-1_amd64.deb Size: 6672 MD5sum: 022d8eae0294d11a03d0e7b2f20ee832 SHA1: ccc25ae3ce11a895b0c708c96d74f2be206acff3 SHA256: 9de13d493b7c5626ea39579360b713f7ae3b11f4aa641b0284a86165fd1ab5b2 Section: perl Priority: optional Homepage: http://www.tbi.univie.ac.at/RNA/Barriers Description: Perl module and scripts for Barriers The RNA/barrier module and perl scripts to access some functionality of the Barriers program Package: python3-rna Source: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 16035 Depends: python3 (<< 3.9), python3 (>= 3.8~), python3:any, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl23 (>= 2.5), liblapack3 | liblapack.so.3, libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/python3-rna_2.8.0-1_amd64.deb Size: 2664272 MD5sum: 75f21a69ac01e4f65603a399ce600803 SHA1: 218295c94506b140b0e3e0520e1c4e2d13f482d9 SHA256: c9a3daf7ce5638945c7c722dff7b38563d57fafa80e00c5da7634719481770f8 Section: python Priority: optional Description: Python 3 bindings to ViennaRNA RNAlib The RNA class to access RNAlib C-library functions from within Python 3 scripts Package: treekin Version: 0.5.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 119 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3, libstdc++6 (>= 4.9), libblas3, liblapacke, gfortran, mlapack-dev Filename: amd64/treekin_0.5.0-1_amd64.deb Size: 47756 MD5sum: 158a34727043a96d5fc499cb1969e889 SHA1: 3133a780f037adf478384d99fdcde5e5c848aff0 SHA256: c888a416be904dd8d4b53500ea1f466463a1ede26f35df397d988ad84b83b61a Section: science Priority: optional Homepage: http://www.tbi.univie.ac.at/RNA/Treekin Description: Efficient computation of RNA folding dynamics The program treekin computes folding dynamics on coarse grained version of an energy landscape, where all conformations belonging to the same local minimum have been contracted into a single macro-state. Treekin reads in the a list of local minima (macro-states) and effective refolding rates between these minima as computed by barriers --rates. Since the the number of macro-states is small (typically on the order of 100—1000), folding dynamics can be computed by direct numerical integration of the master equation conformations (i.e. diagonalization of the rate matrix). For detailed instructions see the man page. Package: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 39309 Depends: libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), liblapack | liblapack3, liblapacke, libc6 (>= 2.29), libgcc-s1 (>= 3.3.1), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Recommends: python3-rna, perl-rna Breaks: vienna-rna (<< 2.2.1-2) Replaces: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna_2.8.0-1_amd64.deb Size: 3404444 MD5sum: 9dd323742d4216883f1110b0f99c2f24 SHA1: 392f6ee1a7b1fdea9c0b50d6cde69b43ff4fa466 SHA256: 10af40fc78d9f8b3e98093cdd6d689c2e65f77b82f77aa8ee6d1db37445a2144 Section: science Priority: optional Description: Vienna RNA Package - Core The Vienna RNA Package Core consists of several executable programs and various scripts for the prediction and comparison of RNA secondary structures. Package: viennarna-dev Source: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 158998 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.8.0-1_amd64.deb Size: 47178984 MD5sum: 709bc3f067c1b4a2b7c8b24f75c8ec6a SHA1: 2a22d7cafb58f21422cb1a5dc4caebcbe5ae5b6c SHA256: db1f97182cd92e1288efe89f58f7ce11bec6e01188bfdc9f12d4fca16984dab6 Section: devel Priority: optional Description: ViennaRNA Package - RNAlib Development files Header files and static RNAlib C-library of the ViennaRNA Package Package: viennarna-doc Source: viennarna Version: 2.8.0-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 37604 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.8.0-1_all.deb Size: 14154880 MD5sum: 846f25e207817a660f793de6b7545ddd SHA1: c4fd4c1d6d252c8384e2ed06455732606ca83ac3 SHA256: d18af42c155e42b7162752e966609db5a754cccac81992d13535b73031d8b81d Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format