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: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10875 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_2.7.0-1_amd64.deb Size: 1983620 MD5sum: 585f220be5cbdc2aec52075d7b82a79e SHA1: 134b30d2ee048a96f72fb53d20ba645b0c3fd867 SHA256: 4dfe7a6eebeacf4d199364655ea2fe26099fa55251aff9acb6504190e53a0d2d 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: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11241 Depends: python3 (<< 3.9), python3 (>= 3.8~), python3:any, 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/python3-rna_2.7.0-1_amd64.deb Size: 1963032 MD5sum: b145f2f2dab3e1f8582067c33582a347 SHA1: 4ae22fa9c087afbfdca825a9fbf102dc1bdb8dac SHA256: c822a2e5c6a72bf54165afc74c4215ebf2b2b3c84268141c9f8de55fc62c0a37 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: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 37229 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_2.7.0-1_amd64.deb Size: 3083536 MD5sum: 1be49ae1e3afd42577a1805f5cd5cb30 SHA1: a82c97e9869c9d3cefb2000b55d7a543042c3340 SHA256: ec2479615f75225ee30feacb436b8c5dd742d03cc42aebe49257802ce7dc5238 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: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 128494 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.7.0-1_amd64.deb Size: 39085060 MD5sum: 396071a41916331cb9134d5dac99fa67 SHA1: bc1093149d7511f04fb63a4e92e7650591d5a591 SHA256: 026d48117b30e174635e723b1473ccea54361f76e4ea97603ff908f5152cb2a6 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: 2.7.0-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 25634 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.7.0-1_all.deb Size: 12001220 MD5sum: 9b473374d468ed8a23d6b986965177cd SHA1: 443178919db55d29bbd0dffdbbd4db72e1a55042 SHA256: b1546b4ebdc41e120ac44e2692263540225354ee9971f79f24f78916f68a169a Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format