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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11509 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_2.7.2-1_amd64.deb Size: 2103080 MD5sum: 9aa6ee907d1445bb6e91994ac676f331 SHA1: 7bc5c995524065e02dc1ca2db1b0a95fd2a956e0 SHA256: 9d6d6bd7e8e7ebad9948e3ada613a0fe2fc813b0154c7ef8b118872e6a5b00f9 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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11804 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_2.7.2-1_amd64.deb Size: 2067652 MD5sum: d8e5e48fc8ce004cd6498b96dd2a68f5 SHA1: 9c47e18034866a2e024b963e55608861f8f80156 SHA256: a8cd4fae5c9effd85aa51fc0e49f8cd11d1f3153e9dc68b8eaa85e1155bb6328 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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 37759 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_2.7.2-1_amd64.deb Size: 3188760 MD5sum: 7dced6e9d2ef203f3700ca2f76d549e7 SHA1: e0c6e8dbc04469b77b81e0b69d48e9963bc5014b SHA256: adee2d86af22245547ca6b8c7585435ecc3c5e82a6a20af6a92c9407b2ba4e0a 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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 143224 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.7.2-1_amd64.deb Size: 43011812 MD5sum: 4b8ab81adbf08581b33e51386672475c SHA1: d323a02cd532b232581251e479f3632ef37628d7 SHA256: 3a671ae8d5f7abef999c740f4c2e7e7c611b6588268d68a73bdb65cccccdaaaa 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: 2.7.2-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 26937 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.7.2-1_all.deb Size: 12194104 MD5sum: 0284009a9303c0deb028405860a0f355 SHA1: de91b5fc6864b53b0632ec1d3af72569a2962793 SHA256: ae3f29b051948831beaf0a2ff2bc7632d95a2bebc720d35aef5013ce5882a5c5 Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format