Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 160 Depends: libc6 (>= 2.14), perl Filename: ./amd64/barriers_1.8.1-1_amd64.deb Size: 60692 MD5sum: 652dc70cab3a157e43a18be6cbd41013 SHA1: af5bba1b24a27597cc7eb48c4f40538c46cef391 SHA256: bbae78590fe9051f9d8cc95b21f43c97a53e410d28f8e751d3c08eab56c2cb92 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: 119276 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.3), 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: 21775072 MD5sum: 6c2b9e9cc66d3c9af4a5769032a522a8 SHA1: 6245c64e02ae81663d180fdd0fe6e01646b5ab84 SHA256: a1f9329bbf128c0b8b6361ec8a859d595fd6270b2e0e5df339a8f05a7776fbe8 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: mpack-dev Source: mpack Version: 0.8.0 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 236676 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.3), libstdc++6 (>= 5.2), libquadmath0-dbg, libgmp-dev, libmpfr-dev, libmpc-dev, libqd-dev Conflicts: mpack-dev Provides: mpack-dev Filename: ./amd64/mpack-dev_0.8.0_amd64.deb Size: 38751028 MD5sum: 802daa4f9da74933cb79c4de14aa9ec5 SHA1: e244deec663a252d3cad5eb8fea504d4ef82da53 SHA256: 3354df391e6dbbe2c0e8e692d6a236219855d3b709f59e419b6821c06d3c4414 Section: devel Priority: optional Description: mpack - mpack development files The MPACK is a multipricision 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: 2.4.16-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 6321 Depends: perl (>= 5.26.2-7), perlapi-5.26.2, libc6 (>= 2.14), libgcc1 (>= 1:3.3.1), libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libstdc++6 (>= 5.2) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/perl-rna_2.4.16-1_amd64.deb Size: 1303408 MD5sum: 773cba503fc588367e9ecf9af0f24c70 SHA1: 30d35965e126c4d8cc931bdeb2eb46b2e4f8c094 SHA256: 36bf3dd708fa65a221c473951b1ade90d561744d6ee67ee99b98e81e0cb8e3e4 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, perl-rna Filename: ./amd64/perl-rna-barrier_1.8.1-1_amd64.deb Size: 6664 MD5sum: 3ab5a042b5eca106b04a3209421ef7fd SHA1: 044c134a638514a50df7d5a16334b7b82dd8188b SHA256: 0a5c5be8b71528c2c2ed2408e0722aed80d78d5783be7c9715dca4a96078a3d6 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: python-rna Source: viennarna Version: 2.4.16-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 6221 Depends: python (<< 2.8), python (>= 2.7~), python:any (<< 2.8), python:any (>= 2.7~), libc6 (>= 2.14), libgcc1 (>= 1:3.3.1), libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libstdc++6 (>= 5.2) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python-rna_2.4.16-1_amd64.deb Size: 1225204 MD5sum: 5bb4719aa8deb9668972d8ba7c25972a SHA1: 727693ed012b3766702c962a21faffa08efd6a79 SHA256: 590439a6c0debd0399870cdfc775bb45e4369896246485372eb4bcc7cfe8e2cc Section: python Priority: optional Description: Python 2 bindings to ViennaRNA RNAlib The RNA class to access RNAlib C-library functions from within Python 2 scripts Package: python3-rna Source: viennarna Version: 2.4.16-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 6261 Depends: python3 (<< 3.7), python3 (>= 3.6~), python3:any, libc6 (>= 2.28), libgcc1 (>= 1:3.3.1), libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libstdc++6 (>= 5.2) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python3-rna_2.4.16-1_amd64.deb Size: 1231444 MD5sum: 5487aa4d0d8bd62302ca3128960c60ff SHA1: e1efd8a3c4136b0563e1dde91474584f04b9c165 SHA256: b3ea5b4bb99eeac85a8e00950ad6fde6cf546876e8f233b383a866cd3015690c 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 (>= 2.14), libgcc1 (>= 1:3.0), liblapack3, libstdc++6 (>= 4.9), libblas3, liblapacke, gfortran, mlapack-dev Filename: ./amd64/treekin_0.5.0-1_amd64.deb Size: 47836 MD5sum: 6f92a63ff08f14e8a62a4019b1e94c73 SHA1: d3c5f35e370dfb90884166f95f1cb865074f98b4 SHA256: 63a408e8564def4ae56cdeae82ade3e05f4fa24d2f03fbf1f757701a21df759b 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: 2.4.16-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 39436 Depends: libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2) Recommends: python-rna, perl-rna Breaks: vienna-rna (<< 2.2.1-2) Replaces: vienna-rna (<< 2.2.1-2) Filename: ./amd64/viennarna_2.4.16-1_amd64.deb Size: 3280612 MD5sum: 87d289dec0bed5aef362b8671896cf6c SHA1: 02f354086ee1bf5e0f44464673db2ec53aca47f4 SHA256: f00f94bea52f8f7204d61a68ed60b99773f7a054936856874fb6dec75c95b43e 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: 2.4.16-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 49351 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/viennarna-dev_2.4.16-1_amd64.deb Size: 29117696 MD5sum: 79bd1a8a2c6746967fade5ca16a4827e SHA1: 284733df155dc6108f92c74b8979411d1ef927dd SHA256: a378d1d43dd327f2d4570f5a73ecc19198a94d758f7cb4f54a6ab74d1da8ba32 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: 2.4.16-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 31651 Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./all/viennarna-doc_2.4.16-1_all.deb Size: 6627036 MD5sum: 26542051946575588b696bf349f2dbdd SHA1: ae3345b848de4bba0b36f9707e2cb15f60f59da3 SHA256: 63e5bd5eb5bbc00b5ea13c34ceb92a2c00d581de9a44059bc06503d71595ffe9 Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format