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: 60936 MD5sum: b193896a879d3ff45165202e3e778385 SHA1: dde594dd08c727b87f907d037340f9df5f579739 SHA256: a43ab3cedee4b03308c807c6fb469c0b3b0a03fd068f5ea16a03762ee13038bf 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: 113022 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: 19268084 MD5sum: 4088541b39ac0b105fa96a5e7a12763f SHA1: 02d9e4a44288bc72e336ec34475608519614163c SHA256: b239fde89651d8f1d5778770be787c1b889034fa4d8a69881ddfd46fa44bc718 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: 2.5.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 8169 Depends: perl (>= 5.30.3-4), perlapi-5.30.3, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/perl-rna_2.5.1-1_amd64.deb Size: 1746928 MD5sum: 02eda0f6e34cb9301ca1c45f3b3f2710 SHA1: 546776d06c96ded45b59da21aa648a7a3c3891c4 SHA256: d9df42092e484ca16bdf8c25d596416f7a9bcfb650ff58fab734e5d4ba77f6a4 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: python-rna Source: viennarna Version: 2.5.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 7944 Depends: python2 (<< 2.8), python2 (>= 2.7~), python2:any (<< 2.8), python2:any (>= 2.7~), libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9), python Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python-rna_2.5.1-1_amd64.deb Size: 1628928 MD5sum: 6fe49f3bc430f67f5b208b4c3deef992 SHA1: 869a777765bf90a7282367964e2fd31153e944a5 SHA256: f6d0f9f5a84b2dfaa9692973416f4a90f38737ddadb180cb6a6114837d94af1d 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: 2.5.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 8003 Depends: python3 (<< 3.9), python3 (>= 3.8~), python3:any, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python3-rna_2.5.1-1_amd64.deb Size: 1644344 MD5sum: 2abaee6434d1c51861b40c8524003328 SHA1: 484ccc87b380708cc6bbde0dd5d06d13e9f3eff8 SHA256: ef9aa019808a8ef9781d69cc7169579af88a32f5939a504e67faf7824b9c4b2c 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: 127 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: 48812 MD5sum: 6af9f4a9d0d629746d2c311e8a7ee1d5 SHA1: dcf05206b59a0e4ababf7955a7cfb7feaee07f0e SHA256: 930dec56611ba1830fceb6dc1defa6ed4ac7290c7b69c3b8157182c6007fe473 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: 2.5.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 41086 Depends: libgomp1 (>= 4.9), libgsl0ldbl | libgsl2 | libgsl23, libmpfr6 (>= 3.1.3), libc6 (>= 2.29), libgcc-s1 (>= 3.3.1), libgsl25 (>= 2.6), libstdc++6 (>= 9) Recommends: python-rna, perl-rna Breaks: vienna-rna (<< 2.2.1-2) Replaces: vienna-rna (<< 2.2.1-2) Filename: ./amd64/viennarna_2.5.1-1_amd64.deb Size: 3305836 MD5sum: 312d1e9b1a7e0184853905f1fc73a1ce SHA1: eb01c96aa60cc3e37d6e2fa0ed03e98bcb45227d SHA256: 30dda495448f8c6c67e1c5d4ea7a00e98981bbc1765657f54095a457c24ab541 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: 2.5.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 106863 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/viennarna-dev_2.5.1-1_amd64.deb Size: 29801168 MD5sum: 1f39768aea54381d2e01a53cd69e77be SHA1: fff7c4488abc05c6a4d588ab70041b8c153dafa2 SHA256: 2149237dca6f6836d8bb5de8aaecea4fda207e42d3ecd1a6f6db124289304f65 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: 2.5.1-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 34652 Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./all/viennarna-doc_2.5.1-1_all.deb Size: 7379452 MD5sum: 639b5d8ff20bfcfef17ac5b703ccc05a SHA1: cad879becd706ac378356d3a471328ecf26775c1 SHA256: ee6ca01a7587f725c96899674b08e79dc824dcd32de28a2ca2651033a9be6bfe Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format