Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 149 Depends: libc6 (>= 2.34), perl Filename: ./amd64/barriers_1.8.1-1_amd64.deb Size: 57208 MD5sum: 516529899f4dbe8abaaab53a7c62f62e SHA1: fba34fa0c64c4ceaa5ee506885fe8ad4b6826190 SHA256: 870814468338b5dc97ccaff3dd0407852458cce0968b1201ae0fbd455f97d88d 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: 108609 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: 22755456 MD5sum: ac8cb5f318905a397c743c9a2f70c5c0 SHA1: 4ace26c4a157edbf6c88865fe445fcc335f80f26 SHA256: a1470a14701ba0fc291ad0e2001bc980cff67d3f4b22e1424f6c995067b9808a 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: 8121 Depends: perl, perlapi-5.32.1, libc6 (>= 2.34), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 11) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/perl-rna_2.5.1-1_amd64.deb Size: 1909104 MD5sum: 7b94b7de20e75da1f6b43e9e69552879 SHA1: e32aee3f3408afb54cbceb27409bf5ddaa0a92c7 SHA256: a036354fe948455790606473d916895f1b57f71692f831a0f1df8eaa3ec30a6d 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: 6620 MD5sum: 77eab6dc2b802c740e2b48ee1459cfab SHA1: 313f34c7c90e19ef645dd2504d69e44bd4adc134 SHA256: a2900b2d8f5f3874e7e15a1457b1f8b1832837d1c9b841db97fa7d9acb43324c 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: 7876 Depends: python2 (<< 2.8), python2 (>= 2.7~), python2:any (<< 2.8), python2:any (>= 2.7~), libc6 (>= 2.34), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 11), python Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python-rna_2.5.1-1_amd64.deb Size: 1783100 MD5sum: 96e04ce6e92e3b27152ffbb35e99cdf0 SHA1: df9ff4b0715e8e603c6fefd86f8c50ac4b163ba6 SHA256: 8838db3ef36361be51a8134669010f40bcc2ddbe3dc004bb92356a4e69b252a9 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: 7931 Depends: python3 (<< 3.10), python3 (>= 3.9~), python3:any, libc6 (>= 2.34), libgcc-s1 (>= 4.0), libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 11) Conflicts: vienna-rna (<< 2.2.1-2) Filename: ./amd64/python3-rna_2.5.1-1_amd64.deb Size: 1798522 MD5sum: 5850927a26da05747cd14d08752fa4ac SHA1: c27e38c6b9e65507f847b5abc4364ecf461a9a2f SHA256: 15b6e7c2eb83208c368c5bbd9032bdc382f89de8e615e63608ac65868edb071f 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: 111 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), liblapack3, libstdc++6 (>= 11), libblas3, liblapacke, gfortran, mlapack-dev Filename: ./amd64/treekin_0.5.0-1_amd64.deb Size: 46694 MD5sum: b5ff622115b492870ce0a28957ae1b70 SHA1: 3dd9f06f0d2a7ef785941ec8766ee2279f87942d SHA256: b1103b8e96f4be1e018ea0ea174236c266943e3056a17dceee429414c07d86ad 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: 40952 Depends: libgomp1 (>= 4.9), libgsl0ldbl | libgsl2 | libgsl23, libmpfr6 (>= 3.1.3), libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), libgsl25 (>= 2.6), libstdc++6 (>= 11) 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: 3280034 MD5sum: f3891a241bcdbe279abaf17e4e7ed8bd SHA1: b2290db4511e6c15a3465b7431e969e3212818c1 SHA256: 9f2a079964c15dada2d153380cbb95e658002c8529278f0d74db629295e84227 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: 89102 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: 29726792 MD5sum: c9ae0769a0fd750efb8917a2a571e737 SHA1: e5df94c86d566c94b4c33192726c467b855ea538 SHA256: baaef11459f06ae62eb3ff497372b6e4af086e2b8cee98b3972ef78b504e3df7 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: 7371890 MD5sum: 2398daaff725c346ed0ebc42cf1b3d45 SHA1: 5c2fcfc329786248e82c70fae44ede54bccae33c SHA256: 3d5f4a7f57acaf56141977820df5b5f0bde28020a03064f1620eebcea01f57ae Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format