Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 149 Depends: libc6 (>= 2.29), perl Filename: ./amd64/barriers_1.8.1-1_amd64.deb Size: 54076 MD5sum: 361faf3405622264e0203533c9fb38ea SHA1: 2dac29f9dd4ac0286d54590a87597120fd4e5bd6 SHA256: 232a88d540ce0af11befd17e7333ed2c12c24c7e1d77357d87b9f766dbfc1994 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: 109482 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: 20733244 MD5sum: af1058c5729931ef010756fe2db5512f SHA1: 46045d11565081992023232c0d04bcfee9b53486 SHA256: def7920f0a87ccfea2dd3bda31502ded6676c85b26707aedb8474b07dbca5639 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: 8161 Depends: perl, perlapi-5.32.1, libc6 (>= 2.33), 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: 1745040 MD5sum: f04cefe454e61dbbd274bec7c7fcea6d SHA1: 9e487b1a1bdc29600a40f35c0077d5b5a947468d SHA256: 8d13759e36880a6ac868b2bb37956a08e56e57dc2ce510ea719676acfffc2f1a 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: 7940 Depends: python2 (<< 2.8), python2 (>= 2.7~), python2:any (<< 2.8), python2:any (>= 2.7~), libc6 (>= 2.33), 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: 1627080 MD5sum: 3cf6c48dcabb092c29c980538efc51ef SHA1: 72fe9b1e7c5d731522a7a6d91d998fc839f79177 SHA256: f1d19641b4de4d70d36aaf8692f4700f6f72e9fb047d75381121c289a7b7f630 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: 7999 Depends: python3 (<< 3.10), python3 (>= 3.9~), python3:any, libc6 (>= 2.33), 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: 1647696 MD5sum: 113c99e941f0c59a435cd434218b8a5b SHA1: b9ea341f84608fe5a9f6c194a5b51c06eb6a1b6c SHA256: 77f984770ed581002d9ff1d31539841c8b9a35fca2e12bf1d6956dfa7ac0c75b 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: 107 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.3.1), liblapack3, libstdc++6 (>= 4.3), libblas3, liblapacke, gfortran, mlapack-dev Filename: ./amd64/treekin_0.5.0-1_amd64.deb Size: 43828 MD5sum: 9216cced5f6846036d78b61a164320bd SHA1: 75502f927d91f37ea7a19901a60927a4bbd9a2b7 SHA256: 92fc37f32efd142104035b82c2cd48f365ac3b8a55f125852609efe33cb94148 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: 40960 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: 3280216 MD5sum: da000e7eb0af33d98a70ca61ced32ab0 SHA1: 07b8141cf9c8bd4dd50c60b9851adb61728e02b0 SHA256: f3c977c6e71cf19c34bca710ef3ce4bf400af3694fd76146e61e773894b0b9a3 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: 106598 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: 29837000 MD5sum: 03b131edb67814a1091d406fd7a8f804 SHA1: 20b3c2452d27ff727ad549271d5ddf1444298b12 SHA256: 504373eba9e51e9f23199c99bae937cc87f35912a307fecdb8dc67bbd6ba8561 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: 7379160 MD5sum: 86343a04a01a95324a7ea44df98a2bd1 SHA1: 55cec60adb5977a7a4cefd1e6555deb4c3b071f0 SHA256: 57d7288ffc4487b2061fb38a79ab8adb8fa3c8daf7264912981f5d7e9c7f5983 Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format