Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 160 Depends: libc6 (>= 2.29), perl Filename: ./amd64/barriers_1.8.1-1_amd64.deb Size: 60688 MD5sum: 91c05c4bfc5a808137e854f4b36c85fb SHA1: 4f2d0224e8d771d4c97995ec76fd692667330a7d SHA256: c98d41dd1b8df67149296f674b544f104abc92b00d24bb0b79a4c36180f72e5a 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: 119665 Depends: libc6 (>= 2.29), 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: 22006568 MD5sum: 35a27f982718d784b3980c108d9b64ed SHA1: fa2217fccafc7f5572fd6e5a7fcbe9755dff5e30 SHA256: 47f3e3577f3e5d849d0e614175c8e751d3c092730def864a65d621b9b887a818 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: 237380 Depends: libc6 (>= 2.29), 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: 39160608 MD5sum: eeccc541a2c1111a278ce29e47b3ee31 SHA1: a3e742c803cb9c39a6854e459df8576c3b3e8898 SHA256: 60462840e32a3a1ad0b6ead763cb07b11aa3d0465cd6318a928655bdc28d38a6 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: 6317 Depends: perl (>= 5.28.1-6), perlapi-5.28.1, libc6 (>= 2.29), 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: 1301624 MD5sum: d1a8e0ac239bfc6edf33978f5ca2c899 SHA1: 9e085b8d9f0dede340f2dbf99f2c06bf4d5dbcaa SHA256: a499461a64b1473b536cf5b12351f46e10be9c8505d30401bdd42396e0b228b4 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: 6233 Depends: python (<< 2.8), python (>= 2.7~), python:any (<< 2.8), python:any (>= 2.7~), libc6 (>= 2.29), 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: 1233744 MD5sum: e9cce99a92863b002e404aece40a10ef SHA1: 3fb5fec440aeebeff7376e8532aac1f26bd487e0 SHA256: c11afb891f898763ed3ffdfdbdc38d1b79c1f77769f180841ab24891215d5d8c 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: 6281 Depends: python3 (<< 3.8), python3 (>= 3.7~), python3:any, libc6 (>= 2.29), 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: 1240620 MD5sum: 1b982f0f89c822cbf364ab9fe4bbfec6 SHA1: 355ea93cfcbf26b17bcd60632bd793f8c318e64f SHA256: f2f610e807f8bc0482860957254b9b2d4d64782044fca212ab1816b715a6709f 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), libgcc1 (>= 1:3.0), liblapack3, libstdc++6 (>= 4.9), libblas3, liblapacke, gfortran, mlapack-dev Filename: ./amd64/treekin_0.5.0-1_amd64.deb Size: 47668 MD5sum: c228be927aaad49311aa98951824e8a1 SHA1: 0ffe6b9e79867854692632d02b0e1a24f1b358f8 SHA256: 75d7889edc2039dd7bc69babde7056ce03681efccd39a5512e49a34c7197cf6d 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: 39440 Depends: libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), libc6 (>= 2.29), 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: 3246072 MD5sum: a126f714e15eb0700458fbc2c95eebae SHA1: 6ab9ee4298b35ae1857b4a9d0ea00e90c8d5e73c SHA256: 67a33a3af5a9a671a7e6bf3058c7e701bfb22df96f2f0acc91d5d394f2e71a96 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: 49377 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: 29102760 MD5sum: 22608572e54ad1fd2c7125aa8f29c018 SHA1: d95bfdf598402e786335e1e1f26150b0ceeabe30 SHA256: e3e797600775ff5679e0848cb7435791691cddac5497865e9fb15fe6d2be1af1 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: 6626884 MD5sum: f9257e3fec9ba53a30985f2071df9d09 SHA1: cc4af5eb7177befd6688ce1b737970a83b0eacc7 SHA256: e0cd358941038027061e00968cffc5141f60ed09b9db841e46fdd27b65cdc2de Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format