Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 166 Depends: libc6 (>= 2.29), perl Filename: amd64/barriers_1.8.1-1_amd64.deb Size: 61628 MD5sum: dbb6ae748de2a8be45d2bd6265853496 SHA1: 7ef5eab57d812dbc5d8e341cdd7da967f8971fbc SHA256: 5812cea24b4a34a8a76e9d5e7c88a155ffa459f90688f0febea16d1a25162a7e 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: barriers Version: 1.8.1-1 Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 172 Depends: libc6 (>= 2.29), perl Filename: i386/barriers_1.8.1-1_i386.deb Size: 64604 MD5sum: e699bac42bf15d479dbf316924d45434 SHA1: 6896e6363241120a23a963baee9a565951d4736f SHA256: 860565737141baf556686c2289bfd58fb9ac31c52d5e0eaaa96dee54229b4919 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: barriers-dbgsym Source: barriers Version: 1.8.1-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 160 Depends: barriers (= 1.8.1-1) Filename: amd64/barriers-dbgsym_1.8.1-1_amd64.deb Size: 133488 MD5sum: e43b977a68aebd2a2cfed1c857c671dc SHA1: e663d8b8802e13ca22233b3740c2f772596f8f43 SHA256: 696077867135471457bc1834de412db81f6be575424884a0dab714d76c43d916 Section: debug Priority: optional Description: debug symbols for barriers Build-Ids: aaebe951aa10063ffebeb19f1d3019d5b1753147 ea07aeb198f1323db9516bbc9cff237512295b6c Package: barriers-dbgsym Source: barriers Version: 1.8.1-1 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 145 Depends: barriers (= 1.8.1-1) Filename: i386/barriers-dbgsym_1.8.1-1_i386.deb Size: 124272 MD5sum: aee37359148b1e775e48e365bd004d88 SHA1: a48cd6821a9b6a88e434ee853cf8516889ee20a0 SHA256: 4fc29e0e36e729ade90217999fb93e10b988e1a2954739e560f09ea04149ccbe Section: debug Priority: optional Description: debug symbols for barriers Build-Ids: 63b38ade201e9b4c07b430c19822bc3abe3d1794 7a2cff84f1b4e5bdea60556c3b6ea8d7867573a7 Package: mlapack-dev Source: mlapack Version: 0.8.1-2 Architecture: amd64 Maintainer: Maho Nakata Installed-Size: 111660 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: 19256336 MD5sum: 636308acd37712640d793ee19bd4bf75 SHA1: 08b6f704a8a115e4a4136c754216d4f1c9ac54c1 SHA256: c858df3f685d6fbf0ba67e3c292aa8ac66a22b0ff6db4affd713c27786c8dbf9 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: mlapack-dev Source: mlapack Version: 0.8.1-2 Architecture: i386 Maintainer: Maho Nakata Installed-Size: 98785 Depends: libc6 (>= 2.29), libgcc-s1 (>= 4.4), libstdc++6 (>= 5.2), libgomp1, libquadmath0, libgmp-dev, libmpfr-dev, libmpc-dev, libqd-dev Conflicts: mlapack-dev Provides: mlapack-dev Filename: i386/mlapack-dev_0.8.1-2_i386.deb Size: 18348800 MD5sum: 1cc5e7b96177cef42d52a96b0d5ca56e SHA1: 16afa550865983f1c1e0b8fc07235c151545e1cc SHA256: 5b0807262991692862e6d28d8a75eed8a7ef48e9c1e7a434459d85b6a368b4d9 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: mlapack-dev-dbgsym Source: mlapack Version: 0.8.1-2 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Maho Nakata Installed-Size: 115970 Depends: mlapack-dev (= 0.8.1-2) Filename: amd64/mlapack-dev-dbgsym_0.8.1-2_amd64.deb Size: 114254824 MD5sum: 38cfc701073bc3bb83e00bffd0a9682c SHA1: e1d9b566abd161e4319cd2c6451e6e1fc50da2ef SHA256: 9121bb13d050ad39846ea611cc932493ec6f100696dbce1ed6f629077f4a7bf4 Section: debug Priority: optional Description: debug symbols for mlapack-dev Build-Ids: 068662b3e17fe75928bd499730b2d2ff88cf8a92 09f9553f72d402b10d7b7d96f48d0192512b1a77 0b19628b0e4956c14d13f07ee676ae4013ae8167 0e07ab09a4e50d00feb27df4e58f945cbd94b73a 360922baf8dcdf3ac4769d294c9b877866dbd210 36922e04d2387bcde103a2e870cb1340a998b448 4896bd925fa553bf17ddabffda03d69f87d0a28a 5b0e57250fd4f01c58357560fd1f42647571dea4 5d77b2dceeb926ab7ff4117d204cd431a87f18f8 60fcbf652b3e0492612f4a292184c087b2121995 6a941caf94a780697fe7841be0e3014ee7bbdd44 7ec23efd030e2556ca895c9dea21435fac476b06 8a3c1dce78ca08a4781361f988b1c5e91112b4f7 d6a766adbda33d8c0f21e64cf869f4c337f5f604 f1b0fcd8ce63591ff83d486fb9feb768401c1ecd Package: mlapack-dev-dbgsym Source: mlapack Version: 0.8.1-2 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Maho Nakata Installed-Size: 102192 Depends: mlapack-dev (= 0.8.1-2) Filename: i386/mlapack-dev-dbgsym_0.8.1-2_i386.deb Size: 100432192 MD5sum: 5921e704cb39eed27b1b05cbf144bc27 SHA1: 2db3cdb363d0e271ffb20e0433dfec1a06b688d8 SHA256: 61baeeaf17925011493df145f3e1c7129bf576fdd2d228a01a4392891a770abd Section: debug Priority: optional Description: debug symbols for mlapack-dev Build-Ids: 0c58d4c5f8632e1021ea05cc82561c9bcba6d06b 15430f0a342b1fec9ffeaa1167e357d6473d3e01 36761045e600cc712ff17c88ffb749628f2ae72a 54f36221ad80b710bfe3d620b50391ef068bbfe0 6f0ba91d414d87da6a5a553038eaafe93df73987 8a79dfa9f14689d489e5756ed754acf5e30ea2e6 96726a071a50b1ffc12ff5acb51ccccc4575aa32 be001ba643a3282add4faa1589818a9d31fac8f6 c0a1c64fb92f1d104c6e90a76180f177b968923b ccb65bc50b67e6ab99d2581f23d68e53885e15eb d428d1693dc8f44286934080e32ee8ab32db7150 ddaa080f3874d7222f9241dcbb18acb508687313 de43002975ecec539648e1a82174c2d238147e6d f4f3449e24300ec3253ec6cff9e5d00f9a461253 fc14224e6a59c950c844285787fada039e3abe9e Package: perl-rna Source: viennarna Version: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10973 Depends: perl, perlapi-5.32.1, 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_2.7.0-1_amd64.deb Size: 1992816 MD5sum: b42ffe0029c63588847a82dfd6f3ce81 SHA1: bb8c90e7577115e343367cdc15e7fa24bf1dc352 SHA256: 39d69eff48e9320b64161cc9e8a9a152989cea4db1ed7bd55fbb45ccbf898ed1 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: 28 Depends: perl:any, perl, perl-rna Filename: amd64/perl-rna-barrier_1.8.1-1_amd64.deb Size: 7604 MD5sum: df75e0753151765f8a87d8d27ba81e1e SHA1: 8acf71d70c698ce61a0f7f8bde13b70e503f4e43 SHA256: 6a8c3e5eb3fd7241292699ac5907c793e15029ebdad24826503c2eb7dbaf8ae3 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: perl-rna-barrier Source: barriers Version: 1.8.1-1 Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 28 Depends: perl:any, perl, perl-rna Filename: i386/perl-rna-barrier_1.8.1-1_i386.deb Size: 7600 MD5sum: 742d52ac3c85417178c56be9512e7cb6 SHA1: aa96c89dc0ec37d2ea81fd7e43a6a55abf571958 SHA256: 7c4c29c31d1867b1f68e8ed025aad51d848f6c5846c8a3bdb57000e60071e1df 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: perl-rna-dbgsym Source: viennarna Version: 2.7.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 14041 Depends: perl-rna (= 2.7.0-1) Filename: amd64/perl-rna-dbgsym_2.7.0-1_amd64.deb Size: 12429384 MD5sum: 884113e2bf7addfa4b59d58f01fe8d25 SHA1: 3e5daa57b860a3b22aca255850e20a849ae52397 SHA256: 692506c1a07dcfee8585c4e67f770bd06d4c7ffbd7f44bcb492d62a95d8b2f08 Section: debug Priority: optional Description: debug symbols for perl-rna Build-Ids: 8fd6547684f62a6d3f751c73ccf77d6097c02ccb Package: python3-rna Source: viennarna Version: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11115 Depends: python3 (<< 3.10), python3 (>= 3.9~), 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_2.7.0-1_amd64.deb Size: 1905504 MD5sum: c7a216a726af22385754193d9fe194b1 SHA1: 44d1d5e76d637588505f9beecb10eda61fb9dec4 SHA256: 1e13e3742e43f2d02749571a0b2f15cefb0690b32e5979b33a4544a0b4d47b39 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: python3-rna-dbgsym Source: viennarna Version: 2.7.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 14424 Depends: python3-rna (= 2.7.0-1) Filename: amd64/python3-rna-dbgsym_2.7.0-1_amd64.deb Size: 12420732 MD5sum: ffec5103469fccfeba683b237ad31100 SHA1: 8b20874a2edab1a363172ee235ee000a15b0389d SHA256: ca2f66fd2e70bb810b282c29114928b1bc47b941f628f85d2160bb3e9dc4ebec Section: debug Priority: optional Description: debug symbols for python3-rna Build-Ids: cee5aada13eebb52ad2904be83357cb4aa87db12 Package: treekin Version: 0.5.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 117 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: 48976 MD5sum: f01de09c925935e557591672fe68bc73 SHA1: 72f999c0fdb50538cde786a35b4146a04aeb2132 SHA256: 5d4dc97b6625c9e92b9fb95e9ced5458a1956eb18fe05dedb133afba9def0cae 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: treekin Version: 0.5.0-1 Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 131 Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.0), liblapack3, libstdc++6 (>= 4.9), libblas3, liblapacke, gfortran, mlapack-dev Filename: i386/treekin_0.5.0-1_i386.deb Size: 51648 MD5sum: a02b917e19dd95bda04c3e28f2ac6e17 SHA1: 0773246bccfdb6a21e36439c3a3be076bcc02d1d SHA256: a2b39debfb7f95a975f6291b3e696b8717db5fb4c6e5c38b2cd7173bb6393f1b 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: treekin-dbgsym Source: treekin Version: 0.5.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 238 Depends: treekin (= 0.5.0-1) Filename: amd64/treekin-dbgsym_0.5.0-1_amd64.deb Size: 222304 MD5sum: 1e3d1314267f0eaef49794e066a87705 SHA1: e0dc651eaf9b752c2b51310ed60201d8e0614fa8 SHA256: 02901b448248f460578ac94740cf91290f2d0c11a6c1c8f73361b78fb58871f7 Section: debug Priority: optional Description: debug symbols for treekin Build-Ids: 606fd9afc8291aec5fc91a0e1e3b653997c0f4ca Package: treekin-dbgsym Source: treekin Version: 0.5.0-1 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 225 Depends: treekin (= 0.5.0-1) Filename: i386/treekin-dbgsym_0.5.0-1_i386.deb Size: 211572 MD5sum: d43ac9560fbccb4814c4c153d442e51b SHA1: 939d7bd14717cbc0a6e4ed387d4dc93b72b29ac8 SHA256: a8aaa8b3c073d1d21626f7127fbe1cfe8188f1bdafd5a693467272fec110caad Section: debug Priority: optional Description: debug symbols for treekin Build-Ids: c26efc881ecb7f4ea25115bf132042ead56b6340 Package: viennarna Version: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 36724 Depends: libgomp1 (>= 4.9), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), liblapack | liblapack3, liblapacke, libc6 (>= 2.29), libgcc-s1 (>= 3.3.1), liblapack3 | liblapack.so.3, libstdc++6 (>= 9) Recommends: python3-rna, perl-rna Breaks: vienna-rna (<< 2.2.1-2) Replaces: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna_2.7.0-1_amd64.deb Size: 3081772 MD5sum: e053eb5aa853a087373cbb1e9d78aae4 SHA1: dae1faee6e5cd06414343565e30c4bf771d133af SHA256: c55d9245f8cde2ab01ec9bdcce3fa3a35135b6600422c6574dbc56c3f5eb883d 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-dbgsym Source: viennarna Version: 2.7.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 36760 Depends: viennarna (= 2.7.0-1) Filename: amd64/viennarna-dbgsym_2.7.0-1_amd64.deb Size: 29162056 MD5sum: d3e44d4fa39a6002c36ab0a2ad66940e SHA1: 5d59632506d6572fa7b4b3a3ea992231945b0811 SHA256: 907e5500dabd09188a8c35c5d6119ac6672325bd1684de81521b56ef2f7b2408 Section: debug Priority: optional Description: debug symbols for viennarna Build-Ids: 010aaa30dec76fba6ede1e5690e2e1078f1283c2 016abd98c5fb1f33b7666a32552db4ab88069bcf 03b69c9b602468f10cef822d49b437183a43a324 0d6d9079a52ee02625f373b5ac96344dd82819b2 0e934fb03c236cd43a94e1eb736679b1ecf31e66 2480210c9558975c9a71858e63e7723f29a66e76 26163cb1915c3e7ce4cf1d80f345b5634c23f138 276f28cd16ab6fdc9201b0fafe2d7b7a1e92abca 3465466a4f13a374c444294e4cfc8b0678540456 39647e66a946df0ed9ad4a6dac57c26cf67a956a 39b99711a0e7dcc54263dc67ab2914a23c983f08 3be6200547b6b422eda4160f8d355bec21605875 58626f305875466c95cbd487d4d584686ab70091 7acc3830507cbd844481de2d31e3bcdb38a9101d 8689d45727cb8246db015ae4867b92d314c8234c 8cc48ecec7b308b062ce8b11e3a15ce0c6b47a89 93cd73f27a27c0d754da09d756d39687ed70ec88 941a980acec77003873d7d554d2a5ce2cd9df8ed 95c432a6939a75ac5d78c84fad87019acb1513da 965c9e52db1822ec710fcb56082d87fdaa4bbba5 a5cbabc673c949270f7f47f761c9508f66673cb7 bbd7e5a62d8db38eac8f9e71c5233caf32d64452 c38242e20a55168edfda1c0216cc370207c3e92a d63ea86a16db78f5abb1b6056f8596d26e62d483 d82211ab1980d6233bd451e9a5983955b108066c d95ab152b75f507837a7679011f5c6815def48ab dcb0baee736916bd2e1cafc861c81ceef852175e e9a859d49c2a5b51454cce1f4830434bb95c179c eb4aa3843e9cbc1c5b809bf3d305629489133a07 ef220d0179644c2cceab360d506a67161674bee5 f3a3f8c42492208c34880cc0772e82cadf7f2bb2 f5ac4d240f2bec207ad4c672ce1f31bee3003169 f69eeee7c7c3286fb66ea90eb30e1f5a3a92cfd2 fe641593e2990551bcc1348c51e8515620cb1cef Package: viennarna-dev Source: viennarna Version: 2.7.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 112465 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.7.0-1_amd64.deb Size: 31221832 MD5sum: 56d21cf7d0a63e8acf0414ff6e7ad09b SHA1: 3596ae16d46d62a63a3e5af11731f237b93d04bc SHA256: 1671997f9d964151009f733b1ae72132251cb3110a804e4773878fa8b42731c2 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: 2.7.0-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 25658 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.7.0-1_all.deb Size: 12026108 MD5sum: 14806e16dc28f2e5c4baccace6513372 SHA1: 349ed88885a406f915e8480bfb1de76d5e05d0c5 SHA256: a2a97a69cccab665a53f4d5079a33c01e7e80f257a2794499cb1c7404aa874be Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format