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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11605 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_2.7.2-1_amd64.deb Size: 2107196 MD5sum: a5f5e0013e748cc1368fe951a46c4439 SHA1: cac636531214495b3cb9c746f77f6e27cf4f967f SHA256: 930f444165274cdf6ac01cfe97c73b4e99153fcba5c7e5041843b98f0bced9b3 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: 2.7.2-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 15546 Depends: perl-rna (= 2.7.2-1) Filename: amd64/perl-rna-dbgsym_2.7.2-1_amd64.deb Size: 13850292 MD5sum: 95fb9ae8fc7fb3741f47ab9d4c0a1bcc SHA1: b43fb6ee1998f69a23b6f6ac1c115afec07a7359 SHA256: 62d4ea3a6a66e0997ff4562268b76b88b9dbe32d8c7d526742b558a18d736c69 Section: debug Priority: optional Description: debug symbols for perl-rna Build-Ids: 0f124c5eebc5cf9922c7f164af83375c5bd74c04 Package: python3-rna Source: viennarna Version: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11659 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_2.7.2-1_amd64.deb Size: 2010276 MD5sum: 8f2bc58be0f20195b141dd2a6b7347a6 SHA1: d39e0a2c5e7fea1447f2080913a0925e8df007e2 SHA256: 6ccf2caed1109f61a0108195b9ca7784080313e8b69b70cc1264cf63d1dd6bca 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: 2.7.2-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 15546 Depends: python3-rna (= 2.7.2-1) Filename: amd64/python3-rna-dbgsym_2.7.2-1_amd64.deb Size: 13479224 MD5sum: 35914b14cf286086f3254ab9ee03c61d SHA1: aa03a8590e35a4664861da05db30d25627ff0df7 SHA256: 6b7736caace83ddecf5e90c94b5a7c4297027dc22657fc3bdfce853733a4ba4c Section: debug Priority: optional Description: debug symbols for python3-rna Build-Ids: cc02624f3b577c3321c34f64eb029fb25a3ef517 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: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 37231 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_2.7.2-1_amd64.deb Size: 3213944 MD5sum: 8f3cf1689ffa1eda973b012cd2f389c0 SHA1: e73045a902de69c1d260f52d9ad74b51d034c4bd SHA256: a66f6a272caa59d91fe1e2f8b0b7e827786de50e0bb1cd42e41505077735034f 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: 2.7.2-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 37701 Depends: viennarna (= 2.7.2-1) Filename: amd64/viennarna-dbgsym_2.7.2-1_amd64.deb Size: 30056084 MD5sum: 6d27eec71670658931ea51b29cbd5327 SHA1: 3102695306ee3a2ed5b1f96dc026587a0573f61a SHA256: 898e457c7ad4016dedd68fe46edcb2ce7ec7f5c7fea9ff983b231a76dfe082c4 Section: debug Priority: optional Description: debug symbols for viennarna Build-Ids: 0241c94de6ea2bd3def27a4d5c82d35c735befac 0dea6e4987dbed307b4b7bf045b354b70084273b 0ea7d8d92a01f6737e384eeb29ea87bf564a291c 1919bc926ca63b03c23d2bef5921d6227decf390 1abc2a7bd2dcd608154f971eeabef4ad5dcf401e 1f80938f838e7aac14b308f755d0dab04e36d683 2715a6db3c9fe4134d9e0c3faeb38c60da410844 2e55e20f6e1b9f01e2d62827e54c180a3823a64d 336da1796881dfd9ba4c8d9071a809546fc3cc3e 3869f4b151e4b7dbf1e2c24035ca7e5cabdc4b4b 392d2dbaa8104334032b7444ea58cdc5857f813b 400ff9f3bcb029b53c8833e480967a35b43039c1 441b61dcff2b68bff97a5cb347e26608fb45b75c 49bfde84b2c34c0577929b63082a2124011cc8d6 52fc36ad264aa10c94e46f145ebf928981a518f3 622a1cb6c0bd45bb212130f3c46e4e4fbaade0c4 745dab58a1295d470e479c17885c3021b8b36a3f 80b2bba52a38111d37f8f999685f7ab8c14aaa96 82961333947281ccd32e4b3b484e483b074a7409 88a8b5883042ac5d160ebc3206bbc8c15e56295a 8a4adb74766e95fbfd6da67beb96cf0b524f1947 8f11769ea930db9451bddc1aa960c2ef9c4829c7 90fa850a94c64188ed8d5c539e44dcff4106dd5e 92ae9be8511041d7f7471426be13e97c2a5ec281 a9550d3c0b0eb4703e626585c0e97978bebfad1c c1012826dcefea05931bb8410cfcdda79f9eaa32 c24fa00a8aeec61c6083c27d70bd6bc4c75ec401 cdf70cc12c87eb98e4e27ce81f8eb1124e754d6e d065e2ce631876e1c85e801183127bc0793828b0 d0f0fb5fc0d0089ca50db3d311e55f7a1684946b d1a7a5e147cd1c6b66dc51e7baed96459efbe824 d2c59f4ac7bc71371ba4a21815113379b9eebc85 ddabaa85361be96a71cb1ada246935eafc5b64e5 f5ac4d240f2bec207ad4c672ce1f31bee3003169 Package: viennarna-dev Source: viennarna Version: 2.7.2-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 126242 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.7.2-1_amd64.deb Size: 34510480 MD5sum: de6b2d5bdc98775bae74552bdfd48563 SHA1: f70924de1c82ecde7b62792d72a3d68fb1e30aeb SHA256: 636b003945c553dc25cb568f98b9f479cf57198f52b37a07063049f69e537a25 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: 2.7.2-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 26962 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.7.2-1_all.deb Size: 12219668 MD5sum: 6dcd00da7408b158a40808248033e435 SHA1: af16f40101bfa8322e987ec8f28c4fd5e7c9b013 SHA256: 85e310d8d988b82645783c4a41accb9a9101613839e966128cd5467016da93bc Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format