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: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10333 Depends: perl, perlapi-5.32.1, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 6), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/perl-rna_2.6.4-1_amd64.deb Size: 1852800 MD5sum: 1865bd87241790db1ede489e069840cd SHA1: a3056760cf6ef063a4d33351a3042c3e0e07701e SHA256: de8bb0887a69d3e55cb4966f08734a59a3a8c455643a3c5fe8fd0e49ebce062b 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: 2.6.4-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 12980 Depends: perl-rna (= 2.6.4-1) Filename: amd64/perl-rna-dbgsym_2.6.4-1_amd64.deb Size: 11483448 MD5sum: 33258cded91b1c7f26a903133170110f SHA1: 0f7293ccc1931aa588ed7958880b9bc42bddb958 SHA256: 3158337557ac09ae7702790a9bb8ce6ed70cb4aec716ba6e547cdf335409d5eb Section: debug Priority: optional Description: debug symbols for perl-rna Build-Ids: a782681bb977e1c590db4aced1424e1c49a5a84b Package: python3-rna Source: viennarna Version: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10569 Depends: python3 (<< 3.10), python3 (>= 3.9~), python3:any, libc6 (>= 2.29), libgcc-s1 (>= 4.0), libgomp1 (>= 6), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), libstdc++6 (>= 9) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/python3-rna_2.6.4-1_amd64.deb Size: 1793236 MD5sum: 55904fa872717cd1e78a10946ac10cb6 SHA1: 5b4a4765913e1a060d8694f6aceadbea3e2566f0 SHA256: c6fa8cc021eb3b65de7993468e807d036e7f1fd1e84474719d98b4841ba32ba1 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: 2.6.4-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 13605 Depends: python3-rna (= 2.6.4-1) Filename: amd64/python3-rna-dbgsym_2.6.4-1_amd64.deb Size: 11726468 MD5sum: e62f8ed52b12c6b396f2e3ccab03e1fe SHA1: f8cb7279b44b4193cd625b1b7ab37ecd44c767c4 SHA256: 075ec7d0c2e0e26713b1afe5603ca05f7ee0895d275c500929c2471e451376e1 Section: debug Priority: optional Description: debug symbols for python3-rna Build-Ids: 515893738339f8fd8b248509f6d126555a334c60 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: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 42900 Depends: libgomp1 (>= 6), libgsl25 (>= 2.6), libmpfr6 (>= 3.1.3), liblapack, 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_2.6.4-1_amd64.deb Size: 3563788 MD5sum: cd91bdaf55f3700b875b23f7ccce6940 SHA1: 529076706aa0bd0bc8a720f06c6a130e74e353b4 SHA256: 21d98b0b388206a79c57d3ece9322acc5b746fc63759121b4c7e103e67a2fcc6 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: 2.6.4-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 32993 Depends: viennarna (= 2.6.4-1) Filename: amd64/viennarna-dbgsym_2.6.4-1_amd64.deb Size: 26696928 MD5sum: 34e28b5a4f12e40d77ab8da02ae542dc SHA1: ba55c331421636df85134bdce9d88aae8fc81a69 SHA256: e60a9b335135605925329fd9d60ed8c7b2e1d8754720fbc675aff77a5d963ebd Section: debug Priority: optional Description: debug symbols for viennarna Build-Ids: 0083d83b12e837a7f46b436df1261bd4b72fa712 00fd9d6244b6586797fefd1034b0493fe55d2358 0d2d0ba6b1d46273afdc506cd90d23e9dae10b8f 1a5854b3fd0fe0ef970e0dbb17233a37eae8cc2f 2046668b0e280da2f57d8b5eb19db66aa3b8ccd1 278510b2bec2bb4180bc27d7ff55e0a27035b74d 2d0cf115cb04b7a3d8f35da15071e8ef4a39bf7f 3aabc2ccfaf66b9586bc9c3877594dafbfb8f057 46b07b5af99bdf83ef2bd17094598d3f8eee9d91 4cc6694ae344ed3e3a305f4d8d6e5c820d1e8206 578405fc3a3441358a98032d1ff2d2aaab36c83a 5a14616d949af71cc2e2941268183e3404b04f8d 5e0bb1af2a4e17f4649de9f88e8f2c0dda79cd13 6089061032fb5bae69eb5f2812db1401898a4a5a 69256eaf8b904c198fd2325268cd338cde1e6387 694fd0303bb2e1980e30bece4285a0470aead1d0 7a7697a296c3f7c7d3ef482b00d4d1d5887dcdfe 932bc9594c764ccb6f7d5a0cbc18c17da58df38a 93812686368a57c18dc3e8bab3829b494c356698 a6a215eb8b69d351d51e8439bb71604d83a4481a ae067ea924d4002298f7db6001e25dd078e32dca b34ae5bec51043f5bb2f372dd80b1a61b14c1241 be95d4164c7c9964793d775186a4c98b12f46c63 c039da60977173ac12341e773021f3034d830f71 c4f73afe3b437b070c806a5ac6616521aad897a1 e3dfad18795457abfa0813763a69c10252f16da3 e5c09221c576705f90c5f89120d47836bb9577bf e64ee87315be978decac5fd44baf7f5b8f2a9358 ec99e72da93bca4c4a65c3506399dd53d4dbbd28 eeb2acdb5f0c38483719a19310562557d2199169 f2b6663208622ec1673f8e95bb79ea05daa3d083 f45d0a8402914fccb2048a63e35346ba2fefa357 f5ac4d240f2bec207ad4c672ce1f31bee3003169 f9135832700761192e1a72b66edc45221f947129 Package: viennarna-dev Source: viennarna Version: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 108258 Depends: libgsl0-dev | libgsl-dev, libmpfr-dev Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna-dev_2.6.4-1_amd64.deb Size: 29646456 MD5sum: 2b68b4f6554712d7a388e41017b777c3 SHA1: f3a8ceea18ba9249dbf5dd002324e4e3a9f41686 SHA256: d7ad31d110e3248e7637863a813846dba95379856b965997029fea732cb852f3 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: 2.6.4-1 Architecture: all Maintainer: Ronny Lorenz Installed-Size: 25293 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.6.4-1_all.deb Size: 12440824 MD5sum: 11a74e8bf622a1b55ca0501a7da93c12 SHA1: dc166a7cf8cbff3e20dd3c36344c2d85a96103e8 SHA256: e868a54985e163a60407e34c887d19d11d6997fb7869278d9ac5e446bea467d4 Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format