Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 162 Depends: libc6 (>= 2.14), perl Filename: amd64/barriers_1.8.1-1_amd64.deb Size: 61352 MD5sum: 47a42d0ec7707bdb271079580e8e7ef6 SHA1: 98991f850eaefcf18a63a93bc78e4c028484ddcf SHA256: b8e52a12c7a4b209805d5bf640bfa84fec9059b07dc6030c3e19b00eb52e6229 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 (>= 2.7), perl Filename: i386/barriers_1.8.1-1_i386.deb Size: 64240 MD5sum: f6df145fb47f3a1a78f7bab38e4300f5 SHA1: d3319b6f983877f45210a5da62a27a4460562259 SHA256: 5b64a9d64edf378cfd140c0cb87e88365dbcccf9bf918342a56420d8d871fa9e 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: 151 Depends: barriers (= 1.8.1-1) Filename: amd64/barriers-dbgsym_1.8.1-1_amd64.deb Size: 125212 MD5sum: 07de941fb3e7e7914a2ded23f64c9808 SHA1: 3291ad02daa97c816172ae37cf337d908f93f704 SHA256: 98aeada7b6fdf4e8eb4c1752d7d546b826b814e203891b893e90af42cc646f76 Section: debug Priority: optional Description: debug symbols for barriers Build-Ids: 72a2313f7950eede84e98d9e90ff4bd714ca61f4 c175ee23801ba0dfb64a5f29dfca83eb24dc48d1 Package: barriers-dbgsym Source: barriers Version: 1.8.1-1 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 138 Depends: barriers (= 1.8.1-1) Filename: i386/barriers-dbgsym_1.8.1-1_i386.deb Size: 117300 MD5sum: f8173adb7128eda4a00a5f97e5574c70 SHA1: 2a2086df0d926cd753d48f07cad8c2fee4986c75 SHA256: 55a6bd6a36ef9985bbdd8be1940dd4efc9d7442f68dbb774b77455ea0c29c878 Section: debug Priority: optional Description: debug symbols for barriers Build-Ids: 09b5ba81af3d9a440f3b1826bb84da705ac2d33a 0e7b993fa1ebebaa17b5da8c327c19e7323a234f Package: mlapack-dev Source: mlapack Version: 0.8.1-2 Architecture: amd64 Maintainer: Maho Nakata Installed-Size: 120809 Depends: libc6 (>= 2.14), 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: 22154272 MD5sum: f36967bbbfa4b70caf2c22ba4bb23c0e SHA1: bc171aedd17962f4898ffe9d5758c3dc83dafd6e SHA256: 57674276b6cee5bcd0a029e7600786584ba8fedd43380f5d02e154631388e93f 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: 107281 Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4), 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: 19794348 MD5sum: cbfe1de03270b98257c57a6382e998ac SHA1: ed64946b3526be3ef5ee4478bf62e2eab674291c SHA256: bb1b63d1f32bbf895499eac500331e5b6d98822d3e58d34e097ef77bf5533f96 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: 141811 Depends: mlapack-dev (= 0.8.1-2) Filename: amd64/mlapack-dev-dbgsym_0.8.1-2_amd64.deb Size: 140439204 MD5sum: bda115155edc36e39381d8f3bff3ea3c SHA1: c57082d10d36be8aa37c0f087ea1760c1de661a0 SHA256: 0d7ea33f6a66df96e5c5cb000b14f3501ede69d2ded97c6bdbee62b72a339a37 Section: debug Priority: optional Description: debug symbols for mlapack-dev Build-Ids: 0d0a549f415b00ee36b5b6f33c005f78cc9ba78c 1109605b83b5d1c8f61291b343443d4a371423f6 1d210758bb6c73beb04dc0b55bd77a9f573fae68 220f699f06d14c67fe7c52ea9ae7ae5731ac6bb4 2bab23ebc59d5f9420961d5a02762f602fa44470 4513bb288c255645c474b4a29960fd4d9b382428 55ecab841c82879590b14bd73cfc8820d0c950d3 6581742b0967e8764e1333e4febd4f5e2b1b4d51 6a4f701f85f44235266a255661454a7d2c78e548 7190842dc8b051741a5eaae611cdbc46e9308040 735ac17405eb794fa8dcb4f611a0ba1eb32d95ea ae65d95e8a02d27f13ae9e717a601a645b570b8f e857ba5b385efce2e3a78545b9903fd65562ae5f e8b378aad6114ef3f99dbd64c0906d1f04bb5df6 ed6ba24b9ad3e5cd7ed5bf36f4bd9633dd957f94 Package: mlapack-dev-dbgsym Source: mlapack Version: 0.8.1-2 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Maho Nakata Installed-Size: 125927 Depends: mlapack-dev (= 0.8.1-2) Filename: i386/mlapack-dev-dbgsym_0.8.1-2_i386.deb Size: 124777576 MD5sum: 348d2aa7ab0478fef3230d02200548d9 SHA1: b1e0d0a8e7b4dff35622172b91d34334996d62e8 SHA256: 69349a9c7a967eca8b0a8ef4fad7d8df03d2b383a90b93457b85788669c39353 Section: debug Priority: optional Description: debug symbols for mlapack-dev Build-Ids: 29244390155bd70c50a39bd01ab30195b21e5a85 325369434a85a2fa3c6923a3850b914a6300adfd 36cfe6153fadc891cc29823c8c9caac46c984d10 38f88606f0ff99f7262dfd4328c8c178280be1ce 6f0281536187182495e6d9fe89887d1148518df6 75a31f3be73932af765db22dd752a6290bccef2a 7b872dda565b5ca7fc49f9fa19be5fd4b2d36e15 7dea826a28a238df0d404faeca6a40b01a429dad b38d167edfb18741dfabb703355e290ac4d034b5 c232f62abf7067150a1d78d25231eefba1c70b77 d2342c4d5e86b376736870561315d4ce63dae524 d469848fbfb873791faad896ae79e1e40a28f1e6 f1dc336cfd46fefb88462e2d5cbea660573dd5ba f517473940ec693d6d696cfb09f2c7ecd17009da f7a61db335da6de15397dc542b00bf46ed4e5ec8 Package: mpack-dev Source: mpack Version: 0.8.0 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 237674 Depends: libc6 (>= 2.14), 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: 39245380 MD5sum: 86649b776b7df4aee2f9a418a53eb1db SHA1: 28fa02ab0a534464114fc811b786249b1e427f73 SHA256: b28695adc20ff0d6d2a9cb94cabc77bc2295490045bdf5fa93176ed7838de3b2 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: mpack-dev Source: mpack Version: 0.8.0 Architecture: i386 Maintainer: Gregor Entzian Installed-Size: 212923 Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4), libstdc++6 (>= 5.2), libquadmath0-dbg, libgmp-dev, libmpfr-dev, libmpc-dev, libqd-dev Conflicts: mpack-dev Provides: mpack-dev Filename: i386/mpack-dev_0.8.0_i386.deb Size: 35219252 MD5sum: 688ceb25b289317f4ce6e8bb5e095c87 SHA1: 1e89b50ca4ca895d57fd7d07261b05afd268e713 SHA256: 466fe990aeb36e21606497292bfee05c533d21001f72506f9f5dcd64afeee9c7 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: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 11976 Depends: perl (>= 5.28.1-6+deb10u1), perlapi-5.28.1, libc6 (>= 2.27), libgcc1 (>= 1:4.0), libgmp10, libgomp1 (>= 4.9), libgsl23 (>= 2.5), libgslcblas0 (>= 2.4), libmpfr6 (>= 3.1.3), libstdc++6 (>= 6) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/perl-rna_2.8.0-1_amd64.deb Size: 2249392 MD5sum: 5f74395eb3452b762376a0301786473c SHA1: e3ea4bfb6168822fd884b77e34b9a34ea952fa5a SHA256: edccfde13661377dd7c432d8b6370614a65039b1602f49b5b3b1d79a18c99a38 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, perl-rna Filename: amd64/perl-rna-barrier_1.8.1-1_amd64.deb Size: 7596 MD5sum: c3f28461c3344a9258601f50b937e495 SHA1: cf4c1c842c1a01889e2a46574eb82feb6b9e7fd5 SHA256: 194c999bd5e1a1880cee783f3bff0f2b7e49ac30c88ab8964c07e6cc389ceab7 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, perl-rna Filename: i386/perl-rna-barrier_1.8.1-1_i386.deb Size: 7596 MD5sum: 663b685ac54b8b54afcea2021823816f SHA1: 0c0db94497bba27512a3c9302c23708353b764b2 SHA256: 7a056871156a16b2e17a13c0216d2e3f7065b7978d53f571adb7bfcf5d83fcef 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: 2.8.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 17434 Depends: perl-rna (= 2.8.0-1) Filename: amd64/perl-rna-dbgsym_2.8.0-1_amd64.deb Size: 15642032 MD5sum: c31e136502193a5885a8e5bb3e78082b SHA1: 454f65ed17f9293e0fecc13b5a4739894d24d809 SHA256: 298589d189eab9cf9ea346d2a93311c4b983af4d710904494d48c8276931632e Section: debug Priority: optional Description: debug symbols for perl-rna Build-Ids: 2a921128cf88b515a94a3faefae3b5b9eb4ec259 Package: python3-rna Source: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 17164 Depends: python3 (<< 3.8), python3 (>= 3.7~), python3:any, libc6 (>= 2.27), libgcc1 (>= 1:4.0), libgmp10, libgomp1 (>= 4.9), libgsl23 (>= 2.5), libgslcblas0 (>= 2.4), liblapack3 | liblapack.so.3, libmpfr6 (>= 3.1.3), libstdc++6 (>= 6) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/python3-rna_2.8.0-1_amd64.deb Size: 3025196 MD5sum: b1dcea53130e4805da8eaaaab36f0ae1 SHA1: f4111497b30fab02adebdcfb43e9e21e39203bf8 SHA256: abe5098ce83fdb23adb297810bcde3ff7b9f372ea1c52d30bbb0931dbcef2032 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: 2.8.0-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 25812 Depends: python3-rna (= 2.8.0-1) Filename: amd64/python3-rna-dbgsym_2.8.0-1_amd64.deb Size: 22518176 MD5sum: b4d41fc3ce539a0337db3d5ba60a99e1 SHA1: 10259067904cf4236cb64389deab55cd7bd3d1b9 SHA256: ed23225d1f55ee61bd2d3816557cba22a7e137a54b314a0b99210ae2a66a5951 Section: debug Priority: optional Description: debug symbols for python3-rna Build-Ids: 541068219c2b8cc15094cbd094a77ba4ab171893 92a487a75a83e27bf100a90bf5fc7d14845a1496 Package: treekin Version: 0.5.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 117 Depends: libblas3, libc6 (>= 2.14), libgcc1 (>= 1:3.0), libgfortran5 (>= 8), liblapack3, libquadmath0 (>= 4.6), libstdc++6 (>= 4.9), liblapacke, gfortran, mlapack-dev Filename: amd64/treekin_0.5.0-1_amd64.deb Size: 47912 MD5sum: f592b6dce071a8d43b7cb70597a3fa6e SHA1: ea9cad0e6c883e5cb7ea3a86cc60a6aabbf2b51b SHA256: bc7eb19e65f0bc88d9054c191ecce5ed61ebcc97a10182aaa5fcabbbd5433e84 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: 127 Depends: libblas3, libc6 (>= 2.28), libgcc1 (>= 1:3.0), libgfortran5 (>= 8), liblapack3, libquadmath0 (>= 4.6), libstdc++6 (>= 4.9), liblapacke, gfortran, mlapack-dev Filename: i386/treekin_0.5.0-1_i386.deb Size: 50564 MD5sum: c6b58623123ac525eea74e9f71b2df0b SHA1: 0ba9246276a9b9da78d5a078fd0b4e65c9018b79 SHA256: 977dcbaf85e34e4865f9c5252e89b109f6352c46d075a0ce1059f6aebb0b5ccf 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: 226 Depends: treekin (= 0.5.0-1) Filename: amd64/treekin-dbgsym_0.5.0-1_amd64.deb Size: 209836 MD5sum: 36ecccf5d37a09b2363283412fb2166f SHA1: 95b05c4b9de15b177287b16161c1d6cce0db5899 SHA256: 117eccc4644c791e7bb553402e738e56fc76c1111b39f17630b857b7602d7625 Section: debug Priority: optional Description: debug symbols for treekin Build-Ids: 5c9956ac3fbb5fba442dad69bb212ac34fab18d0 Package: treekin-dbgsym Source: treekin Version: 0.5.0-1 Auto-Built-Package: debug-symbols Architecture: i386 Maintainer: Ronny Lorenz Installed-Size: 221 Depends: treekin (= 0.5.0-1) Filename: i386/treekin-dbgsym_0.5.0-1_i386.deb Size: 205604 MD5sum: f008ca359511ee4f1fa4c1c627561f60 SHA1: 9b26820734f4c3ece93f703a47cdb6cf1fc3acfd SHA256: cc846f774551d59a660556982f0445bfa3c89e1d705fcf7d27114f1a3a9cf461 Section: debug Priority: optional Description: debug symbols for treekin Build-Ids: 911f0e4521a835debf34d6f4331494abf7d9c777 Package: viennarna Version: 2.8.0-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 38915 Depends: libgomp1 (>= 4.9), libgsl23 (>= 2.5), libmpfr6 (>= 3.1.3), liblapack | liblapack3, liblapacke, libc6 (>= 2.27), libgcc1 (>= 1:4.0), libgmp10, libgslcblas0 (>= 2.4), liblapack3 | liblapack.so.3, libstdc++6 (>= 6) Recommends: python3-rna, perl-rna Breaks: vienna-rna (<< 2.2.1-2) Replaces: vienna-rna (<< 2.2.1-2) Filename: amd64/viennarna_2.8.0-1_amd64.deb Size: 3514940 MD5sum: 212270c8e3f77235484ac7c921cc8597 SHA1: 28d3322f0e1980f29cb36666d43ffe89daf2112f SHA256: 3559606cb10a3ad9f9726ce059702cb2f2b9bd4534461bdcb1199e0bb6add11a 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. 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