Package: barriers Version: 1.8.1-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 156 Depends: libc6 (>= 2.14), perl Filename: amd64/barriers_1.8.1-1_amd64.deb Size: 60804 MD5sum: f2208b88d1c2fdd1d44ee53f923ec76d SHA1: 5063583bfe4efd229455beebc288513c7726c7cc SHA256: 2071ef2db4d847b1ddcac2048c9cbe1e89b5e284fcb7819da792451730d99962 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: 115257 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: 21318744 MD5sum: 43fb0d27ab3b1955d5e5fa01d8dfbf23 SHA1: ca555622676e013a2ac994c81f3c0286019b03e0 SHA256: c18adab01a713b3ab111dc0b8bdc770573ff791cadb5ef600a6988123051cca0 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: 228920 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: 37909128 MD5sum: c0b7e5c900cefae9420bc83c5b991c02 SHA1: eb600c9e2c13a1de1c35b4d2f613968373028a49 SHA256: 6442fb84b4ebc5a28f1c7f6c77f4b46eb14cd833bd30965f2c0629252cbd4c34 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: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10233 Depends: perl (>= 5.26.1-6), perlapi-5.26.1, libc6 (>= 2.27), libgcc1 (>= 1:4.0), libgomp1 (>= 4.9), libgsl23, libgslcblas0, libmpfr6 (>= 3.1.3), libstdc++6 (>= 6) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/perl-rna_2.6.4-1_amd64.deb Size: 1871060 MD5sum: 59063fb56a18f1f24fb076818177a495 SHA1: fb88c2e5935f347e4d92ab62cd93745413cf2a3e SHA256: 8016115ebf3ee2a0e0e0cf1156c9ba74a3423cfcc8d0b7d65f6d43a9434f96fe 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: python3-rna Source: viennarna Version: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 10381 Depends: python3 (<< 3.7), python3 (>= 3.6~), python3:any (>= 3.3.2-2~), libc6 (>= 2.27), libgcc1 (>= 1:4.0), libgomp1 (>= 4.9), libgsl23, libgslcblas0, libmpfr6 (>= 3.1.3), libstdc++6 (>= 6) Conflicts: vienna-rna (<< 2.2.1-2) Filename: amd64/python3-rna_2.6.4-1_amd64.deb Size: 1775808 MD5sum: 044f5f18eb35f735c70706741f021619 SHA1: c0a7fdfdc362fc7406592c737a34a2f14a8caf52 SHA256: 14e9d1ef42ab63411a1eac4213a803bc3692117f3d040e40a236ede46eeeab93 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: 115 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), liblapack3, libstdc++6 (>= 4.9), libblas3, liblapacke, gfortran, mlapack-dev Filename: amd64/treekin_0.5.0-1_amd64.deb Size: 47420 MD5sum: 9c459ae7108ecc33b0adf49040507c64 SHA1: ad711e22955776c96858719bb79642bcc4df2337 SHA256: 7e2056a1373cc0ccc77e470007ecb944a4178bb60733e7e89e2d16443497d319 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: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 43541 Depends: libgomp1 (>= 4.9), libgsl23, libmpfr6 (>= 3.1.3), liblapack, liblapacke, libc6 (>= 2.14), libgcc1 (>= 1:3.3.1), libgslcblas0, liblapack3 | liblapack.so.3, libstdc++6 (>= 5.2) 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: 3789388 MD5sum: 30bd40a1e3e3d1c67536ef57219e8fa8 SHA1: 7a5a8977a9bd03512f20bace50aa0a74e86675c2 SHA256: bbb3f9c04c3c79c3e8591ae4f72ba82705321a3e6fcc78e5cc1f88299f03cf02 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: 2.6.4-1 Architecture: amd64 Maintainer: Ronny Lorenz Installed-Size: 95336 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: 44991084 MD5sum: ab1a8de679a52cb9ba6e8dfc7e582c4a SHA1: 270dac516626c94973b54aefdf9db6a20095afe2 SHA256: c5e8a88b4c1b3ff6f3053573ae8ceeba5e6a4a116daf21bd55b571616e9cf62b 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: 25270 Conflicts: vienna-rna (<< 2.2.1-2) Filename: all/viennarna-doc_2.6.4-1_all.deb Size: 12417224 MD5sum: 62a7ffa1035fbaafca07837319c99e4d SHA1: 02f334ca5ace704de579f663802cfa55fec34216 SHA256: 97ed521de3da0b3d7c9988d154df0314b39be67d9a3cdad71653c9f53d9d41a2 Section: doc Priority: optional Description: ViennaRNA Package - RNAlib Reference Manual Reference Manual for RNAlib C-library in PDF and HTML format