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biology/paml added

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svn path=/nixpkgs/trunk/; revision=11997
This commit is contained in:
Pjotr Prins 2008-06-06 08:23:49 +00:00
parent dfb4b8d51c
commit f9e018c80d
2 changed files with 36 additions and 0 deletions
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32
pkgs/applications/science/biology/paml/default.nix Normal file
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@ -0,0 +1,32 @@
{stdenv, fetchurl}:
stdenv.mkDerivation {
name = "paml";
src = fetchurl {
url = http://abacus.gene.ucl.ac.uk/software/paml4b.tar.gz;
sha256 = "0jm9smbkwycwchv6a98yh5xmfw7167p59zpzi5sjz0ka4y7vp3ib";
};
preBuild = ''
cd ./src/
'';
installPhase = ''
mkdir -pv $out/bin
cp -v codeml $out/bin
cp -v baseml $out/bin
cp -v basemlg $out/bin
cp -v chi2 $out/bin
cp -v codeml $out/bin
cp -v evolver $out/bin
cp -v mcmctree $out/bin
cp -v pamp $out/bin
cp -v yn00 $out/bin
'';
meta = {
description = "Phylogenetic Analysis by Maximum Likelihood (PAML)";
longDescription = ''PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. It is maintained and distributed for academic use free of charge by Ziheng Yang. ANSI C source codes are distributed for UNIX/Linux/Mac OSX, and executables are provided for MS Windows. PAML is not good for tree making. It may be used to estimate parameters and test hypotheses to study the evolutionary process, when you have reconstructed trees using other programs such as PAUP*, PHYLIP, MOLPHY, PhyML, RaxML, etc.'';
license = "non-commercial";
homepage = http://abacus.gene.ucl.ac.uk/software/paml.html;
};
}

4
pkgs/top-level/all-packages.nix
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@ -6813,6 +6813,10 @@ let pkgs = rec {
inherit fetchurl stdenv readline; inherit fetchurl stdenv readline;
}; };
paml = import ../applications/science/biology/paml {
inherit fetchurl stdenv;
};
### SCIENCE/LOGIC ### SCIENCE/LOGIC
coq = import ../applications/science/logic/coq { coq = import ../applications/science/logic/coq {