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paml: refactor

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natsukium 2023-07-14 11:06:19 +09:00
parent f6e2b68122
commit d2c506948b
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1 changed files with 13 additions and 4 deletions
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17
pkgs/applications/science/biology/paml/default.nix
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@ -1,13 +1,16 @@
{lib, stdenv, fetchFromGitHub}: { lib
, stdenv
, fetchFromGitHub
}:
stdenv.mkDerivation rec { stdenv.mkDerivation (finalAttrs: {
pname = "paml"; pname = "paml";
version = "4.10.7"; version = "4.10.7";
src = fetchFromGitHub { src = fetchFromGitHub {
owner = "abacus-gene"; owner = "abacus-gene";
repo = "paml"; repo = "paml";
rev = "refs/tags/${version}"; rev = "refs/tags/${finalAttrs.version}";
hash = "sha256-P/oHaLxoQzjFuvmHyRdShHv1ayruy6O/I9w8aTyya2s="; hash = "sha256-P/oHaLxoQzjFuvmHyRdShHv1ayruy6O/I9w8aTyya2s=";
}; };
@ -18,6 +21,8 @@ stdenv.mkDerivation rec {
''; '';
installPhase = '' installPhase = ''
runHook preInstall
mkdir -pv $out/bin mkdir -pv $out/bin
cp -v codeml $out/bin cp -v codeml $out/bin
cp -v baseml $out/bin cp -v baseml $out/bin
@ -28,6 +33,8 @@ stdenv.mkDerivation rec {
cp -v mcmctree $out/bin cp -v mcmctree $out/bin
cp -v pamp $out/bin cp -v pamp $out/bin
cp -v yn00 $out/bin cp -v yn00 $out/bin
runHook postInstall
''; '';
meta = { meta = {
@ -35,5 +42,7 @@ stdenv.mkDerivation rec {
longDescription = "PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. It is maintained and distributed for academic use free of charge by Ziheng Yang. ANSI C source codes are distributed for UNIX/Linux/Mac OSX, and executables are provided for MS Windows. PAML is not good for tree making. It may be used to estimate parameters and test hypotheses to study the evolutionary process, when you have reconstructed trees using other programs such as PAUP*, PHYLIP, MOLPHY, PhyML, RaxML, etc."; longDescription = "PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. It is maintained and distributed for academic use free of charge by Ziheng Yang. ANSI C source codes are distributed for UNIX/Linux/Mac OSX, and executables are provided for MS Windows. PAML is not good for tree making. It may be used to estimate parameters and test hypotheses to study the evolutionary process, when you have reconstructed trees using other programs such as PAUP*, PHYLIP, MOLPHY, PhyML, RaxML, etc.";
license = lib.licenses.gpl3Only; license = lib.licenses.gpl3Only;
homepage = "http://abacus.gene.ucl.ac.uk/software/paml.html"; homepage = "http://abacus.gene.ucl.ac.uk/software/paml.html";
changelog = "https://github.com/abacus-gene/paml/releases/tag/${finalAttrs.src.rev}";
platforms = lib.platforms.unix;
}; };
} })