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Merge pull request #307399 from natsukium/mafft/update

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mafft: 7.525 -> 7.526
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OTABI Tomoya 2024-04-29 01:27:57 +09:00 committed by GitHub
commit 838a368153
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1 changed files with 42 additions and 16 deletions
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58
pkgs/applications/science/biology/mafft/default.nix
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@ -1,14 +1,20 @@
{ lib, stdenv, fetchFromGitLab }:
{
lib,
stdenv,
fetchFromGitLab,
runCommand,
mafft,
}:
stdenv.mkDerivation rec {
stdenv.mkDerivation (finalAttrs: {
pname = "mafft";
version = "7.525";
version = "7.526";
src = fetchFromGitLab {
owner = "sysimm";
repo = pname;
rev = "v${version}";
sha256 = "sha256-ckBmvFssYAmYcBHAEftjQqBV0MB0theGfemaPx3XUws=";
repo = "mafft";
rev = "v${finalAttrs.version}";
hash = "sha256-VNe00r12qEkLEbpZdJCe5xZ73JA3uAmuAeG+eSeRDI0=";
};
preBuild = ''
@ -16,14 +22,34 @@ stdenv.mkDerivation rec {
make clean
'';
makeFlags = [ "CC=${stdenv.cc.targetPrefix}cc" "PREFIX=$(out)" ];
makeFlags = [
"CC=${stdenv.cc.targetPrefix}cc"
"PREFIX=$(out)"
];
meta = with lib;
{
description = "Multiple alignment program for amino acid or nucleotide sequences";
homepage = "https://mafft.cbrc.jp/alignment/software/";
license = licenses.bsd3;
maintainers = with maintainers; [ natsukium ];
platforms = platforms.unix;
};
}
passthru.tests = {
simple = runCommand "${finalAttrs.pname}-test" { } ''
mkdir $out
cd ${finalAttrs.src}/test
${lib.getExe mafft} sample > $out/test.fftns2
${lib.getExe mafft} --maxiterate 100 sample > $out/test.fftnsi
${lib.getExe mafft} --globalpair sample > $out/test.gins1
${lib.getExe mafft} --globalpair --maxiterate 100 sample > $out/test.ginsi
${lib.getExe mafft} --localpair sample > $out/test.lins1
${lib.getExe mafft} --localpair --maxiterate 100 sample > $out/test.linsi
diff $out/test.fftns2 sample.fftns2
diff $out/test.fftnsi sample.fftnsi
diff $out/test.gins1 sample.gins1
diff $out/test.ginsi sample.ginsi
diff $out/test.lins1 sample.lins1
'';
};
meta = with lib; {
description = "Multiple alignment program for amino acid or nucleotide sequences";
homepage = "https://mafft.cbrc.jp/alignment/software/";
license = licenses.bsd3;
maintainers = with maintainers; [ natsukium ];
platforms = platforms.unix;
};
})