diff --git a/pkgs/applications/science/biology/mafft/default.nix b/pkgs/applications/science/biology/mafft/default.nix index f2e3ead2e913..ca1f89388a44 100644 --- a/pkgs/applications/science/biology/mafft/default.nix +++ b/pkgs/applications/science/biology/mafft/default.nix @@ -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; + }; +})