67 lines
1.8 KiB
Nix
67 lines
1.8 KiB
Nix
{ lib
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, stdenv
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, fetchFromGitHub
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, fetchpatch
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, cmake
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, zlib
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}:
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stdenv.mkDerivation (finalAttrs: {
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pname = "TandemAligner";
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version = "0.1";
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src = fetchFromGitHub {
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owner = "seryrzu";
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repo = "tandem_aligner";
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rev = "v${finalAttrs.version}";
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hash = "sha256-iMDj1HZ8LzmZckuAM3lbG3eSJSd/5JGVA6SBs7+AgX8=";
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};
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patches = [
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(fetchpatch {
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# https://github.com/seryrzu/tandem_aligner/pull/4
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url = "https://github.com/seryrzu/tandem_aligner/commit/8b516c94f90aaa9cb84278aa811285d4204b03a9.patch";
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hash = "sha256-kD46SykXklG/avK0+sc61YKFw9Bes8ZgFAjVXmcpN8k=";
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stripLen = 1;
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})
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];
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sourceRoot = "source/tandem_aligner";
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nativeBuildInputs = [ cmake ];
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buildInputs = [ zlib ];
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installPhase = ''
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runHook preInstall
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mkdir -p $out/bin
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cp src/projects/tandem_aligner/tandem_aligner $out/bin
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runHook postInstall
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'';
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doCheck = true;
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# adapted from target test_launch in Makefile
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checkPhase = ''
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runHook preCheck
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mkdir -p $TMPDIR/test_launch
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src/projects/tandem_aligner/tandem_aligner \
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--first $src/tandem_aligner/test_dataset/first.fasta \
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--second $src/tandem_aligner/test_dataset/second.fasta \
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-o $TMPDIR/test_launch \
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--debug
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grep -q "Thank you for using TandemAligner!" $TMPDIR/test_launch/tandem_aligner.log
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diff $TMPDIR/test_launch/cigar.txt $src/tandem_aligner/test_dataset/true_cigar.txt
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runHook postCheck
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'';
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meta = {
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description = "A parameter-free algorithm for sequence alignment";
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homepage = "https://github.com/seryrzu/tandem_aligner";
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changelog = "https://github.com/seryrzu/tandem_aligner/releases/tag/v${finalAttrs.version}";
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license = lib.licenses.bsd3;
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maintainers = with lib.maintainers; [ amesgen ];
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platforms = lib.platforms.linux;
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mainProgram = "tandem_aligner";
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};
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})
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