44 lines
1.1 KiB
Nix
44 lines
1.1 KiB
Nix
{ lib
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, fetchFromGitHub
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, python3Packages
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}:
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python3Packages.buildPythonApplication rec {
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pname = "truvari";
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version = "1.3.4";
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src = fetchFromGitHub {
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owner = "spiralgenetics";
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repo = "truvari";
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rev = "v${version}";
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sha256 = "1bph7v48s7pyfagz8a2fzl5fycjliqzn5lcbv3m2bp2ih1f1gd1v";
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};
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propagatedBuildInputs = with python3Packages; [
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pyvcf
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python-Levenshtein
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progressbar2
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pysam
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pyfaidx
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intervaltree
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];
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prePatch = ''
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substituteInPlace ./setup.py \
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--replace '"progressbar2==3.41.0",' '"progressbar2==3.47.0",' \
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--replace '"pysam==0.15.2",' '"pysam==0.15.4",' \
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--replace '"pyfaidx==0.5.5.2",' '"pyfaidx==0.5.8",'
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'';
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meta = with lib; {
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description = "Structural variant comparison tool for VCFs";
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license = licenses.mit;
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maintainers = with maintainers; [ scalavision ];
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longDescription = ''
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Truvari is a benchmarking tool for comparison sets of SVs.
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It can calculate the recall, precision, and f-measure of a
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vcf from a given structural variant caller. The tool
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is created by Spiral Genetics.
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'';
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};
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}
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