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| author | Sandro <sandro.jaeckel@gmail.com> | 2020-10-30 09:43:37 +0100 |
|---|---|---|
| committer | Sandro Jäckel <sandro.jaeckel@gmail.com> | 2020-11-25 21:36:38 +0100 |
| commit | e166f2275999940b4142c1f0f7b74f35db2c728a (patch) | |
| tree | 11ba90a838b49de2108e0ad63e04ace0457702e2 /pkgs/applications/science/biology/tebreak | |
| parent | 5f2997686cdfc8872b2ed6874c5e60ae31eafe79 (diff) | |
tebreak: Fix tests
Diffstat (limited to 'pkgs/applications/science/biology/tebreak')
| -rw-r--r-- | pkgs/applications/science/biology/tebreak/default.nix | 8 |
1 files changed, 7 insertions, 1 deletions
diff --git a/pkgs/applications/science/biology/tebreak/default.nix b/pkgs/applications/science/biology/tebreak/default.nix index 07669d097a44d..82c624ba7cd9e 100644 --- a/pkgs/applications/science/biology/tebreak/default.nix +++ b/pkgs/applications/science/biology/tebreak/default.nix @@ -1,5 +1,5 @@ { stdenv, fetchFromGitHub, last, exonerate, minia, python3Packages, bwa -, samtools, findutils }: +, samtools, findutils, python }: python3Packages.buildPythonApplication rec { pname = "tebreak"; @@ -32,6 +32,12 @@ python3Packages.buildPythonApplication rec { done ''; + checkPhase = '' + $out/bin/tebreak -b test/data/example.ins.bam -r test/data/Homo_sapiens_chr4_50000000-60000000_assembly19.fasta -p 4 --pickle test/example.pickle --detail_out test/example.tebreak.detail.out -i lib/teref.human.fa + pushd test + ${python.interpreter} checktest.py + ''; + meta = with stdenv.lib; { description = "Find and characterise transposable element insertions"; homepage = "https://github.com/adamewing/tebreak"; |