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| author | Justin Bedo <cu@cua0.org> | 2020-04-10 10:01:18 +1000 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2020-04-10 10:01:18 +1000 |
| commit | 05b53839802c91d301f1f5168fdcbb8de1d8549c (patch) | |
| tree | 78610f78067332a6a9bfa314ebe9d77106612bf4 | |
| parent | cdb7056a14915354d879c519dd396204e4af3959 (diff) | |
gridss 2.7.3 -> 2.8.3
| -rw-r--r-- | tools/gridss.nix | 7 |
1 files changed, 4 insertions, 3 deletions
diff --git a/tools/gridss.nix b/tools/gridss.nix index b9c1282..1a51537 100644 --- a/tools/gridss.nix +++ b/tools/gridss.nix @@ -1,11 +1,12 @@ {bionix}: with bionix; +with lib; rec { jar = pkgs.fetchurl { - url = "https://github.com/PapenfussLab/gridss/releases/download/v2.7.3/gridss-2.7.3-gridss-jar-with-dependencies.jar"; - sha256 = "0gzqilx7f7cjchkmsb2fn5vcx4pxvxdngwmsnwhhjr96pgsw0j9d"; + url = "https://github.com/PapenfussLab/gridss/releases/download/v2.8.3/gridss-2.8.3-gridss-jar-with-dependencies.jar"; + sha256 = "1qdbl3pl51v53rq2ab50mb00bxswi1njak1dcdwqbwbw2bm1r6rh"; }; /* Generate configuration file for GRIDSS. Takes attribute sets to GRIDSS ini style format. @@ -60,7 +61,7 @@ rec { Type: preprocessBam :: bam -> bam */ preprocessBam = with samtools; - pipe [ + flip pipe [ (gridss.extractSVReads {}) (sort {nameSort = true;}) (gridss.computeSamTags {}) |