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Diffstat (limited to 'examples/ex-tnpair/cluster.nix')
-rw-r--r-- | examples/ex-tnpair/cluster.nix | 25 |
1 files changed, 25 insertions, 0 deletions
diff --git a/examples/ex-tnpair/cluster.nix b/examples/ex-tnpair/cluster.nix new file mode 100644 index 0000000..d7537b2 --- /dev/null +++ b/examples/ex-tnpair/cluster.nix @@ -0,0 +1,25 @@ +{ bionix ? import <bionix> { }, tmpDir ? null }: + +let + bionix' = (bionix."${if tmpDir == null then "slurm" else "qsub"}" { + ppn = 24; + mem = 7; + walltime = "3:00:00"; + } // bionix.lib.optionalAttrs (tmpDir != null) { inherit tmpDir; }).extend + (self: super: + with self; { + minimap2.align = def super.minimap2.align { + mem = 15; + walltime = "16:00:00"; + }; + samtools = super.samtools // (with super.samtools; { + markdup = def markdup { walltime = "12:00:00"; }; + fixmate = def fixmate { walltime = "10:00:00"; }; + sort = def sort { + mem = 27; + flags = "-m 1G"; + }; + }); + }); + +in import ./. { bionix = bionix'; } |