Mercurial > repos > chrisw > monorail_test

changeset 39:6c879705d61b draft default tip

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Uploaded
author chrisw
date Wed, 20 Nov 2019 02:56:18 +0000
parents 318bff30468a
children
files run_mr_snakemake.sh
diffstat 1 files changed, 17 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/run_mr_snakemake.sh	Wed Nov 20 02:56:18 2019 +0000
@@ -0,0 +1,17 @@
+#!/bin/bash
+
+snakefile=$1
+numprocs=$2
+ref=$3
+exon_bed=$4
+output=$5
+temp=$6
+genome=$7
+inputs=$8
+compressed=$9
+
+if [[ -n "$compressed" ]]; then
+    comp_str="compressed=1"
+fi
+
+snakemake --snakefile "$snakefile" -j $numprocs --config inputs=$inputs $comp_str ref=$ref exon_bed=$exon_bed output=$output temp=$temp genome=$genome