Add repo run script (2/N)

scripts/run_analysis_modules.sh

@@ -0,0 +1,36 @@
+#!/bin/sh
+
+set -e
+set -o pipefail
+
+# Set the working directory to the directory of this file
+cd "$(dirname "${BASH_SOURCE[0]}")"
+
+# Get base directory of project
+cd ..
+BASEDIR="$(pwd)"
+cd -
+
+analyses_dir="$BASEDIR/analyses"
+
+# Run add-histologies analysis module
+echo "Run add-histologies"
+cd ${analyses_dir}/add-histologies
+bash run_module.sh
+
+# Run demo-clin-stats analysis module
+echo "Run demo-clin-stats"
+cd ${analyses_dir}/demo-clin-stats
+bash run_module.sh
+
+# Run survival analysis module
+echo "Run survival"
+cd ${analyses_dir}/survival
+bash run_module.sh
+
+# Run BRAF breakpoint analysis module
+echo "Run BRAF fusion breakpoint analysis"
+cd ${analyses_dir}/braf-fusions
+bash run_module.sh
+
+printf "\nDone running analysis modules!\n"