add script for batch processing

asonje · Mar 26, 2019 · a6649be · a6649be
1 parent f493a4d
commit a6649be
Showing 1 changed file with 27 additions and 0 deletions.
diff --git a/PAT-post-processing/batch-process.sh b/PAT-post-processing/batch-process.sh
@@ -0,0 +1,27 @@
+## script for post processing PAT data in batch
+## ${Base_dir} contains all the PAT source data that needs to be processed, change this dir to your own
+Base_dir=/home/test1
+
+################################################################################
+## DO NOT NEED TO EDIT BELOW PARTS!!!
+################################################################################
+PAT_POST_HOME=$( cd $( dirname ${BASH_SOURCE[0]} ) && pwd )
+
+Original_name="PAT-Result"
+for item in `ls ${Base_dir}`
+do
+	echo "Processing ${item}..."
+	New_name=${item}
+	New_dir=${Base_dir}/${item}/instruments/
+	sed -i "s/${Original_name}/${New_name}/g" ${PAT_POST_HOME}/pat-post-process.py
+	sed -i "s|<source>.*</source>|<source>${New_dir}</source>|g" ${PAT_POST_HOME}/config.xml
+	#${PAT_POST_HOME}/pat-post-process.py
+	echo "${item} done!"
+	Original_name=${New_name}
+done
+## change back to original value
+sed -i "s/${Original_name}/PAT-Result/g" ${PAT_POST_HOME}/pat-post-process.py
+sed -i "s|<source>.*</source>|<source>/foo/bar/instruments/</source>|g" ${PAT_POST_HOME}/config.xml
+
+
+