Merge pull request #4 from zacherydickson/master

pratas · web-flow · commit 517b9c7c2819 · 2024-06-10T19:36:16.000+01:00
Allowed input_data to be symbolic links
diff --git a/src/TRACESPipe.sh b/src/TRACESPipe.sh
@@ -166,8 +166,8 @@ CHECK_META_INFO () {
 #
 #
 CHECK_GZIP_FILES () {
-  FILE_GZ1=`file ../input_data/$1 | grep gzip | wc -l`;
-  FILE_GZ2=`file ../input_data/$2 | grep gzip | wc -l`;
+  FILE_GZ1=`file -L ../input_data/$1 | grep gzip | wc -l`;
+  FILE_GZ2=`file -L ../input_data/$2 | grep gzip | wc -l`;
   if [[ "$FILE_GZ1" != "1" ]] || [[ "$FILE_GZ2" != "1" ]];
     then
     echo -e "\e[31mERROR: the input reads are not gzipped!\e[0m"

Original file line number	Diff line number	Diff line change
`@@ -166,8 +166,8 @@ CHECK_META_INFO () {`
`166`	`166`	`#`
`167`	`167`	`#`
`168`	`168`	`CHECK_GZIP_FILES () {`
`169`		- FILE_GZ1=`file ../input_data/$1 \| grep gzip \| wc -l`;
`170`		- FILE_GZ2=`file ../input_data/$2 \| grep gzip \| wc -l`;
	`169`	+ FILE_GZ1=`file -L ../input_data/$1 \| grep gzip \| wc -l`;
	`170`	+ FILE_GZ2=`file -L ../input_data/$2 \| grep gzip \| wc -l`;
`171`	`171`	`if [[ "$FILE_GZ1" != "1" ]] \|\| [[ "$FILE_GZ2" != "1" ]];`
`172`	`172`	`then`
`173`	`173`	`echo -e "\e[31mERROR: the input reads are not gzipped!\e[0m"`