# HG changeset patch
# User davidvanzessen
# Date 1437661784 14400
# Node ID d8d61e65dfd52c0294caea6c0da2ed5a349567fc
# Parent  c06d0df9ec44d9744971d56d76a2f33e7a77db85
Uploaded

diff -r c06d0df9ec44 -r d8d61e65dfd5 experimental_design.xml
diff -r c06d0df9ec44 -r d8d61e65dfd5 imgt_loader/imgt_loader.sh
--- a/imgt_loader/imgt_loader.sh	Thu Jul 16 08:39:04 2015 -0400
+++ b/imgt_loader/imgt_loader.sh	Thu Jul 23 10:29:44 2015 -0400
@@ -11,6 +11,7 @@
 gzipType="gzip compressed"
 zipType="Zip archive"
 rarType="RAR archive"
+zxType="XZ compressed data"
 
 if [[ "$f" == *"$zip7Type"* ]]; then
 	echo "7-zip"
@@ -22,21 +23,21 @@
 then
 	echo "tar archive"
 	echo "Trying: tar xvf $input -C $PWD/files/"
-	tar xvf $input -C $PWD/$name/files
+	tar -xvf $input -C $PWD/$name/files
 fi
 
 if [[ "$f" == *"$bzip2Type"* ]]
 then
 	echo "bzip2 compressed data"
 	echo "Trying: tar jxf $input -C $PWD/files/"
-	tar jxf $input -C $PWD/$name/files
+	tar -jxf $input -C $PWD/$name/files
 fi
 
 if [[ "$f" == *"$gzipType"* ]]
 then
 	echo "gzip compressed data"
 	echo "Trying: tar xvzf $input -C $PWD/files/"
-	tar xvzf $input -C $PWD/$name/files
+	tar -xvzf $input -C $PWD/$name/files
 fi
 
 if [[ "$f" == *"$zipType"* ]]
@@ -52,6 +53,13 @@
 	echo "Trying: unrar e $input $PWD/files/"
 	unrar e $input $PWD/$name/files
 fi
+
+if [[ "$f" == *"$zxType"* ]]
+then
+	echo "xz compressed data"
+	echo "Trying: tar -xJf $input -C $PWD/files/"
+	tar xJf $input -C $PWD/$name/files
+fi
 find $PWD/$name/files -iname "1_*" -exec cat {} + > $PWD/$name/summ.txt
 find $PWD/$name/files -iname "5_*" -exec cat {} + > $PWD/$name/aa.txt
 find $PWD/$name/files -iname "6_*" -exec cat {} + > $PWD/$name/junction.txt