--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/PLIDflow/scripts/separateChain.sh	Wed Apr 22 06:12:00 2020 -0400
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+# Arguments
+# $1 = pdb
+
+
+
+nbad=$(awk '{if(length($5) > 1) print $0 }' $1 | wc -l)
+
+if [[ $nbad -ne 0 ]]; then
+
+	#cat $1 | awk 'BEGIN{FS="\t"}{ split($0, array, " "); a=substr(array[5],1,1); b=substr(array[5],2);  }'
+	cat $1 | gawk 'BEGIN{FS="\t"}{ split($0, array, " "); if(array[5] ~ /([A-Z][0-9]+)/){ a=substr(array[5],1,1); b=substr(array[5],2); gsub(array[5], a" "b, $0); gsub(a" "b" ", a" "b, $0) ; print $0; }else{ print $0}}' > $1.temp.awk
+	grep "ATOM\|HETATM" $1.temp.awk | awk '{ if(length($5)==1) updateName=$5;   if($1 == "ATOM" || $1 == "HETATM"){  print $0 > "chain"updateName".pdb";  }}' ;
+	rm $1.temp.awk
+
+else
+
+	grep "ATOM\|HETATM" $1 | awk '{ if(length($5)==1) updateName=$5;   if($1 == "ATOM" || $1 == "HETATM"){  print $0 > "chain"updateName".pdb";  }}' ; 
+
+fi
+
+#grep "ATOM\|HETATM" $1 | awk '{ if(length($5)==1) updateName=$5;   if($1 == "ATOM" || $1 == "HETATM"){  print $0 > "chain"updateName".pdb";  }}' ; 
+for i in chain* ; do echo "TER" >> $i ; echo "END" >> $i ; done