Commit f50add15 authored by TomKellyGenetics's avatar TomKellyGenetics
Browse files

handle files in other directory

parent 1e8213f2
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+10 −4
Original line number Diff line number Diff line
@@ -583,13 +583,16 @@ case $read in
        read1[$i]=$read
        echo "   renaming $read";;
esac
#check if file in directory and link if not
path=$read
read=`echo $read | sed -r "s/.+\/(.+)/\1/"`
if [ ! -f $read ]
echo "read: $read"
echo "path: $path"
if [ ! -f $read ] || [ -h $read ]
    then
    echo "  warning: file $read not in current directory"
    echo "   creating link to full path"
    mv $path $read
    ln -sf $path $read
    read1[$i]=$read
fi
done
@@ -633,13 +636,16 @@ case $read in
        read1[$i]=$read
        echo "   renaming $read";;
esac
#check if file in directory and link if not
path=$read
read=`echo $read | sed -r "s/.+\/(.+)/\1/"`
if [ ! -f $read ] 
echo "read: $read"
echo "path: $path"
if [ ! -f $read ]  || [ -h $read ]
    then
    echo "  warning: file $read not in current directory"
    echo "   creating link to full path"
    mv $read $path
    ln -s -f $read $path
    read2[$i]=$read
fi
done