Run one script on multiple files and print out multiple files.

Shell Programming and Scripting
1

How can I Run one script on multiple files and print out multiple files.
FOR EXAMPLE
i want to run script.pl on 100 files named 1.txt ....100.txt under same directory and print out corresponding file 1.gff ....100.gff.THANKS

2

You haven't specified how your script works. Here is an example based on the assumption that your script is called script.sh and writes output to standard output

#script foo.sh, calls your script "script.sh" and assumes that #script.sh writes to standard output
while read a
do
        filename=`echo ${a} | cut -d\. -f1`
        echo ${filename}
        ./script.sh ${a} > ${filename}.gff
done

Then you do...

ls [1-9].txt | ./foo.sh
3

I want to do

perl genome.gff 1.txt > 1.gff

there are multiple files for 1.txt; 1_1.txt.....3_4.txt,
how can i generate 1_1.gff......corespondingly? Thank you

4 
Replace
 ./script.sh ${a} > ${filename}.gff
with
perl genome.gff ${a} > ${filename}.gff
5

Try

for FN in *.txt
  do perl genome.gff "$FN" > "${FN%.*}".gff
  done