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I have multiple files on a another server that needs to be downloaded, processed and deleted following by script. The download url is defined as $FILE in the script. However, I am not sure how to call the actual filename using $FILE in my second command samtools since the filename is the last part of the url and therefore not the same as "$FILE". Any suggestions how to define the filename (which is the part after the last / in the url, indicated as * below) so that I can input and output a unique file in the samtools function, and also delete the same file after processing using rm.

test.txt

gs://hmf-cram-xfdrvdrv/file123535_dedup.realigned.cram.crai 
gs://hmf-cram-dvdvdv/file12353535_dedup.realigned.cram.crai 
gs://hmf-cram-evd/file46475754_dedup.realigned.cram.crai

script

#!/bin/bash
mapfile -s 1 -t files < test.txt 
echo "${files[@]}"
for FILE in ${files[@]}; do
        gsutil -u absolute-bison-xxxx cp $FILE gs://bucket_1
        samtools view -@5  -O bam -f 4 *.cram > /home/user/*.unmapped.bam
        rm *.cram
        rm *.crai;
done
user2300940
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