#acl ChrisSeidel:read,write,delete,revert All:read
= bash shell =

method 1
{{{
# get the base name of a file
f=twist_ip.fastq.gz
base=`basename $f .fastq.gz`
echo $base
}}}

method 2

More modern, and placing the file variable in quotes will survive files with spaces in the name.
{{{
# the modern way
f=twist_ip.fastq.gz
base=$(basename "$f" .fastq.gz)
echo $base
}}}