remove extra files

run_script.sh

-#!/bin/bash
-
-infile=/Users/rbator01/Box/rebecca_documents/sdmmej_data/PolyGSeq.csv
-indir=/Users/rbator01/Box/rebecca_documents/sdmmej_data/
-search_radius=30
-breakpoint=161
-debug=0
-
-reclass=${infile%.csv}_reclassified.csv
-deletion=${infile%.csv}_deletion.txt
-insertion=${infile%.csv}_insertion.txt
-
-Rscript process_hifibr.R $infile $indir $search_radius $breakpoint $debug
-
-cd deletion/
-python SDMMEJDeletionProgram_cli.py -hi $reclass -del $deletion -n $breakpoint -out $indir
-
-cd ../insertion/
-Rscript INSERTION_PROGRAM.R $reclass $insertion $indir $breakpoint $search_radius
-
-