setup.cfg
setup.py
circlator/__init__.py
circlator/assemble.py
circlator/assembly.py
circlator/bamfilter.py
circlator/clean.py
circlator/common.py
circlator/dnaa.py
circlator/external_progs.py
circlator/mapping.py
circlator/merge.py
circlator/minimus2.py
circlator/program.py
circlator/start_fixer.py
circlator/versions.py
circlator.egg-info/PKG-INFO
circlator.egg-info/SOURCES.txt
circlator.egg-info/dependency_links.txt
circlator.egg-info/requires.txt
circlator.egg-info/top_level.txt
circlator/data/dnaA.fasta
circlator/data/test_contigs.fa
circlator/data/test_for_reads.fa
circlator/data/test_make_data.sh
circlator/data/test_reads.fq.gz
circlator/data/test_ref.fa
circlator/data/test_ref.fa.fai
circlator/tasks/__init__.py
circlator/tasks/all.py
circlator/tasks/assemble.py
circlator/tasks/bam2reads.py
circlator/tasks/clean.py
circlator/tasks/fixstart.py
circlator/tasks/get_dnaa.py
circlator/tasks/mapreads.py
circlator/tasks/merge.py
circlator/tasks/minimus2.py
circlator/tasks/progcheck.py
circlator/tasks/test.py
circlator/tasks/version.py
scripts/circlator