from .utils import (grouper, multiprocess, find_files, file_transaction,
                    safe_makedir, file_exists, run, cp, mv, logger, tmp_dir,
                    gunzip_file, pigz_file)
from .fastx import (readfx, complexity_filter, read_count, print_fasta_record,
                    munge_header, length_filter, fasta_stats, length_sort,
                    remove_seq_wraps, gc_skew_and_content, trim_fastx,
                    check_sync, tmp_split_reads)
from .apps import (index_bam, run_fastqc, trimmomatic,
                   trimmomatic_version, run_kmernorm, kmernorm_version, spades,
                   spades_version, parse_bcl2fastq_log, bwa_mem, blastn,
                   blast_formatter, tetramer_pca, reference_filter,
                   blast_results_filter, run_checkm, run_seqtk_sample)
from .classifier import classify_by_ssu
# from .plot import
