| Previous changeset 2:92a2d9109528 (2022-07-01) Next changeset 4:505111e8aca5 (2022-08-03) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/concoct commit 1a79c139165648b969d82530784cea3fc8f2d2c0" |
|
modified:
extract_fasta_bins.xml macros.xml |
|
added:
test-data/clusters.csv test-data/composition.fa test-data/composition.fa.gz test-data/coverage test-data/ten_reads.fa test-data/ten_reads_two_contigs-s.bam test-data/two_contigs-cut1.fasta test-data/two_contigs-cut2-coverage.tabular test-data/two_contigs-cut2.bed test-data/two_contigs-cut2.fasta test-data/two_contigs.fa |
|
removed:
coverage_table.py cut_up_fasta.py extract_fasta_bins.py merge_cut_up_clustering.py test-data/input.fasta.gz test-data/input1.fa.gz test-data/input1.tabular test-data/input_coverage_table.fasta.gz test-data/input_coverage_table.tabular test-data/input_merge_clusters.tabular test-data/inputcluster1.tabular test-data/output_coverage_table.tabular test-data/output_merge_clusters.tabular |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 coverage_table.py --- a/coverage_table.py Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| [ |
| @@ -1,83 +0,0 @@ -#!/usr/bin/env python - -import argparse -import gzip -from functools import partial - -from Bio import SeqIO - - -def generate_coverage_table(input_fasta, input_tabular, gzipped, output): - # Read input file into a dict and return everything - # in the table format required by CONCOCT. - gc_and_len_dict = get_gc_and_len_dict(input_fasta, gzipped) - assert(len(gc_and_len_dict) > 0) - bed_coverage_dict = get_bed_coverage_dict(input_tabular) - - with open(output, 'w') as fh: - # Output the header. - fh.write("contig\tlength") - t = tuple(range(len(bed_coverage_dict))) - fh.write("\tcov_mean_sample_%d\n" % len(t)) - # Output the content. - for acc in gc_and_len_dict: - # Fasta stats. - fh.write("%s\t%s" % (acc, gc_and_len_dict[acc]['length'])) - # Mean - try: - # Coverage mean - fh.write("\t%f" % (bed_coverage_dict[acc]["cov_mean"])) - except KeyError: - # No reads mapped to this contig - fh.write("\t0") - fh.write("\n") - - -def get_bed_coverage_dict(input_tabular): - # Ddetermine mean coverage and percentage covered - # for each contig, returning a dict with fasta id - # as key and percentage covered and cov_mean as keys - # for the inner dict. - out_dict = {} - - with open(input_tabular, 'r') as fh: - for line in fh: - line = line.rstrip('\r\n') - cols = line.split('\t') - try: - d = out_dict[cols[0]] - except KeyError: - d = {} - out_dict[cols[0]] = d - if int(cols[1]) == 0: - d["percentage_covered"] = 100 - float(cols[4]) * 100.0 - else: - d["cov_mean"] = d.get("cov_mean", 0) + int(cols[1]) * float(cols[4]) - return out_dict - - -def get_gc_and_len_dict(input_fasta, gzipped): - # Creates a dictionary with the fasta id as key - # and GC and length as keys for the inner dictionary. - if gzipped: - _open = partial(gzip.open, mode='rt') - else: - _open = open - - out_dict = {} - with _open(input_fasta) as input_fh: - for rec in SeqIO.parse(input_fh, "fasta"): - out_dict[rec.id] = {} - out_dict[rec.id]["length"] = len(rec.seq) - return out_dict - - -parser = argparse.ArgumentParser(description=__doc__) -parser.add_argument('--input_tabular', action='store', dest='input_tabular', help='bedtools genomeCoverageBed bed file') -parser.add_argument('--input_fasta', action='store', dest='input_fasta', help='Contigs fasta file') -parser.add_argument("--gzipped", action="store_true", dest="gzipped", default=False, help="input_fasta is gzipped") -parser.add_argument('--output', action='store', dest='output', help='Output file') - -args = parser.parse_args() - -generate_coverage_table(args.input_fasta, args.input_tabular, args.gzipped, args.output) |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 cut_up_fasta.py --- a/cut_up_fasta.py Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| [ |
| @@ -1,58 +0,0 @@ -#!/usr/bin/env python - -import argparse -import gzip -from functools import partial - -from Bio import SeqIO - - -def cut_up_fasta(input_fasta, chunk_size, overlap, merge_last, output_fasta, output_bed, gzipped): - if gzipped: - _open = partial(gzip.open, mode='rt') - else: - _open = open - - fasta_fh = open(output_fasta, 'w') - - if output_bed is not None: - bed_fh = open(output_bed, 'w') - - with _open(input_fasta) as input_fh: - for record in SeqIO.parse(input_fh, "fasta"): - if (not merge_last and len(record.seq) > chunk_size) or (merge_last and len(record.seq) >= 2 * chunk_size): - for index, split_seq in enumerate(chunks(record.seq, chunk_size, overlap, merge_last)): - fasta_fh.write(f">{record.id}.concoct_part_{index}\n{split_seq}\n") - if output_bed is not None: - bed_fh.write(f"{record.id}\t{chunk_size * index}\t{chunk_size * index + len(split_seq)}\t{record.id}.concoct_part_{index}\n") - else: - fasta_fh.write(f">{record.id}.concoct_part_0\n{record.seq}\n") - if output_bed is not None: - bed_fh.write(f"{record.id}\t0\t{len(record.seq)}\t{record.id}.concoct_part_0\n") - if output_bed is not None: - bed_fh.close() - - -def chunks(seq, chunk_size, overlap_size, merge_last): - # Yield successive chunk_size-sized chunks from seq - # with given overlap overlap_size between the chunks. - assert chunk_size > overlap_size - if merge_last: - for i in range(0, len(seq) - chunk_size + 1, chunk_size - overlap_size): - yield seq[i:i + chunk_size] if i + chunk_size + chunk_size - overlap_size <= len(seq) else seq[i:] - else: - for i in range(0, len(seq), chunk_size - overlap_size): - yield seq[i:i + chunk_size] - - -parser = argparse.ArgumentParser() -parser.add_argument("--input_fasta", action="store", dest="input_fasta", help="Fasta files with contigs") -parser.add_argument("--gzipped", action="store_true", dest="gzipped", help="Input file is gzipped") -parser.add_argument("--chunk_size", action="store", dest="chunk_size", type=int, help="Chunk size\n") -parser.add_argument("--overlap_size", action="store", dest="overlap_size", type=int, help="Overlap size\n") -parser.add_argument("--merge_last", default=False, action="store_true", dest="merge_last", help="Concatenate final part to last contig\n") -parser.add_argument("--output_bed", action="store", dest="output_bed", default=None, help="BED file to be created with exact regions of the original contigs corresponding to the newly created contigs") -parser.add_argument("--output_fasta", action="store", dest="output_fasta", help="Output fasta file with cut contigs") - -args = parser.parse_args() -cut_up_fasta(args.input_fasta, args.chunk_size, args.overlap_size, args.merge_last, args.output_fasta, args.output_bed, args.gzipped) |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 extract_fasta_bins.py --- a/extract_fasta_bins.py Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| [ |
| @@ -1,49 +0,0 @@ -#!/usr/bin/env python - -import argparse -import gzip -import os -import sys -from collections import defaultdict -from functools import partial - -import pandas as pd -from Bio import SeqIO - -parser = argparse.ArgumentParser(description=__doc__) - -parser.add_argument('--gzipped', action='store_true', dest='gzipped', help='Input files are gzipped') -parser.add_argument("--input_fasta", action="store", dest="input_fasta", help="Input Fasta file") -parser.add_argument("--input_cluster", action="store", dest="input_cluster", help="Concoct output cluster file") -parser.add_argument("--output_path", help="Output directory") - -args = parser.parse_args() - -all_seqs = {} -if args.gzipped: - _open = partial(gzip.open, mode='rt') -else: - _open = open - -with _open(args.input_fasta) as fh: - for seq in SeqIO.parse(fh, "fasta"): - all_seqs[seq.id] = seq - -# Make sure we're reading the file as tabular! -df = pd.read_csv(args.input_cluster, sep='\t') -try: - assert df.columns[0] == 'contig_id' - assert df.columns[1] == 'cluster_id' -except AssertionError: - sys.stderr.write("ERROR! Header line was not 'contig_id, cluster_id', please adjust your input file. Exiting!\n") - sys.exit(-1) - -cluster_to_contigs = defaultdict(list) -for i, row in df.iterrows(): - cluster_to_contigs[row['cluster_id']].append(row['contig_id']) - -for cluster_id, contig_ids in cluster_to_contigs.items(): - output_file = os.path.join(args.output_path, "{0}.fa".format(cluster_id)) - seqs = [all_seqs[contig_id] for contig_id in contig_ids] - with open(output_file, 'w') as ofh: - SeqIO.write(seqs, ofh, 'fasta') |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 extract_fasta_bins.xml --- a/extract_fasta_bins.xml Fri Jul 01 14:16:40 2022 +0000 +++ b/extract_fasta_bins.xml Thu Jul 07 08:33:11 2022 +0000 |
| [ |
| @@ -1,45 +1,49 @@ -<tool id="concoct_extract_fasta_bins" name="CONCOCT: extract a fasta file" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> +<tool id="concoct_extract_fasta_bins" name="CONCOCT: Extract a fasta file" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> <description>for each cluster</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="exit_code"><![CDATA[ +## CONCOCT doesn't handle gzipped files. +#if $fasta_file.ext.endswith(".gz") + gunzip -c '$fasta_file' > 'contigs.fa' && +#else: + ln -s '$fasta_file' 'contigs.fa' && +#end if + mkdir outdir && -python '$__tool_directory__/extract_fasta_bins.py' -#if $input_fasta.is_of_type('fasta.gz'): - --gzipped -#end if ---input_fasta '$input_fasta' ---input_cluster '$input_cluster' ---output_path 'outdir' +extract_fasta_bins.py + 'contigs.fa' + '$cluster_file' + --output_path 'outdir' ]]></command> <inputs> - <param argument="--input_fasta" type="data" format="fasta,fasta.gz" label="Fasta file"/> - <param argument="--input_cluster" type="data" format="tabular" label="CONCOCT clustering file"/> + <param name="fasta_file" type="data" format="fasta,fasta.gz" label="Original contig file"/> + <param name="cluster_file" type="data" format="csv" label="CONCOCT clusters"/> </inputs> <outputs> - <collection name="bins" type="list" label="${tool.name} on ${on_string} (bins)"> + <collection name="bins" type="list" label="${tool.name} on ${on_string} : Bins"> <discover_datasets pattern="(?P<designation>.*)\.fa" format="fasta" directory="outdir"/> </collection> </outputs> <tests> <test expect_num_outputs="1"> - <param name="input_fasta" value="input1.fa.gz" ftype="fasta.gz"/> - <param name="input_cluster" value="inputcluster1.tabular" ftype="tabular"/> - <output_collection name="bins" type="list" count="2"> - <element name="77" ftype="fasta"> + <param name="fasta_file" value="composition.fa.gz" ftype="fasta.gz"/> + <param name="cluster_file" value="clusters.csv" ftype="csv"/> + <output_collection name="bins" type="list" count="54"> + <element name="0" ftype="fasta"> <assert_contents> - <has_size value="2194"/> - <has_text text="NODE_1_length_2054_cov_17.474684"/> - <has_n_lines n="37"/> + <has_size value="1194"/> + <has_text text="contig-223000058 1140 nucleotides"/> + <has_n_lines n="20"/> </assert_contents> </element> - <element name="93" ftype="fasta"> + <element name="52" ftype="fasta"> <assert_contents> - <has_size value="16531"/> - <has_text text="NODE_2_length_16156_cov_8.219856"/> - <has_n_lines n="272"/> + <has_size value="5356"/> + <has_text text="contig-161000004 1031 nucleotides"/> + <has_n_lines n="90"/> </assert_contents> </element> </output_collection> @@ -48,11 +52,9 @@ <help><![CDATA[ **What it does** -Performs metagenomic binning of fasta contigs by extracting a fasta file for each cluster defined in a -CONCOCT clustering file. +Performs metagenomic binning of fasta contigs by extracting a fasta file for each cluster defined in a CONCOCT clustering file. -The tool accepts two inputs; the fasta contigs file and the CONCOCT clustering file that was produced using -the same fasta contigs input. A collection of fasta files is produced. +The tool accepts two inputs; the fasta contigs file and the CONCOCT clustering file that was produced using the same fasta contigs input. A collection of fasta files is produced. @HELP_OVERVIEW@ ]]></help> |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 macros.xml --- a/macros.xml Fri Jul 01 14:16:40 2022 +0000 +++ b/macros.xml Thu Jul 07 08:33:11 2022 +0000 |
| b |
| @@ -1,12 +1,11 @@ <macros> - <token name="@TOOL_VERSION@">1.0.0</token> - <token name="@VERSION_SUFFIX@">1</token> + <token name="@TOOL_VERSION@">1.1.0</token> + <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">21.01</token> <xml name="requirements"> <requirements> - <requirement type="package" version="1.79">biopython</requirement> <requirement type="package" version="@TOOL_VERSION@">concoct</requirement> - <requirement type="package" version="0.19.2">pandas</requirement> + <yield/> </requirements> </xml> <token name="@HELP_OVERVIEW@"> |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 merge_cut_up_clustering.py --- a/merge_cut_up_clustering.py Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| [ |
| @@ -1,56 +0,0 @@ -#!/usr/bin/env python - -import argparse -import re -import sys -from collections import Counter -from collections import defaultdict - - -CONTIG_PART_EXPR = re.compile(r'(.*)\.concoct_part_([0-9]*)') - - -def original_contig_name_special(contig_id): - try: - original_id, part_index = CONTIG_PART_EXPR.match(contig_id).group(1, 2) - return original_id, part_index - except AttributeError: - # No matches for concoct_part regex. - return contig_id, 0 - - -parser = argparse.ArgumentParser() -parser.add_argument("--input", action="store", dest="input", help="Tabular file with cut up clusters") -parser.add_argument("--output", action="store", dest="output", help="Output file with merged clusters") - -args = parser.parse_args() - -# Get cut up clusters -all_seqs = {} -all_originals = defaultdict(dict) -with open(args.input, 'r') as ifh: - for i, line in enumerate(ifh): - if i == 0: - if 'contig_id' not in line: - sys.stderr.write("ERROR nvalid clustering file, 'contig_id' is not found in the header.") - sys.exit(-1) - # Skip header. - continue - line = line.rstrip('\r\n') - contig_id, cluster_id = line.split('\t') - original_contig_name, part_id = original_contig_name_special(contig_id) - all_originals[original_contig_name][part_id] = cluster_id - -# Merge cut up clusters. -with open(args.output, 'w') as ofh: - ofh.write("contig_id\tcluster_id\n") - for original_contig_id, part_ids_d in all_originals.items(): - if len(part_ids_d) > 1: - c = Counter(part_ids_d.values()) - cluster_id = c.most_common(1)[0][0] - c_string = [(a, b) for a, b in c.items()] - # Here if len(c.values()) > 1, - # then no cluster for contig. - else: - cluster_id = list(part_ids_d.values())[0] - ofh.write(f"{original_contig_id}\t{cluster_id}\n") |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/clusters.csv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clusters.csv Thu Jul 07 08:33:11 2022 +0000 |
| b |
| @@ -0,0 +1,350 @@ +contig_id,cluster_id +contig-21000001,39 +contig-75000034,53 +contig-2482000051,39 +contig-194000040,39 +contig-600000042,39 +contig-1619000036,37 +contig-20000017,39 +contig-750000028,39 +contig-80000059,39 +contig-1349000009,37 +contig-216000039,17 +contig-447000020,39 +contig-21000060,39 +contig-2440000038,39 +contig-223000034,39 +contig-28000057,39 +contig-25000027,39 +contig-90000033,39 +contig-421000040,49 +contig-85000005,39 +contig-135000029,23 +contig-2453000058,39 +contig-37000022,39 +contig-278000010,39 +contig-223000058,0 +contig-554000017,24 +contig-51000051,39 +contig-176000044,39 +contig-334000016,39 +contig-561000035,39 +contig-986000004,39 +contig-1105000038,39 +contig-22000004,39 +contig-721000030,39 +contig-1264000040,39 +contig-2538000050,39 +contig-213000005,39 +contig-85000031,39 +contig-6000035,39 +contig-913000037,39 +contig-44000020,39 +contig-96000008,39 +contig-161000004,52 +contig-973000053,39 +contig-241000057,39 +contig-2452000034,39 +contig-101000036,11 +contig-99000027,39 +contig-119000019,45 +contig-1000023,39 +contig-61000022,39 +contig-53000052,17 +contig-142000043,39 +contig-173000038,39 +contig-2487000030,39 +contig-73000046,39 +contig-39000006,39 +contig-77000037,39 +contig-57000048,39 +contig-70000056,39 +contig-38000053,3 +contig-2000036,39 +contig-422000003,39 +contig-13000028,39 +contig-70000037,39 +contig-355000043,39 +contig-118000028,41 +contig-844000015,29 +contig-74000016,39 +contig-59000020,39 +contig-2510000020,39 +contig-332000045,39 +contig-126000012,13 +contig-70000052,39 +contig-114000018,39 +contig-418000042,23 +contig-80000004,39 +contig-145000030,39 +contig-1258000044,39 +contig-734000047,40 +contig-498000018,39 +contig-62000044,39 +contig-26000030,39 +contig-279000032,15 +contig-606000057,39 +contig-31000047,39 +contig-313000032,39 +contig-505000034,39 +contig-25000059,39 +contig-6000001,39 +contig-587000030,39 +contig-201000051,39 +contig-2557000045,39 +contig-71000056,39 +contig-145000057,16 +contig-1512000010,48 +contig-73000020,15 +contig-1319000017,39 +contig-483000045,6 +contig-245000032,39 +contig-86000038,39 +contig-9000012,39 +contig-208000005,39 +contig-168000042,39 +contig-720000009,39 +contig-82000009,39 +contig-129000060,39 +contig-168000018,40 +contig-61000049,39 +contig-83000052,39 +contig-104000034,39 +contig-114000022,39 +contig-133000010,39 +contig-301000036,39 +contig-1393000034,39 +contig-849000019,39 +contig-1869000048,39 +contig-421000055,39 +contig-295000035,39 +contig-2354000041,9 +contig-52,39 +contig-123000003,39 +contig-203000050,39 +contig-1909000043,37 +contig-1624000019,39 +contig-1552000031,39 +contig-148000050,39 +contig-2326000025,39 +contig-55000036,39 +contig-252000038,39 +contig-186000043,39 +contig-365000045,39 +contig-101000041,39 +contig-396000006,39 +contig-83000059,39 +contig-41000033,39 +contig-53000041,39 +contig-71000017,39 +contig-524000001,39 +contig-2500000026,39 +contig-74000043,39 +contig-12000026,39 +contig-118000009,7 +contig-100000043,39 +contig-358000029,39 +contig-154000061,39 +contig-2513000037,39 +contig-1361000032,39 +contig-96000006,21 +contig-397000044,37 +contig-1581000051,39 +contig-518000031,35 +contig-2316000002,39 +contig-2576000045,39 +contig-48000025,17 +contig-2444000058,39 +contig-360000059,39 +contig-33000003,39 +contig-1167000007,39 +contig-1067000006,5 +contig-813000012,39 +contig-1086000039,39 +contig-104000009,48 +contig-257000051,39 +contig-94000000,39 +contig-122000019,39 +contig-2497000034,39 +contig-36000028,39 +contig-920000003,39 +contig-169000025,39 +contig-1758000047,47 +contig-44000014,39 +contig-10000029,39 +contig-397000046,39 +contig-575000037,39 +contig-118000021,39 +contig-1861000019,39 +contig-112000056,39 +contig-214000004,34 +contig-80000060,39 +contig-13000026,39 +contig-660000045,41 +contig-54000007,39 +contig-2516000046,39 +contig-177000043,25 +contig-923000027,39 +contig-3000003,39 +contig-130000015,51 +contig-340000039,22 +contig-129000036,39 +contig-112000030,39 +contig-150000030,39 +contig-1062000011,48 +contig-268000020,39 +contig-2000043,39 +contig-490000060,39 +contig-197000051,39 +contig-262000026,39 +contig-304000048,30 +contig-497000050,39 +contig-3000044,39 +contig-173000042,10 +contig-185000039,39 +contig-228000052,39 +contig-48000030,39 +contig-101000023,39 +contig-157000027,39 +contig-97000040,39 +contig-193000061,39 +contig-545000000,39 +contig-132000015,39 +contig-433000030,39 +contig-59000035,39 +contig-322000050,39 +contig-609000006,39 +contig-693000042,39 +contig-62000015,39 +contig-189000003,39 +contig-284000009,39 +contig-432000046,39 +contig-384000046,39 +contig-113000037,40 +contig-161000048,39 +contig-33000020,39 +contig-44000021,39 +contig-1861000057,39 +contig-274000008,39 +contig-1343000001,39 +contig-44000044,39 +contig-177000026,9 +contig-913000044,39 +contig-334000007,39 +contig-186000025,31 +contig-77000008,39 +contig-177000037,50 +contig-91000012,1 +contig-508000060,39 +contig-166000020,27 +contig-131000060,4 +contig-106000039,39 +contig-40000045,39 +contig-106000038,20 +contig-1234000040,39 +contig-862000002,39 +contig-17000055,39 +contig-2464000022,39 +contig-193000056,13 +contig-131000027,39 +contig-71000048,39 +contig-195000056,15 +contig-71000058,39 +contig-42000030,39 +contig-148000052,39 +contig-71000043,39 +contig-1088000058,39 +contig-297000000,39 +contig-289000050,39 +contig-7000000,39 +contig-61000046,14 +contig-99000012,39 +contig-258000054,39 +contig-788000040,37 +contig-49000052,52 +contig-140000037,39 +contig-9000050,39 +contig-126000014,18 +contig-2050000048,39 +contig-1219000041,39 +contig-327000030,39 +contig-205000060,39 +contig-58000040,39 +contig-203000046,36 +contig-263000008,42 +contig-202000053,39 +contig-2555000050,39 +contig-114000039,39 +contig-173000043,44 +contig-2571000015,39 +contig-40000056,39 +contig-755000024,39 +contig-60,39 +contig-2531000029,39 +contig-142000011,7 +contig-39000033,13 +contig-314000057,39 +contig-52000025,39 +contig-135000052,39 +contig-362000043,39 +contig-1981000047,39 +contig-2522000033,39 +contig-138000012,39 +contig-138000058,39 +contig-49000002,37 +contig-102000024,39 +contig-1731000047,39 +contig-1815000037,39 +contig-534000020,39 +contig-54000014,39 +contig-120000027,39 +contig-111000016,39 +contig-344000022,2 +contig-202000024,39 +contig-388000011,39 +contig-316000015,39 +contig-524000047,39 +contig-73000009,39 +contig-558000012,12 +contig-2479000045,39 +contig-28000027,39 +contig-513000043,39 +contig-740000015,39 +contig-197000042,39 +contig-318000039,8 +contig-1730000050,39 +contig-284000007,30 +contig-171000032,19 +contig-1140000053,39 +contig-526000010,39 +contig-127000026,43 +contig-86000030,39 +contig-85000045,12 +contig-1256000020,39 +contig-229000014,39 +contig-207000061,41 +contig-64000040,33 +contig-126000041,39 +contig-377000024,39 +contig-294000057,46 +contig-411000013,39 +contig-497000014,38 +contig-2518000016,39 +contig-766000005,35 +contig-128000004,2 +contig-108000038,39 +contig-842000017,37 +contig-343000039,39 +contig-1142000053,32 +contig-40000039,39 +contig-109000013,33 +contig-338000005,26 +contig-20000011,39 +contig-129000002,39 +contig-106000034,39 +contig-529000024,39 +contig-246000052,36 +contig-1374000055,39 +contig-27000055,39 +contig-109000031,30 +contig-200000042,28 |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/composition.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/composition.fa Thu Jul 07 08:33:11 2022 +0000 |
| b |
| b'@@ -0,0 +1,17599 @@\n+>contig-21000001 9998 nucleotides\n+GACCATCCGGTGGAGATTTCTCCTCTGACCAAGAGAAAACCGGAGGATCCTGACTATACG\n+GAGCGTTTTGAGCTGTTTATCACGAAGCGTGAGATGGCTAACGCTTACTCTGAGTTAAAC\n+GATCCGATTGACCAGAGACTTCGTTTTGAGGCGCAGGAAGTGTTAAAGGCCGCAGGCGAT\n+GAGGAAGCCAACTCCATGGATGAGGACTTCTTAAATGCGCTGATGATCGGTATGCCTCCG\n+ACAGGCGGCATCGGCATCGGCATCGACCGTTTCGTTATGCTGCTGACTGATTCCTATGCA\n+ATTCGTGACGTTCTGCTGTTCCCGACCATGAAGACGCTGGGCAGTTCTGATAATAGCAGG\n+AAGGCAGAGAAGGCCGCTCCGGCCGCTGCTTCTGCTCCGGCTGCTGAGAACGTGAAAGCC\n+GCGGTGGAGATTGATTTTTCCAATGTGAAGATTGAGCCGCTGTTTGAAGAGATGGTGGAT\n+TTTGAGACTTTCTCAAAGTCTGATTACCGTGCAGTGAAGATCAAAGACTGCGTGGCAGTG\n+CCGAAGAGCAAGAAGCTTCTCCAGTTTACTCTGGACGATGGAAGCGGCACAGACCGCACG\n+ATTTTAAGCGGAATTCATGAGTACTACGAGCCGGAGGATCTGATTGGTAAGACAGCCATC\n+GCCATCGTGAATCTGCCGCCAAGAAAGATGATGGGAATTGACTCCTGCGGTATGCTGATT\n+TCAGCCGTGCATGAGGAAGACGGACATGAGGGACTGAATCTGCTGATGGTGGATGATAGG\n+ATTCCGGCGGGGGCGAAGTTGTATTAAAATACAACAAAAGAACCGTTTTTCAGGATAGTA\n+GGAATTCAATAACAAAAGTTGTTACCCCCAATTTTGTTAACATTGAAAAATGTAGATGTG\n+TTTGAACAGAAGTGGCGCTTACTGATATAATGATAAGAAATTAGGACTCTATGACATTAG\n+TCATAGAGTCCTTTTTTCTGTTTTGAAATCAAATTGTTTAGAATATGCTTGAAAGTAAAC\n+AAAATTAAACAAGAAATAGATGAATAGTAAACAAAACGTTGACCATAAAGCTTTTTAATG\n+GTATAATAACTATCAAAGCAAAGGAGGATAAGACCATGTACGCAATGGATTTCGCTCTGG\n+TAGGAGCTAACATACAAAATAAATTAGTTGAAAAGGAAATGACACAACAGAGTTTGGCGG\n+ATGCTCTTGGTATATCAAAGCAGGTTATGAACAAAATCATTAAAGGAAGCAAGGCGATCA\n+ATGTGAATGAGCTTGCAAGAATTGCGGATATCCTGAACACATCTGCAGATGAATTACTTA\n+CAGTTGGGACTGAACCAGCTACTGTTGACAGCCTGAGCTTTATGGGAGATGTTTACGATG\n+AGGTTACACGGGAACGTATTAACTTCATCAGATCTGCGATTGATGAGATTCATATGCTGG\n+AGGATTTACTGGATGACTAATGACTTAAATGAATTAGAAGTAAATGAAATAAAGAATCAT\n+GCAATAGAAAAGTTAGGACTGTGCAGAAAAGGAAATGATATTATAGGGACACAGATTTTT\n+TCAATCCTTGGTTTGTATGCCAGAGTAATTTACTATCCTCTGGGAAAAAATGCACCTTGG\n+GGATTTACCAGAATCAGCGGTTCTAGAAATGATGCCTCATTGGAGAAGCCATTTGTTGCC\n+CTTAATTCTTCTATTCCGGTGGACTGCCAGGTGTTTGCAGCGGCACACGAATTATACCAT\n+ATTTGGTATGAACAAAATCCGGATATGCTTCCTTCTGATTTGTTGAATGAACACGATAAA\n+AAGACAAGTGAGAAAAAAGCAAATAGATTTGCAGCAGAATTTCTTGTGGATGAATTATTG\n+CTGAAACAGGAAATCGAGTTATATAAAATTAAGAAGCTTACAATAAAAAGCATATTACAA\n+TTAGCAGAACTGTTTACGGTTCCATACAGGACAATGGTGAAGCGGCTGGGAGAAATTGGA\n+GTAATTGAGGATGCGGATCTAAATAGATTTCTCGCAGAGTCAGAGGATTCTGTTGAAAAA\n+TATAAGAAGAGATATTCCATACCATCTCAGAAATCTGATGGTCGGATTATCATGGATAAC\n+CTGGTTGAGTTAGCCGTCGCCGCTTATGAAGCCGGGTACATTACATATGAGAAACTGGAA\n+TATTTGCTGAGAATCAGTACCTTAAAGCCAGAGGATTTAGGCATTGAAAAGAAAACTGCC\n+TGCGAATTCCCTTCTGATGATGAATTAGATCGTATTATGGAGGAATGAGTATGGTAGAAA\n+AATAATTATTGATGCAGATTTATGTATCAAGTTGGGAGGAAGTAATAAGTATAGATATTT\n+GCATGATGTGCTTCCTTTGATTGCAAAAGAGATTTATATGCATACACACGCCTTTGGAGA\n+GGTGTTGATGCCTGCCAGTGCAGTCAGCCAGTTAAAGGATTTGATTACGGAAAATAAAGT\n+GGTTCTTGTTAACGAAAGTGGTTTGGACAGCAAGGTACGAGCAATCTATGATGCAGCTTA\n+TCGTAATCTTGAGAGAGTTATGATTGATGCAACGAGACCAAACAAGAATAAAGGAGAGAT\n+GTGTTCGCTCGCATATGCAAAAGCAGCGAGCATACCTATCTTTGCAACAGATGAAAAAGA\n+CCTACAGCCTATCATTGATAAGCAATTGAATACGGGAATGGATGATATAACCTGCATAAG\n+AATTACAGATATTATTACGAAGGCTAAGGAGGGGGAAATAGCGGTACCGAGAAAGATTGC\n+AAAGGCACTTTGGATCGTGGCCGGAAAGAGAAAAGAAGTATTTGATAATGAGATATGGCC\n+GGTAACGGCTGAATGATACATATGAAAGGAGCCTGTTTGGGACAAAGGAATACCGCCTTG\n+TCCCAAACAGGCTATTACTGGAAGCAGAGGCTTCGTGGACTGCCTGGAAACGGTGATGAA\n+GATTCATTACACCAGCATTTCAACAAACTCAACCGGATACATAGTCCGTTTGGACACTTC\n+CTCAACCGCTAGTCCCTGGCTGAGAAAACGCCTGATGACGCACTCCATGCTTTCTGCTGC\n+CTCAATGATATATTTATCAAAATCATAAAACCGCATACTCCGCTGGCCCCAGGGATATTC\n+CGTCGGGTGATGGATAAATTCCACTCCTTCGATGGCCTCCAGCTTTCTCTCCCAGTCGTC\n+GATCCGGTCTGTTTCAAAATAGAGCTGAAAGTTATTTGCTGCTGTCTTTCTGTTCAGTGA\n+TTTACCGATCATTGCTTCGTAGTTTGCCTGCAGGCTGAGGCCATTGTCCAATGAGACGTG\n+TTCTCCTAAATCCATGAGGACTTTTTGCTCCAGGATTGTTTCGTAAAAATATTTTGATTT\n+TTCCATATCATCAACTATAAGCAATGTGCCTCCGTATTTCATATGGATACCTCCTCTTTT\n+TTTCTCAATTATAGCCTAAAACTTTGCGATCGCACTGTAAAAATCGGACAAGTTGTTTCG\n+GTATTCCTGAGGAGTAACGCCGCATACGGCCCTAAAATCCCTGATAAAGTGAGAAATATC\n+ATAAAACCCGGATTCGGCAGATATATAATCGAGGCTGTAGCTCGTATGGTGCAGCAGATA\n+AATGGCTTTGTTGATACGCACGATTCGGGAAAAATGTTTCAGGTTAAATCCTAAATAGTG\n+ATTGGAAAGCCTGTTTAAATGACGTTCACTGTAAAATGTTTTTTCTGTTATTTCTTTGAG\n+ACTTATGTTACCGTTACTCTGAATGATCAGCTGCACGGCCAGACGGAATTCAGCCGGGTA\n+TTGGCTGCATTGGCTGCAAAGCAGCAGACTCTCGATT'..b'TAACA\n+AGTACAAACGGGCAGTGAGCGAGATTCATACCCAGCAAGCTGAAACGGATAGTCTCCTTG\n+CCTATCTGGAAAGTCTTGACGCGTCCCTGGATACAGCCATCACCAAAGGGGATGTTTCAG\n+AAATCAAGGAAGAAATCATTGCCCTTGGCCTCCTTCCCAAGCCCCGTAAAAAGATGGCGG\n+TCCAGTCCAAATCAGTTCCGCTTAAAGTCGTTCTTTCGGAAGACACCCTCCTTTATGTGG\n+GAAAAAACAACAAGCAGAATGACTATGTCACCTTCAAACTAGGACGCGCCCATGATCTTT\n+GGTTCCATGCCAAGAACATTCCGGGCTCCCATGTCATTCTGAAAACGACCCTTCCAAGCC\n+CCAGGGAAGAAGATATCCTGCGGGCTGCTCAAATCGCCGCTTACTACAGCAAAGGACGCT\n+TTTCCAGCCGCGTTTCCATCGACTGTACGCAGCGCCGCTATGTAAAAAAGCCAAACGGAG\n+CCAAGCCGGGCTTTGTCATTTTCACCAACCAAAAAACCATCAACGCGGAGCCAAAAAAAG\n+AACCGTGACCCAATGAAATGTACCCTCTTTACTAGACACCCAGTAAGGAGGGTACATTTT\n+GCGTTATACGAC\n+>contig-109000031 1241 nucleotides\n+GGCGCCCGCCGTGAGTCCTATACGCAGGATTCGCGCAAACCGCAGGTCGAGGCGGGCACG\n+CTCGAAGACGACCAGCGCCGCCGCGACTTCACGATCAACGCCATGGCGTGGTCGCTCAAC\n+GCCGGTTCGTTCGGCGAGCTGGTCGACCCGTTCGACGGCATGGACGACCTCGAAGAGTGC\n+GTCATCCGCACGCCGTGCGATCCCGACGTTACCTTCTCGGACGACCCGCTGCGCATGATG\n+CGGGCCGTGCGCTTCGCGTCGCAGTTGGGGTTCACGATCGAAGGCGAGACCTTCGACGCC\n+ATCCGCCGCAATGCGCACCGCATCCGGATCGTGTCGCGCGAACGCATCGCTGCGGAACTT\n+AACAAGATCGTCCTTTCGCCCGTACCCTCGATGGGCTTCGAACTGCTGGAGCTGACGGGG\n+CTTCTGGAGCTGATTTTCCCGGAGATGCACAACCTCAAGGGCGTCGAGAAGCGGGGCGCG\n+CATGCCCATAAGGACAATTTTATCCATACGCTCAAGGTGCTGGACAACGTCGCCCGCCGC\n+AGCGGCGATCTGTGGCTGCGCTGGGCCGCCGTGCTGCACGACATCGCCAAGCCGCTGACG\n+AAGGCTTACGATCCCAAGGTCGGCTGGACGTTCCACGGCCACGAGGTCCTCGGCTCGAAG\n+ATGGTGCCGGCGATCTTCCGGCAGTTGAAGCTGCCGCTCAACGAGCATATGAAATTCGTG\n+CAGAAGCTGGTTTTCCTCCACCTGCGGCCGATCATCCTCTCCGAAGATCTGGTCACGGAC\n+TCGGCCGTGCGGCGTCTGCTGTTCGAGGCGGGCGACGACGTGGAGCAGCTGATGATCCTG\n+TGCGAAGCCGACATCACTTCGGGCATCGACGCCAAGGTCAAACGCTATCTGGCCAATTTC\n+GAGCTGGTGCGCCGCAAGATGAAGGATTTGGAGGAGCGCGACCGCATCCGCAACTTCCAG\n+CCGCCGATCACGGGCGAGATCATCATGCAGACCTACGGCATCGGTCCCTGCCGTGCCATC\n+GGCGACATCAAGGAGGTGATCAAGAACGCCATTCTCGACGGCGAAATTCCCAACGATTAC\n+GACGCGGCCTACGCCCTGATGGAGCGGCTGGCGGCGGAGAAGGGGCTGACGAAGGCCGGG\n+GGGCAGAACCCGTAGAATGGGGCCCGGCCGTCCGGGGCGTATTCGTGAATCGAAAGGTTG\n+GGCCGCTGCGGCTCAACCTTTTTTCATGCCCGCTTCCGCCT\n+>contig-78000025 3759 nucleotides\n+CGATATTCTTTATTGAGAAAATATCCGGCCGATAAGATATCCCATGTTTTTCCGTCATAG\n+AGCAGTTTTCCGTCACGGGTGAATTCGTAGATTACTTTTCCGGATAATCCTTTCACCCAT\n+TTCTGATAAACACGGTCGGGCAATGTAAGGGGAGTGAGCGGTTCCGTGTGGTCGGGGACT\n+TGCTTGCGGATACAGTTCTTCGGCTCTTTCCAGCCTTTGTACCAGATGGTGGCGGCGTCA\n+TTGCCGGTAGGTGTGATACGGAATTCCGTCGTATCTCCTTTCTGATTGCGTAAATGGAAG\n+AAGTAGCTGCCGTCAGCTTCCTGTTTTATCTGTTCGGCATAAAAAACGACATAATAGTTC\n+TCTACGAAATTCTCTCCGATGAGCGGACCGTTCCAGTCAGACACATTGTCTGCTTTAAAT\n+TGCCAGTAGCCTCGCAAAGATTCGGGAATTGTCTGATAAGTGCCGGATTGGGCGAAAGCG\n+ATAGTCTGTGTACTGCATAAAAGCAAAAGACCTATCAGGAGAAAACAGTAGGGGGGTCTC\n+ATGGTGTGTTTTTATTTAAGTTAGTATTTCGATTTATGACAAAGGTATTTTAATACCGGA\n+ATAATGAGGTGTGGTAAGTTTATTATTTGTAGTAGTTTAACTATTTTCTTCCCGATTCGT\n+ATCAAGATATTGAACTTGTCATTATCTTTGCAGCGTTATTTTAAACTCTTAATTTATATC\n+GTGTTATGAGAGCTAAGAAGTTTGCATGCTGTTTGATGGTCATGTCATTGCTGGCAGGTA\n+TTTCATTTATTTCCTGTGGCAATAGCTCCAGGGCGAAAGTAGAAAGTGAAGCAGCACAGA\n+CAGGAGAAGATTTCAAGTCG\n+>contig-200000042 1043 nucleotides\n+CAACTTCATCAGTCTGCTCTACTACTTCGGAATGCTCACCATCAGCGGCACGCACGAAGG\n+TAAGACAAAACTCTCCATCCCCAACATGGCGGTTCGCGTCACTCTCCATTAAACTCGTAT\n+CGAAAATGTGTGAAACATCACATTTCCGGTATGAAAATATGATTGACTATGTTCGGCAGG\n+ACTGTTTACTTGACACGCAAACGTTTTCGTAGATTAACCGTGTTTTTTCGTTACACTTGG\n+TCTATCGGCTTCTTTTTCTTCTCTATCTTTGAATCAAGTAATAATTTGAAAATCTAATAG\n+TATGAAGAAGATTAAGTTTCTTTCTTTTTTCTTATTTAGTGTGTTTTCATTCTGCTTGGT\n+AGCTTGCAGTGATGATAATGGTACTATACCTACACCGGAACCGGAACCTGAGCCGGAACC\n+TACGCCGTCAGAATGGACTGCGATTGCTGCATCTCCTGCTGATTGGGATGGGGAAAAACG\n+TGCGGACATCTCTTATCAGTTATTGGTTTACTCCTTTTCCGATGGCAATGGTGACGGTTA\n+TGGTGACATAAATGGCTTAATTTCTAAATTGGATTACATCAACTCTTTGGGTGTGAAGGC\n+TATCTGGCTTTCTCCTATTCATCCGTCGCCTTCGTATCATGGCTATGATGTGACGGATTA\n+TACGAAGGTGAATCAAAAGTTTGGTACAGAGAGTGACTTCGACAGGTTGGTTGCCGAAGC\n+ACACAGTCGGGGCATCAAGGTTTATTTGGATTATGTGTTGAACCACACGAGTGCGGAACA\n+TCCGTGGTTTCTGGCAGCAAAAGCTTCTACTGAGAGCGAATATCGCAATTACTACATATT\n+CTCTCAAGACCCGGAAGCTGACATCAAGGCAGGAAAAATTGATATGATTTCCAGTGAAGG\n+GGGAAACGGATATAATTCGGGAGAATGGTATTCTACGACAGCTTCAACAGATGTCGTAAG\n+CGGATGTTATAAATTTGTACTCGATTGGTCGAATGCTTCAAAACCTACGGTGACGGTGAG\n+CGTTGCAGAAAAGGCGGATACGG\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/composition.fa.gz |
| b |
| Binary file test-data/composition.fa.gz has changed |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/coverage --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/coverage Thu Jul 07 08:33:11 2022 +0000 |
| b |
| b'@@ -0,0 +1,351 @@\n+contig_id\tsample_1\tsample_2\tsample_3\tsample_4\tsample_5\tsample_6\tsample_7\tsample_8\tsample_9\tsample_10\tsample_11\tsample_12\tsample_13\tsample_14\tsample_15\tsample_16\n+contig-21000001\t0.153531\t0.42528500000000002\t0.109622\t0.067113000000000006\t0.0\t0.29285900000000004\t0.083916999999999992\t0.032405999999999997\t0.057611000000000002\t0.13072600000000001\t0.29285900000000004\t0.077815999999999982\t0.032306000000000001\t0.0038010000000000001\t0.0\t0.0\n+contig-75000034\t0.0\t0.53126899999999999\t0.47244599999999998\t0.034674999999999997\t0.0\t2.8352930000000001\t0.116409\t0.0\t0.0\t0.0\t2.8352930000000001\t0.51269200000000004\t0.0\t0.0\t0.0\t0.0\n+contig-2482000051\t0.0060429999999999998\t0.027028\t0.015528\t0.00564\t0.0031129999999999999\t0.019337\t0.010621\t0.013880000000000002\t0.019740000000000001\t0.017358999999999999\t0.019337\t0.0\t0.028858999999999999\t0.0073980000000000001\t0.0070319999999999992\t0.0\n+contig-194000040\t0.17649300000000001\t0.55740900000000004\t13.09038\t16.539959\t0.149728\t13.424751000000001\t1.475174\t8.9146669999999979\t5.9336660000000006\t0.197828\t13.424751000000001\t4.4670370000000004\t0.70674899999999996\t0.380139\t0.152444\t0.0\n+contig-600000042\t2.1114549999999999\t9.3119200000000006\t0.58049600000000001\t1.7941180000000001\t0.0\t0.0\t1.496904\t0.0\t0.089783000000000002\t0.37770999999999999\t0.0\t0.0\t0.979101\t0.46594400000000002\t0.0\t0.0\n+contig-1619000036\t0.22777900000000001\t1.6888909999999999\t0.0\t0.0\t42.113884000000013\t15.931479\t1.187964\t1.4833320000000001\t1.9999990000000001\t2.8490740000000003\t15.931479\t21.374067\t6.849081\t25.476851\t43.112969\t6.4101910000000002\n+contig-20000017\t0.0\t0.017009\t0.0060439999999999999\t0.0060439999999999999\t0.026988999999999999\t0.016165000000000002\t0.0053420000000000004\t0.0054819999999999999\t0.0053420000000000004\t0.029519\t0.016165000000000002\t0.058617000000000002\t0.011386\t0.022912999999999999\t0.0053420000000000004\t0.0\n+contig-750000028\t0.668794\t3.0823230000000001\t3.4377770000000001\t5.0102089999999997\t0.0\t0.59349099999999999\t0.89406600000000003\t0.024888\t8.3146120000000003\t0.206765\t0.59349099999999999\t0.0\t0.051691000000000001\t0.39821299999999998\t0.0\t0.0\n+contig-80000059\t0.0\t0.0\t0.0\t0.0\t0.0\t0.041822999999999999\t0.090617000000000003\t0.12547\t0.063807000000000003\t0.042359000000000001\t0.041822999999999999\t0.0\t0.0\t0.0\t0.0\t0.0\n+contig-1349000009\t0.15528\t0.76220200000000005\t0.0\t0.0\t31.629093999999998\t13.285714000000002\t1.701864\t1.83141\t1.018634\t2.3300810000000003\t13.285714000000002\t22.165037000000002\t5.0425890000000004\t16.105589999999999\t35.070978000000004\t4.9405489999999999\n+contig-216000039\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.045291999999999999\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\n+contig-447000020\t0.0\t0.025149000000000001\t0.0\t0.0\t0.0\t0.0\t1.078093\t0.0\t0.54732000000000003\t1.878226\t0.0\t0.0\t0.57643999999999995\t0.0\t0.0\t0.0\n+contig-21000060\t0.43029600000000001\t1.3454999999999999\t0.32766200000000001\t0.17810100000000001\t0.0\t4.3411099999999996\t0.082326999999999984\t0.0\t0.0\t0.0\t4.3411099999999996\t0.725576\t0.082326999999999984\t0.054336000000000002\t0.0\t0.0\n+contig-2440000038\t0.15323399999999998\t0.128358\t12.143284\t13.469647999999999\t0.069651999999999992\t12.881599\t1.290548\t6.5353190000000003\t5.701492\t0.076616999999999991\t12.881599\t4.3542269999999998\t0.77412899999999985\t0.60696499999999998\t0.18010000000000001\t0.0\n+contig-223000034\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\n+contig-28000057\t0.0\t0.0099240000000000005\t0.0\t0.0\t0.0\t0.0099240000000000005\t0.020371\t0.0\t0.0\t0.0\t0.0099240000000000005\t0.0\t0.0\t0.0\t0.0\t0.0\n+contig-25000027\t0.58127299999999993\t3.0461360000000002\t11.629738\t13.522684\t0.77632800000000002\t4.0640460000000003\t0.90519700000000003\t3.128285\t2.5298790000000002\t0.233599\t4.0640460000000003\t0.99746900000000005\t2.0276429999999999\t0.45512999999999998\t0.26805500000000004\t0.021607999999999999\n+contig-90000033\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.023442000000000001\t0.0\t0.0\n+contig-421000040\t0.0\t2.359432\t0.99110299999999996\t0.53025\t0.0\t1.5026700000000002\t0.0\t0.0\t0.067615999999999996\t0.0\t1.5026700000000002\t0.0\t0.0871890000'..b'1.581644\t0.0\t0.038647000000000001\t0.044443999999999997\t0.08985499999999999\t0.15845399999999998\t0.144928\t0.0\t0.0\t0.08985499999999999\t0.0\t0.0\t0.0\t41.216422999999999\t7.2705310000000001\n+contig-128000004\t0.195158\t0.76082099999999975\t5.5884090000000004\t3.1151840000000002\t0.0\t0.15553900000000001\t5.8950820000000004\t7.7703600000000002\t5.1680089999999996\t0.0\t0.15553900000000001\t0.030814000000000001\t8.6610380000000013\t0.0\t0.0\t0.0\n+contig-108000038\t0.0\t0.0\t1.4083939999999999\t0.63766699999999998\t0.0\t0.0\t0.0\t0.0\t0.010234999999999999\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\n+contig-842000017\t0.13824900000000001\t0.73640600000000001\t0.0\t0.0\t14.011982\t8.5557669999999977\t0.0\t0.68847899999999995\t1.1133630000000001\t0.85253400000000001\t8.5557669999999977\t13.035024999999999\t3.031339\t9.8580660000000009\t8.4949300000000001\t1.926267\n+contig-343000039\t0.25852199999999997\t2.7263280000000001\t9.4734970000000001\t9.4431820000000002\t0.0\t9.3977339999999998\t2.3011379999999999\t7.6420399999999988\t3.7414740000000002\t0.37784099999999998\t9.3977339999999998\t2.8276509999999999\t3.8172329999999999\t0.87405299999999997\t0.0\t0.0\n+contig-1142000053\t0.59906099999999995\t2.7211270000000001\t0.0\t0.0\t31.039432000000001\t11.735211\t1.4723010000000001\t1.7380279999999999\t2.9201890000000001\t1.3492959999999998\t11.735211\t19.053514\t5.5032800000000002\t17.513618999999998\t30.771828000000006\t8.187797999999999\n+contig-40000039\t0.0\t0.055474000000000002\t0.34197100000000002\t0.4408760000000001\t0.0\t0.014234\t1.280656\t1.389416\t0.164599\t17.990510999999994\t0.014234\t0.037590999999999999\t3.667516\t0.10948900000000003\t0.0\t0.0\n+contig-109000013\t0.0\t0.0\t0.060632000000000012\t0.044406000000000001\t0.0\t0.137489\t1.2724169999999999\t1.8744670000000001\t0.032451000000000001\t1.1759190000000002\t0.137489\t0.0\t2.269857\t0.070026000000000019\t0.0\t0.0\n+contig-338000005\t0.0\t0.0\t0.0\t0.0\t0.247729\t0.0\t1.2518579999999999\t0.38976\t0.78612700000000002\t1.2336910000000001\t0.0\t0.0\t3.52766\t0.94797699999999996\t0.0\t0.0\n+contig-20000011\t0.0\t0.037541999999999999\t0.0\t0.016005000000000002\t0.0\t0.0\t0.26971000000000001\t0.032009000000000003\t0.11934400000000001\t0.73443999999999998\t0.0\t0.011658\t0.079825999999999994\t0.0\t0.0\t0.0\n+contig-129000002\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.28598699999999999\t0.0\n+contig-106000034\t0.95674700000000001\t4.5114169999999998\t5.040832\t4.9214549999999999\t0.205536\t1.240138\t0.88961900000000005\t2.669896\t4.8384080000000003\t0.23875399999999999\t1.240138\t0.72145300000000001\t8.5820070000000008\t0.224913\t0.61141800000000002\t0.093425999999999995\n+contig-529000024\t0.0\t0.35406700000000002\t0.032126000000000002\t0.0\t0.0\t0.73547499999999999\t1.6862600000000001\t2.6801089999999999\t2.1907080000000003\t1.49282\t0.73547499999999999\t0.029392000000000001\t2.18865\t0.95625499999999997\t0.0\t0.0\n+contig-246000052\t0.0\t0.92930999999999997\t0.034483\t0.0\t0.0\t0.25862099999999999\t0.34999999999999998\t0.233621\t1.1612070000000001\t0.070690000000000003\t0.25862099999999999\t0.0\t0.0\t0.076724000000000001\t0.0\t0.0\n+contig-1374000055\t1.7944880000000001\t4.9858229999999999\t15.052754999999999\t12.995282\t2.028346\t0.0\t8.6448739999999979\t5.4897600000000004\t2.4251960000000001\t0.48818899999999998\t0.0\t0.47952699999999998\t8.040947000000001\t1.60866\t0.0\t0.0\n+contig-27000055\t0.0065230000000000002\t0.064416000000000001\t0.01272\t0.0\t0.0\t0.013046\t0.020059\t0.01908\t0.018917\t0.012557\t0.013046\t0.0\t0.0\t0.0\t0.048924000000000002\t0.0\n+contig-109000031\t0.84609299999999998\t10.2498\t0.0\t0.0\t0.0\t0.031426000000000009\t1.4319090000000001\t0.99838800000000005\t6.1829140000000002\t0.21434300000000001\t0.031426000000000009\t0.0\t0.73489099999999985\t0.70185399999999998\t0.0\t0.0\n+contig-78000025\t0.18276100000000001\t0.64378800000000003\t10.437889\t12.604421\t0.154031\t11.064643999999999\t0.42085600000000012\t8.5328560000000007\t6.6991259999999997\t0.25671700000000003\t11.064643999999999\t4.0720890000000001\t0.64911000000000008\t0.55413699999999999\t0.0\t0.028996999999999998\n+contig-200000042\t0.39884900000000001\t1.8408469999999999\t0.32406499999999999\t0.57909900000000003\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.0\t0.071908\t0.0\t0.0\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input.fasta.gz |
| b |
| Binary file test-data/input.fasta.gz has changed |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input1.fa.gz |
| b |
| Binary file test-data/input1.fa.gz has changed |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input1.tabular --- a/test-data/input1.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,417 +0,0 @@\n-NODE_100_length_1535_cov_6.691205\t1605\t8.261677\t0.249221\t6.652957\t0.123988\t0\t3.362618\t6.351409\t0\t0\t0.808100\t0.373832\t0.373832\t5.781307\t0\t0\t1.059190\n-NODE_101_length_153_cov_4.235294\t223\t0.896861\t0\t0.408072\t0\t0\t0\t0\t0\t0\t1.345292\t0.448430\t1.345293\t0.448430\t0\t1.345290\t3.587450\n-NODE_103_length_20202_cov_8.395357.0\t10000\t2.007700\t4.942400\t3.128200\t0.080000\t0\t0\t3.826100\t0\t4.206600\t1.528800\t0.420000\t1.268800\t4.233400\t4.407300\t3.177900\t2.606200\n-NODE_103_length_20202_cov_8.395357.1\t10272\t1.800233\t3.637852\t3.542055\t0.262851\t0\t0.097352\t3.745523\t0\t4.590639\t0.884151\t0.252823\t1.595307\t4.252823\t4.476445\t2.927082\t1.857087\n-NODE_104_length_823_cov_8.356014\t893\t10.070548\t0\t6.152291\t0.111982\t0\t4.245240\t6.038073\t0\t0\t0.671892\t0.559910\t0.895856\t5.597985\t0\t0\t2.349386\n-NODE_105_length_260_cov_4.142308\t330\t1.818181\t0.303030\t0.909091\t0\t0\t0\t0.303030\t0\t0\t2.121211\t1.212121\t0\t0.909090\t0\t0\t1.818183\n-NODE_106_length_2172_cov_16.183702\t2242\t3.384477\t9.701164\t5.793935\t0\t0\t0\t7.700716\t0\t8.591435\t2.094113\t0.758250\t2.096341\t6.768960\t10.165474\t5.038357\t3.557540\n-NODE_107_length_7609_cov_8.569195\t7679\t1.874722\t4.344835\t3.357731\t0\t0\t0\t4.048056\t0\t4.411123\t0.949603\t0.325564\t1.263185\t4.151191\t4.947649\t2.760774\t2.054826\n-NODE_108_length_1232_cov_16.167208\t1302\t2.833331\t7.956992\t4.980798\t0\t0\t0\t7.882490\t0\t7.116747\t2.607528\t0.691244\t3.064514\t7.667427\t7.364051\t6.023813\t2.526882\n-NODE_109_length_178_cov_16.084270\t248\t0\t0\t1.209678\t0\t0\t0\t0.403226\t0\t0\t0.806452\t0\t0\t0.403226\t0\t0\t0.403226\n-NODE_10_length_186_cov_4.327957\t256\t1.171875\t0.390625\t1.144532\t0\t0\t0\t0.390625\t0\t0.781250\t4.249997\t0\t1.171875\t0.390625\t0\t0.781250\t0.781250\n-NODE_111_length_80116_cov_8.871636.0\t10000\t2.747000\t5.603200\t3.788400\t0\t0\t0\t4.259100\t0\t5.404000\t2.697400\t0.779300\t1.608100\t4.958100\t4.486800\t3.538300\t3.677700\n-NODE_111_length_80116_cov_8.871636.1\t10000\t2.909500\t4.897200\t3.998600\t0\t0\t0\t4.777000\t0\t4.757700\t2.779000\t0.780000\t1.979700\t4.556000\t4.479100\t3.225600\t3.966300\n-NODE_111_length_80116_cov_8.871636.2\t10000\t2.425900\t4.784400\t3.617900\t0\t0\t0\t3.947500\t0\t4.744200\t2.039100\t0.490000\t1.326600\t5.249600\t4.419400\t3.065800\t2.829200\n-NODE_111_length_80116_cov_8.871636.3\t10000\t2.148700\t4.985700\t2.937300\t0\t0\t0\t3.676800\t0\t4.434200\t0.990000\t0.339900\t1.108600\t4.116000\t4.655600\t2.799300\t1.470000\n-NODE_111_length_80116_cov_8.871636.4\t10000\t1.959300\t4.606200\t3.178800\t0\t0\t0\t4.028800\t0\t4.507900\t0.909700\t0.410000\t1.059800\t4.422800\t4.746700\t2.597200\t1.729200\n-NODE_111_length_80116_cov_8.871636.5\t10000\t2.248400\t4.691800\t3.496100\t0\t0\t0\t4.134500\t0\t4.415500\t1.070000\t0.230000\t1.099600\t4.136500\t4.824700\t2.795400\t1.578100\n-NODE_111_length_80116_cov_8.871636.6\t10000\t1.747300\t4.446100\t3.118100\t0\t0\t0\t3.876600\t0\t4.505200\t1.130000\t0.260000\t1.169800\t4.025700\t4.704400\t2.567700\t1.458300\n-NODE_111_length_80116_cov_8.871636.7\t10186\t1.822990\t4.628609\t2.521696\t0\t0\t0\t4.021993\t0\t4.181820\t1.128413\t0.363243\t1.187120\t4.238861\t4.236105\t3.147359\t1.362556\n-NODE_112_length_846_cov_18.049644\t916\t4.366811\t9.022922\t4.908290\t0\t0\t0\t6.643011\t0\t6.979259\t1.965066\t0.545851\t2.719436\t10.689957\t7.525108\t5.786028\t2.183407\n-NODE_113_length_286_cov_12.695805\t356\t1.963482\t2.241571\t3.084266\t0\t0\t0\t2.528089\t0\t2.525277\t1.120788\t0\t1.120787\t1.117979\t3.362363\t1.957863\t1.398876\n-NODE_114_length_4896_cov_18.356821\t4966\t4.024768\t8.623427\t6.495364\t0\t0\t0\t8.872340\t0\t9.499799\t3.200765\t1.026984\t2.635322\t8.229552\t10.224925\t6.341319\t4.405350\n-NODE_115_length_78252_cov_8.512166.0\t10000\t1.645100\t4.396300\t2.918400\t0\t0\t0.060000\t3.955100\t0\t4.177900\t0.748800\t0.379900\t1.187400\t3.886300\t4.266200\t2.869100\t1.517900\n-NODE_115_length_78252_cov_8.512166.1\t10000\t1.787400\t3.998500\t2.974900\t0\t0\t0\t3.878600\t0\t4.197900\t1.109100\t0.219100\t1.160000\t3.807500\t5.064600\t2.636800\t1.799000\n-NODE_115_length_78252_cov_8.512166.2\t10000\t1.738300\t4.779000\t2.947800\t0\t0\t0\t3.467900\t0\t4.514200\t1.169200\t0.360000\t1.229500\t4.267100\t5.474900\t2.589100\t1.589300\n-NODE_115_length_78252_cov_8.512166.3\t10000\t1.598400\t4.621700\t2.349000\t0\t0\t0\t4.087400\t0\t4.692600\t0.929400\t0.350000\t1.208900\t4.039300\t5.058200\t3.152200\t1.'..b'9\t1.499457\t5.103376\t2.714908\t0\t0\t0\t3.808488\t0\t5.549510\t0.652883\t0.544069\t0.761696\t2.829162\t5.099029\t3.253538\t2.378674\n-NODE_26_length_3431_cov_15.138152\t3501\t3.049701\t6.612392\t6.391893\t0\t0\t0\t7.302201\t0\t7.279065\t2.370750\t0.628393\t1.853471\t6.960295\t8.834908\t4.391602\t3.565265\n-NODE_270_length_151_cov_4.258278\t221\t1.809956\t0\t0\t0.452489\t0\t0\t0\t3.619902\t0\t0\t0.452489\t3.167421\t0\t0.452489\t1.357464\t0.904977\n-NODE_271_length_164_cov_15.048780\t234\t0.427350\t2.136753\t0.854701\t0\t0\t0\t0.427350\t0\t2.136750\t0\t0.427350\t0.427350\t0.854701\t1.709400\t0.854700\t0\n-NODE_272_length_154_cov_14.188312\t224\t0\t0.892857\t2.232143\t0\t0\t0\t0.892857\t0\t0.446429\t0\t0\t0.446429\t0.892857\t2.232140\t0.446429\t0.446429\n-NODE_274_length_173_cov_11.838150\t243\t0.411523\t1.234569\t2.057611\t0\t0\t0\t3.292181\t0\t4.938271\t0.823045\t0\t1.234569\t2.469137\t5.349804\t2.057616\t0\n-NODE_275_length_149_cov_4.000000\t219\t0.913242\t0.456621\t1.369863\t0\t0\t0\t0.456621\t0\t0.456621\t1.369863\t0.456621\t0\t1.826483\t0\t0.456621\t3.159820\n-NODE_277_length_146_cov_4.280822\t216\t0.462963\t0.462963\t0.462963\t0\t0\t0\t0\t0\t0.884258\t2.777777\t0.462963\t0.462963\t1.388889\t0\t0\t3.240744\n-NODE_27_length_35477_cov_8.181526.0\t10000\t1.918300\t4.347400\t2.546500\t0\t0\t0\t4.424700\t0\t4.586700\t0.889800\t0.220000\t1.417900\t3.819400\t5.105800\t3.167800\t1.730000\n-NODE_27_length_35477_cov_8.181526.1\t10000\t1.688200\t4.124600\t3.029500\t0\t0\t0\t3.928900\t0\t4.115200\t1.050000\t0.229500\t1.118800\t3.576900\t4.612100\t2.677600\t1.789400\n-NODE_27_length_35477_cov_8.181526.2\t15547\t1.547439\t4.370681\t2.942946\t0\t0\t0\t3.870905\t0\t4.512256\t1.079823\t0.347334\t1.504536\t3.989711\t4.647326\t2.783237\t1.568791\n-NODE_283_length_165_cov_4.200000\t235\t0.851064\t1.276595\t0.851063\t0\t0\t0\t0\t0\t0.425532\t2.127663\t0.425532\t0.425532\t0.425532\t0\t0.425532\t2.127663\n-NODE_284_length_148_cov_4.236486\t218\t0.917431\t0.454128\t0\t0.458716\t0\t0\t0\t2.752293\t0.458716\t0.422018\t0\t2.293577\t0\t0.917431\t3.211007\t0.917431\n-NODE_285_length_433_cov_5.106236\t503\t1.590457\t2.582506\t3.165008\t0\t0\t0\t4.165009\t0\t2.783302\t0.994036\t0.198807\t1.192843\t2.972167\t3.976146\t1.391651\t0.984095\n-NODE_288_length_174_cov_4.316092\t244\t2.049180\t1.639345\t1.229508\t0\t0\t0\t2.036885\t0\t2.036885\t0.409836\t0.409836\t0.409836\t2.032786\t1.229508\t0.409836\t3.278688\n-NODE_28_length_34835_cov_8.108799.0\t10000\t1.908700\t4.387700\t2.947500\t0\t0\t0\t3.797100\t0\t4.693900\t0.987500\t0.349000\t1.328800\t4.478800\t5.105200\t2.888500\t1.397900\n-NODE_28_length_34835_cov_8.108799.1\t10000\t1.847500\t4.356800\t2.648600\t0\t0\t0\t3.735900\t0\t3.876700\t1.019300\t0.259600\t1.159900\t3.745800\t4.606000\t2.606500\t1.108800\n-NODE_28_length_34835_cov_8.108799.2\t14905\t1.775715\t4.499630\t2.730357\t0\t0\t0\t3.825425\t0\t4.424353\t0.944917\t0.315331\t1.307078\t3.888697\t4.907619\t2.850249\t1.540825\n-NODE_290_length_1962_cov_6.746177\t2032\t1.525591\t5.413389\t2.944881\t0\t0\t0\t4.079231\t0\t3.885336\t0.929626\t0.049213\t1.427166\t4.221458\t4.773624\t1.968506\t1.377954\n-NODE_293_length_832_cov_6.325721\t902\t3.436805\t4.988915\t4.101994\t0\t0\t0\t4.758316\t0\t7.283812\t1.108646\t0.442350\t3.092018\t5.518847\t4.317073\t4.529935\t1.771619\n-NODE_294_length_210_cov_4.066667\t280\t2.142857\t1.414286\t0.357143\t0\t0\t0\t0.357143\t0\t0.357143\t2.499999\t0.357143\t0\t1.071428\t0\t1.071428\t1.785713\n-NODE_295_length_196_cov_4.397959\t266\t1.879699\t0.375940\t1.127819\t0\t0\t0\t0.751880\t0\t0.375940\t3.349628\t0\t0\t0\t0\t0.375940\t0.751880\n-NODE_29_length_44540_cov_9.429951.0\t10000\t2.027900\t5.076300\t3.653900\t0\t0\t0\t4.475300\t0\t4.737900\t2.168800\t0.700000\t1.458700\t4.274900\t4.467800\t3.147200\t3.525100\n-NODE_29_length_44540_cov_9.429951.1\t10000\t2.258300\t4.988600\t3.198400\t0\t0\t0\t3.565800\t0\t4.268500\t2.740000\t0.570000\t1.366900\t4.895400\t4.835200\t3.426900\t4.108300\n-NODE_29_length_44540_cov_9.429951.2\t10000\t2.716900\t5.218600\t3.607200\t0\t0\t0\t3.996700\t0\t4.797500\t3.179400\t0.770000\t1.508700\t4.924600\t4.254900\t3.564600\t4.146500\n-NODE_29_length_44540_cov_9.429951.3\t14610\t2.230117\t5.066739\t3.647501\t0\t0\t0\t4.351748\t0\t4.827725\t1.531828\t0.342231\t1.298221\t4.664888\t5.032990\t3.008352\t2.216154\n-NODE_2_length_16156_cov_8.219856\t16226\t1.545114\t4.323432\t2.912856\t0\t0\t0\t3.922715\t0\t4.290770\t0.992173\t0.388265\t1.182792\t4.050168\t5.099648\t2.813631\t1.411069\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input_coverage_table.fasta.gz |
| b |
| Binary file test-data/input_coverage_table.fasta.gz has changed |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input_coverage_table.tabular --- a/test-data/input_coverage_table.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,422 +0,0 @@\n-NODE_100_length_1535_cov_6.691205\t0\t1605\t1605\t1\n-NODE_101_length_153_cov_4.235294\t0\t223\t223\t1\n-NODE_103_length_20202_cov_8.395357.0\t0\t10000\t10000\t1\n-NODE_103_length_20202_cov_8.395357.1\t0\t10272\t10272\t1\n-NODE_104_length_823_cov_8.356014\t0\t893\t893\t1\n-NODE_105_length_260_cov_4.142308\t0\t330\t330\t1\n-NODE_106_length_2172_cov_16.183702\t0\t2242\t2242\t1\n-NODE_107_length_7609_cov_8.569195\t0\t7679\t7679\t1\n-NODE_108_length_1232_cov_16.167208\t0\t1302\t1302\t1\n-NODE_109_length_178_cov_16.084270\t0\t248\t248\t1\n-NODE_10_length_186_cov_4.327957\t0\t256\t256\t1\n-NODE_111_length_80116_cov_8.871636.0\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.1\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.2\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.3\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.4\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.5\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.6\t0\t10000\t10000\t1\n-NODE_111_length_80116_cov_8.871636.7\t0\t10186\t10186\t1\n-NODE_112_length_846_cov_18.049644\t0\t916\t916\t1\n-NODE_113_length_286_cov_12.695805\t0\t356\t356\t1\n-NODE_114_length_4896_cov_18.356821\t0\t4966\t4966\t1\n-NODE_115_length_78252_cov_8.512166.0\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.1\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.2\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.3\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.4\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.5\t0\t10000\t10000\t1\n-NODE_115_length_78252_cov_8.512166.6\t0\t18322\t18322\t1\n-NODE_116_length_203_cov_4.093596\t0\t273\t273\t1\n-NODE_117_length_248_cov_25.778225\t0\t318\t318\t1\n-NODE_118_length_15438_cov_8.266615\t0\t15508\t15508\t1\n-NODE_119_length_83_cov_11.493976\t0\t153\t153\t1\n-NODE_11_length_153_cov_12.470589\t0\t223\t223\t1\n-NODE_121_length_60582_cov_8.522333.0\t0\t10000\t10000\t1\n-NODE_121_length_60582_cov_8.522333.1\t0\t10000\t10000\t1\n-NODE_121_length_60582_cov_8.522333.2\t0\t10000\t10000\t1\n-NODE_121_length_60582_cov_8.522333.3\t0\t10000\t10000\t1\n-NODE_121_length_60582_cov_8.522333.4\t0\t10000\t10000\t1\n-NODE_121_length_60582_cov_8.522333.5\t0\t10652\t10652\t1\n-NODE_123_length_75191_cov_8.369140.0\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.1\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.2\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.3\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.4\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.5\t0\t10000\t10000\t1\n-NODE_123_length_75191_cov_8.369140.6\t0\t15261\t15261\t1\n-NODE_124_length_407_cov_4.159705\t0\t477\t477\t1\n-NODE_128_length_532_cov_17.454887\t0\t602\t602\t1\n-NODE_129_length_160323_cov_8.254436.0\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.1\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.10\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.11\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.12\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.13\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.14\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.15\t0\t10393\t10393\t1\n-NODE_129_length_160323_cov_8.254436.2\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.3\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.4\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.5\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.6\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.7\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.8\t0\t10000\t10000\t1\n-NODE_129_length_160323_cov_8.254436.9\t0\t10000\t10000\t1\n-NODE_12_length_555_cov_14.255856\t0\t625\t625\t1\n-NODE_130_length_3461_cov_7.763941\t0\t3531\t3531\t1\n-NODE_131_length_92242_cov_8.320277.0\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.1\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.2\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.3\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.4\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.5\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.6\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.7\t0\t10000\t10000\t1\n-NODE_131_length_92242_cov_8.320277.8\t0\t12312\t'..b'0000\t1\n-NODE_260_length_165083_cov_8.801846.3\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.4\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.5\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.6\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.7\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.8\t0\t10000\t10000\t1\n-NODE_260_length_165083_cov_8.801846.9\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.0\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.1\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.10\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.11\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.12\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.13\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.14\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.15\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.16\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.17\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.18\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.19\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.2\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.20\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.21\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.22\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.23\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.24\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.25\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.26\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.27\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.28\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.29\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.3\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.30\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.31\t0\t11531\t11531\t1\n-NODE_261_length_321461_cov_8.199894.4\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.5\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.6\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.7\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.8\t0\t10000\t10000\t1\n-NODE_261_length_321461_cov_8.199894.9\t0\t10000\t10000\t1\n-NODE_262_length_112_cov_9.366072\t0\t182\t182\t1\n-NODE_264_length_143_cov_21.937063\t0\t213\t213\t1\n-NODE_265_length_543_cov_4.924494\t0\t613\t613\t1\n-NODE_266_length_205_cov_15.878049\t0\t275\t275\t1\n-NODE_267_length_4676_cov_7.631737\t0\t4746\t4746\t1\n-NODE_269_length_849_cov_6.312132\t0\t919\t919\t1\n-NODE_26_length_3431_cov_15.138152\t0\t3501\t3501\t1\n-NODE_270_length_151_cov_4.258278\t0\t221\t221\t1\n-NODE_271_length_164_cov_15.048780\t0\t234\t234\t1\n-NODE_272_length_154_cov_14.188312\t0\t224\t224\t1\n-NODE_274_length_173_cov_11.838150\t0\t243\t243\t1\n-NODE_275_length_149_cov_4.000000\t0\t219\t219\t1\n-NODE_277_length_146_cov_4.280822\t0\t216\t216\t1\n-NODE_27_length_35477_cov_8.181526.0\t0\t10000\t10000\t1\n-NODE_27_length_35477_cov_8.181526.1\t0\t10000\t10000\t1\n-NODE_27_length_35477_cov_8.181526.2\t0\t15547\t15547\t1\n-NODE_283_length_165_cov_4.200000\t0\t235\t235\t1\n-NODE_284_length_148_cov_4.236486\t0\t218\t218\t1\n-NODE_285_length_433_cov_5.106236\t0\t503\t503\t1\n-NODE_288_length_174_cov_4.316092\t0\t244\t244\t1\n-NODE_28_length_34835_cov_8.108799.0\t0\t10000\t10000\t1\n-NODE_28_length_34835_cov_8.108799.1\t0\t10000\t10000\t1\n-NODE_28_length_34835_cov_8.108799.2\t0\t14905\t14905\t1\n-NODE_290_length_1962_cov_6.746177\t0\t2032\t2032\t1\n-NODE_293_length_832_cov_6.325721\t0\t902\t902\t1\n-NODE_294_length_210_cov_4.066667\t0\t280\t280\t1\n-NODE_295_length_196_cov_4.397959\t0\t266\t266\t1\n-NODE_29_length_44540_cov_9.429951.0\t0\t10000\t10000\t1\n-NODE_29_length_44540_cov_9.429951.1\t0\t10000\t10000\t1\n-NODE_29_length_44540_cov_9.429951.2\t0\t10000\t10000\t1\n-NODE_29_length_44540_cov_9.429951.3\t0\t14610\t14610\t1\n-NODE_2_length_16156_cov_8.219856\t0\t16226\t16226\t1\n-ODE_101_length_153_cov_4.235294\t0\t242193529\t242193529\t1\n-ODE_107_length_7609_cov_8.569195\t0\t159345973\t159345973\t1\n-ODE_10_length_186_cov_4.327957\t0\t138394717\t138394717\t1\n-ODE_116_length_203_cov_4.093596\t0\t80373285\t80373285\t1\n-genome\t0\t623573523\t623652648\t0.999873\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/input_merge_clusters.tabular --- a/test-data/input_merge_clusters.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,330 +0,0 @@\n-contig_id\tcluster_id\n-NODE_100_length_1535_cov_6.691205.concoct_part_0\t14\n-NODE_103_length_20202_cov_8.395357.0.concoct_part_0\t28\n-NODE_103_length_20202_cov_8.395357.1.concoct_part_0\t26\n-NODE_106_length_2172_cov_16.183702.concoct_part_0\t2\n-NODE_107_length_7609_cov_8.569195.concoct_part_0\t0\n-NODE_108_length_1232_cov_16.167208.concoct_part_0\t2\n-NODE_111_length_80116_cov_8.871636.0.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.1.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.2.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.3.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.4.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.5.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.6.concoct_part_0\t28\n-NODE_111_length_80116_cov_8.871636.7.concoct_part_0\t28\n-NODE_114_length_4896_cov_18.356821.concoct_part_0\t10\n-NODE_115_length_78252_cov_8.512166.0.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.1.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.2.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.3.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.4.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.5.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.6.concoct_part_0\t28\n-NODE_115_length_78252_cov_8.512166.6.concoct_part_1\t28\n-NODE_118_length_15438_cov_8.266615.concoct_part_0\t28\n-NODE_118_length_15438_cov_8.266615.concoct_part_1\t28\n-NODE_121_length_60582_cov_8.522333.0.concoct_part_0\t28\n-NODE_121_length_60582_cov_8.522333.1.concoct_part_0\t28\n-NODE_121_length_60582_cov_8.522333.2.concoct_part_0\t28\n-NODE_121_length_60582_cov_8.522333.3.concoct_part_0\t28\n-NODE_121_length_60582_cov_8.522333.4.concoct_part_0\t28\n-NODE_121_length_60582_cov_8.522333.5.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.0.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.1.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.2.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.3.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.4.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.5.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.6.concoct_part_0\t28\n-NODE_123_length_75191_cov_8.369140.6.concoct_part_1\t5\n-NODE_129_length_160323_cov_8.254436.0.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.1.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.10.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.11.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.12.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.13.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.14.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.15.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.2.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.3.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.4.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.5.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.6.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.7.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.8.concoct_part_0\t28\n-NODE_129_length_160323_cov_8.254436.9.concoct_part_0\t28\n-NODE_130_length_3461_cov_7.763941.concoct_part_0\t9\n-NODE_131_length_92242_cov_8.320277.0.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.1.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.2.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.3.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.4.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.5.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.6.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.7.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.8.concoct_part_0\t28\n-NODE_131_length_92242_cov_8.320277.8.concoct_part_1\t13\n-NODE_13_length_6591_cov_8.574723.concoct_part_0\t9\n-NODE_151_length_29715_cov_8.256470.0.concoct_part_0\t28\n-NODE_151_length_29715_cov_8.256470.1.concoct_part_0\t28\n-NODE_151_length_29715_cov_8.256470.1.concoct_part_1\t28\n-NODE_157_length_58632_cov_8.156433.0.concoct_'..b'ov_8.177872.7.concoct_part_0\t28\n-NODE_258_length_263280_cov_8.177872.8.concoct_part_0\t28\n-NODE_258_length_263280_cov_8.177872.9.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.0.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.1.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.10.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.11.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.12.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.13.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.14.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.15.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.15.concoct_part_1\t28\n-NODE_260_length_165083_cov_8.801846.2.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.3.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.4.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.5.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.6.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.7.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.8.concoct_part_0\t28\n-NODE_260_length_165083_cov_8.801846.9.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.0.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.1.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.10.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.11.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.12.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.13.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.14.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.15.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.16.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.17.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.18.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.19.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.2.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.20.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.21.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.22.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.23.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.24.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.25.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.26.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.27.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.28.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.29.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.3.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.30.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.31.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.31.concoct_part_1\t21\n-NODE_261_length_321461_cov_8.199894.4.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.5.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.6.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.7.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.8.concoct_part_0\t28\n-NODE_261_length_321461_cov_8.199894.9.concoct_part_0\t28\n-NODE_267_length_4676_cov_7.631737.concoct_part_0\t3\n-NODE_26_length_3431_cov_15.138152.concoct_part_0\t4\n-NODE_27_length_35477_cov_8.181526.0.concoct_part_0\t28\n-NODE_27_length_35477_cov_8.181526.1.concoct_part_0\t28\n-NODE_27_length_35477_cov_8.181526.2.concoct_part_0\t28\n-NODE_27_length_35477_cov_8.181526.2.concoct_part_1\t28\n-NODE_28_length_34835_cov_8.108799.0.concoct_part_0\t28\n-NODE_28_length_34835_cov_8.108799.1.concoct_part_0\t28\n-NODE_28_length_34835_cov_8.108799.2.concoct_part_0\t28\n-NODE_28_length_34835_cov_8.108799.2.concoct_part_1\t6\n-NODE_290_length_1962_cov_6.746177.concoct_part_0\t1\n-NODE_29_length_44540_cov_9.429951.0.concoct_part_0\t28\n-NODE_29_length_44540_cov_9.429951.1.concoct_part_0\t28\n-NODE_29_length_44540_cov_9.429951.2.concoct_part_0\t28\n-NODE_29_length_44540_cov_9.429951.3.concoct_part_0\t28\n-NODE_29_length_44540_cov_9.429951.3.concoct_part_1\t3\n-NODE_2_length_16156_cov_8.219856.concoct_part_0\t28\n-NODE_2_length_16156_cov_8.219856.concoct_part_1\t28\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/inputcluster1.tabular --- a/test-data/inputcluster1.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,3 +0,0 @@ -contig_id cluster_id -NODE_1_length_2054_cov_17.474684 77 -NODE_2_length_16156_cov_8.219856 93 |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/output_coverage_table.tabular --- a/test-data/output_coverage_table.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,447 +0,0 @@\n-contig\tlength\tcov_mean_sample_422\n-NODE_100_length_1535_cov_6.691205\t1605\t0\n-NODE_101_length_153_cov_4.235294\t223\t0\n-NODE_103_length_20202_cov_8.395357.0\t10000\t0\n-NODE_103_length_20202_cov_8.395357.1.0\t10000\t0\n-NODE_103_length_20202_cov_8.395357.1.1\t272\t0\n-NODE_104_length_823_cov_8.356014\t893\t0\n-NODE_105_length_260_cov_4.142308\t330\t0\n-NODE_106_length_2172_cov_16.183702\t2242\t0\n-NODE_107_length_7609_cov_8.569195\t7679\t0\n-NODE_108_length_1232_cov_16.167208\t1302\t0\n-NODE_109_length_178_cov_16.084270\t248\t0\n-NODE_10_length_186_cov_4.327957\t256\t0\n-NODE_111_length_80116_cov_8.871636.0\t10000\t0\n-NODE_111_length_80116_cov_8.871636.1\t10000\t0\n-NODE_111_length_80116_cov_8.871636.2\t10000\t0\n-NODE_111_length_80116_cov_8.871636.3\t10000\t0\n-NODE_111_length_80116_cov_8.871636.4\t10000\t0\n-NODE_111_length_80116_cov_8.871636.5\t10000\t0\n-NODE_111_length_80116_cov_8.871636.6\t10000\t0\n-NODE_111_length_80116_cov_8.871636.7.0\t10000\t0\n-NODE_111_length_80116_cov_8.871636.7.1\t186\t0\n-NODE_112_length_846_cov_18.049644\t916\t0\n-NODE_113_length_286_cov_12.695805\t356\t0\n-NODE_114_length_4896_cov_18.356821\t4966\t0\n-NODE_115_length_78252_cov_8.512166.0\t10000\t0\n-NODE_115_length_78252_cov_8.512166.1\t10000\t0\n-NODE_115_length_78252_cov_8.512166.2\t10000\t0\n-NODE_115_length_78252_cov_8.512166.3\t10000\t0\n-NODE_115_length_78252_cov_8.512166.4\t10000\t0\n-NODE_115_length_78252_cov_8.512166.5\t10000\t0\n-NODE_115_length_78252_cov_8.512166.6.0\t10000\t0\n-NODE_115_length_78252_cov_8.512166.6.1\t8322\t0\n-NODE_116_length_203_cov_4.093596\t273\t0\n-NODE_117_length_248_cov_25.778225\t318\t0\n-NODE_118_length_15438_cov_8.266615.0\t10000\t0\n-NODE_118_length_15438_cov_8.266615.1\t5508\t0\n-NODE_119_length_83_cov_11.493976\t153\t0\n-NODE_11_length_153_cov_12.470589\t223\t0\n-NODE_121_length_60582_cov_8.522333.0\t10000\t0\n-NODE_121_length_60582_cov_8.522333.1\t10000\t0\n-NODE_121_length_60582_cov_8.522333.2\t10000\t0\n-NODE_121_length_60582_cov_8.522333.3\t10000\t0\n-NODE_121_length_60582_cov_8.522333.4\t10000\t0\n-NODE_121_length_60582_cov_8.522333.5.0\t10000\t0\n-NODE_121_length_60582_cov_8.522333.5.1\t652\t0\n-NODE_123_length_75191_cov_8.369140.0\t10000\t0\n-NODE_123_length_75191_cov_8.369140.1\t10000\t0\n-NODE_123_length_75191_cov_8.369140.2\t10000\t0\n-NODE_123_length_75191_cov_8.369140.3\t10000\t0\n-NODE_123_length_75191_cov_8.369140.4\t10000\t0\n-NODE_123_length_75191_cov_8.369140.5\t10000\t0\n-NODE_123_length_75191_cov_8.369140.6.0\t10000\t0\n-NODE_123_length_75191_cov_8.369140.6.1\t5261\t0\n-NODE_124_length_407_cov_4.159705\t477\t0\n-NODE_128_length_532_cov_17.454887\t602\t0\n-NODE_129_length_160323_cov_8.254436.0\t10000\t0\n-NODE_129_length_160323_cov_8.254436.1\t10000\t0\n-NODE_129_length_160323_cov_8.254436.10\t10000\t0\n-NODE_129_length_160323_cov_8.254436.11\t10000\t0\n-NODE_129_length_160323_cov_8.254436.12\t10000\t0\n-NODE_129_length_160323_cov_8.254436.13\t10000\t0\n-NODE_129_length_160323_cov_8.254436.14\t10000\t0\n-NODE_129_length_160323_cov_8.254436.15.0\t10000\t0\n-NODE_129_length_160323_cov_8.254436.15.1\t393\t0\n-NODE_129_length_160323_cov_8.254436.2\t10000\t0\n-NODE_129_length_160323_cov_8.254436.3\t10000\t0\n-NODE_129_length_160323_cov_8.254436.4\t10000\t0\n-NODE_129_length_160323_cov_8.254436.5\t10000\t0\n-NODE_129_length_160323_cov_8.254436.6\t10000\t0\n-NODE_129_length_160323_cov_8.254436.7\t10000\t0\n-NODE_129_length_160323_cov_8.254436.8\t10000\t0\n-NODE_129_length_160323_cov_8.254436.9\t10000\t0\n-NODE_12_length_555_cov_14.255856\t625\t0\n-NODE_130_length_3461_cov_7.763941\t3531\t0\n-NODE_131_length_92242_cov_8.320277.0\t10000\t0\n-NODE_131_length_92242_cov_8.320277.1\t10000\t0\n-NODE_131_length_92242_cov_8.320277.2\t10000\t0\n-NODE_131_length_92242_cov_8.320277.3\t10000\t0\n-NODE_131_length_92242_cov_8.320277.4\t10000\t0\n-NODE_131_length_92242_cov_8.320277.5\t10000\t0\n-NODE_131_length_92242_cov_8.320277.6\t10000\t0\n-NODE_131_length_92242_cov_8.320277.7\t10000\t0\n-NODE_131_length_92242_cov_8.320277.8.0\t10000\t0\n-NODE_131_length_92242_cov_8.320277.8.1\t2312\t0\n-NODE_132_length_71_cov_36.070423\t141\t0\n-NODE_133_length_543_cov_15.108656\t613\t0\n-NODE_134_length_519_cov_18.038536\t589\t0\n-NODE_136_length_245_'..b'\n-NODE_259_length_266_cov_4.357143\t336\t0\n-NODE_25_length_286_cov_24.356644\t356\t0\n-NODE_260_length_165083_cov_8.801846.0\t10000\t0\n-NODE_260_length_165083_cov_8.801846.1\t10000\t0\n-NODE_260_length_165083_cov_8.801846.10\t10000\t0\n-NODE_260_length_165083_cov_8.801846.11\t10000\t0\n-NODE_260_length_165083_cov_8.801846.12\t10000\t0\n-NODE_260_length_165083_cov_8.801846.13\t10000\t0\n-NODE_260_length_165083_cov_8.801846.14\t10000\t0\n-NODE_260_length_165083_cov_8.801846.15.0\t10000\t0\n-NODE_260_length_165083_cov_8.801846.15.1\t5153\t0\n-NODE_260_length_165083_cov_8.801846.2\t10000\t0\n-NODE_260_length_165083_cov_8.801846.3\t10000\t0\n-NODE_260_length_165083_cov_8.801846.4\t10000\t0\n-NODE_260_length_165083_cov_8.801846.5\t10000\t0\n-NODE_260_length_165083_cov_8.801846.6\t10000\t0\n-NODE_260_length_165083_cov_8.801846.7\t10000\t0\n-NODE_260_length_165083_cov_8.801846.8\t10000\t0\n-NODE_260_length_165083_cov_8.801846.9\t10000\t0\n-NODE_261_length_321461_cov_8.199894.0\t10000\t0\n-NODE_261_length_321461_cov_8.199894.1\t10000\t0\n-NODE_261_length_321461_cov_8.199894.10\t10000\t0\n-NODE_261_length_321461_cov_8.199894.11\t10000\t0\n-NODE_261_length_321461_cov_8.199894.12\t10000\t0\n-NODE_261_length_321461_cov_8.199894.13\t10000\t0\n-NODE_261_length_321461_cov_8.199894.14\t10000\t0\n-NODE_261_length_321461_cov_8.199894.15\t10000\t0\n-NODE_261_length_321461_cov_8.199894.16\t10000\t0\n-NODE_261_length_321461_cov_8.199894.17\t10000\t0\n-NODE_261_length_321461_cov_8.199894.18\t10000\t0\n-NODE_261_length_321461_cov_8.199894.19\t10000\t0\n-NODE_261_length_321461_cov_8.199894.2\t10000\t0\n-NODE_261_length_321461_cov_8.199894.20\t10000\t0\n-NODE_261_length_321461_cov_8.199894.21\t10000\t0\n-NODE_261_length_321461_cov_8.199894.22\t10000\t0\n-NODE_261_length_321461_cov_8.199894.23\t10000\t0\n-NODE_261_length_321461_cov_8.199894.24\t10000\t0\n-NODE_261_length_321461_cov_8.199894.25\t10000\t0\n-NODE_261_length_321461_cov_8.199894.26\t10000\t0\n-NODE_261_length_321461_cov_8.199894.27\t10000\t0\n-NODE_261_length_321461_cov_8.199894.28\t10000\t0\n-NODE_261_length_321461_cov_8.199894.29\t10000\t0\n-NODE_261_length_321461_cov_8.199894.3\t10000\t0\n-NODE_261_length_321461_cov_8.199894.30\t10000\t0\n-NODE_261_length_321461_cov_8.199894.31.0\t10000\t0\n-NODE_261_length_321461_cov_8.199894.31.1\t1531\t0\n-NODE_261_length_321461_cov_8.199894.4\t10000\t0\n-NODE_261_length_321461_cov_8.199894.5\t10000\t0\n-NODE_261_length_321461_cov_8.199894.6\t10000\t0\n-NODE_261_length_321461_cov_8.199894.7\t10000\t0\n-NODE_261_length_321461_cov_8.199894.8\t10000\t0\n-NODE_261_length_321461_cov_8.199894.9\t10000\t0\n-NODE_262_length_112_cov_9.366072\t182\t0\n-NODE_264_length_143_cov_21.937063\t213\t0\n-NODE_265_length_543_cov_4.924494\t613\t0\n-NODE_266_length_205_cov_15.878049\t275\t0\n-NODE_267_length_4676_cov_7.631737\t4746\t0\n-NODE_269_length_849_cov_6.312132\t919\t0\n-NODE_26_length_3431_cov_15.138152\t3501\t0\n-NODE_270_length_151_cov_4.258278\t221\t0\n-NODE_271_length_164_cov_15.048780\t234\t0\n-NODE_272_length_154_cov_14.188312\t224\t0\n-NODE_274_length_173_cov_11.838150\t243\t0\n-NODE_275_length_149_cov_4.000000\t219\t0\n-NODE_277_length_146_cov_4.280822\t216\t0\n-NODE_27_length_35477_cov_8.181526.0\t10000\t0\n-NODE_27_length_35477_cov_8.181526.1\t10000\t0\n-NODE_27_length_35477_cov_8.181526.2.0\t10000\t0\n-NODE_27_length_35477_cov_8.181526.2.1\t5547\t0\n-NODE_283_length_165_cov_4.200000\t235\t0\n-NODE_284_length_148_cov_4.236486\t218\t0\n-NODE_285_length_433_cov_5.106236\t503\t0\n-NODE_288_length_174_cov_4.316092\t244\t0\n-NODE_28_length_34835_cov_8.108799.0\t10000\t0\n-NODE_28_length_34835_cov_8.108799.1\t10000\t0\n-NODE_28_length_34835_cov_8.108799.2.0\t10000\t0\n-NODE_28_length_34835_cov_8.108799.2.1\t4905\t0\n-NODE_290_length_1962_cov_6.746177\t2032\t0\n-NODE_293_length_832_cov_6.325721\t902\t0\n-NODE_294_length_210_cov_4.066667\t280\t0\n-NODE_295_length_196_cov_4.397959\t266\t0\n-NODE_29_length_44540_cov_9.429951.0\t10000\t0\n-NODE_29_length_44540_cov_9.429951.1\t10000\t0\n-NODE_29_length_44540_cov_9.429951.2\t10000\t0\n-NODE_29_length_44540_cov_9.429951.3.0\t10000\t0\n-NODE_29_length_44540_cov_9.429951.3.1\t4610\t0\n-NODE_2_length_16156_cov_8.219856.0\t10000\t0\n-NODE_2_length_16156_cov_8.219856.1\t6226\t0\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/output_merge_clusters.tabular --- a/test-data/output_merge_clusters.tabular Fri Jul 01 14:16:40 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,306 +0,0 @@\n-contig_id\tcluster_id\n-NODE_100_length_1535_cov_6.691205\t14\n-NODE_103_length_20202_cov_8.395357.0\t28\n-NODE_103_length_20202_cov_8.395357.1\t26\n-NODE_106_length_2172_cov_16.183702\t2\n-NODE_107_length_7609_cov_8.569195\t0\n-NODE_108_length_1232_cov_16.167208\t2\n-NODE_111_length_80116_cov_8.871636.0\t28\n-NODE_111_length_80116_cov_8.871636.1\t28\n-NODE_111_length_80116_cov_8.871636.2\t28\n-NODE_111_length_80116_cov_8.871636.3\t28\n-NODE_111_length_80116_cov_8.871636.4\t28\n-NODE_111_length_80116_cov_8.871636.5\t28\n-NODE_111_length_80116_cov_8.871636.6\t28\n-NODE_111_length_80116_cov_8.871636.7\t28\n-NODE_114_length_4896_cov_18.356821\t10\n-NODE_115_length_78252_cov_8.512166.0\t28\n-NODE_115_length_78252_cov_8.512166.1\t28\n-NODE_115_length_78252_cov_8.512166.2\t28\n-NODE_115_length_78252_cov_8.512166.3\t28\n-NODE_115_length_78252_cov_8.512166.4\t28\n-NODE_115_length_78252_cov_8.512166.5\t28\n-NODE_115_length_78252_cov_8.512166.6\t28\n-NODE_118_length_15438_cov_8.266615\t28\n-NODE_121_length_60582_cov_8.522333.0\t28\n-NODE_121_length_60582_cov_8.522333.1\t28\n-NODE_121_length_60582_cov_8.522333.2\t28\n-NODE_121_length_60582_cov_8.522333.3\t28\n-NODE_121_length_60582_cov_8.522333.4\t28\n-NODE_121_length_60582_cov_8.522333.5\t28\n-NODE_123_length_75191_cov_8.369140.0\t28\n-NODE_123_length_75191_cov_8.369140.1\t28\n-NODE_123_length_75191_cov_8.369140.2\t28\n-NODE_123_length_75191_cov_8.369140.3\t28\n-NODE_123_length_75191_cov_8.369140.4\t28\n-NODE_123_length_75191_cov_8.369140.5\t28\n-NODE_123_length_75191_cov_8.369140.6\t28\n-NODE_129_length_160323_cov_8.254436.0\t28\n-NODE_129_length_160323_cov_8.254436.1\t28\n-NODE_129_length_160323_cov_8.254436.10\t28\n-NODE_129_length_160323_cov_8.254436.11\t28\n-NODE_129_length_160323_cov_8.254436.12\t28\n-NODE_129_length_160323_cov_8.254436.13\t28\n-NODE_129_length_160323_cov_8.254436.14\t28\n-NODE_129_length_160323_cov_8.254436.15\t28\n-NODE_129_length_160323_cov_8.254436.2\t28\n-NODE_129_length_160323_cov_8.254436.3\t28\n-NODE_129_length_160323_cov_8.254436.4\t28\n-NODE_129_length_160323_cov_8.254436.5\t28\n-NODE_129_length_160323_cov_8.254436.6\t28\n-NODE_129_length_160323_cov_8.254436.7\t28\n-NODE_129_length_160323_cov_8.254436.8\t28\n-NODE_129_length_160323_cov_8.254436.9\t28\n-NODE_130_length_3461_cov_7.763941\t9\n-NODE_131_length_92242_cov_8.320277.0\t28\n-NODE_131_length_92242_cov_8.320277.1\t28\n-NODE_131_length_92242_cov_8.320277.2\t28\n-NODE_131_length_92242_cov_8.320277.3\t28\n-NODE_131_length_92242_cov_8.320277.4\t28\n-NODE_131_length_92242_cov_8.320277.5\t28\n-NODE_131_length_92242_cov_8.320277.6\t28\n-NODE_131_length_92242_cov_8.320277.7\t28\n-NODE_131_length_92242_cov_8.320277.8\t28\n-NODE_13_length_6591_cov_8.574723\t9\n-NODE_151_length_29715_cov_8.256470.0\t28\n-NODE_151_length_29715_cov_8.256470.1\t28\n-NODE_157_length_58632_cov_8.156433.0\t28\n-NODE_157_length_58632_cov_8.156433.1\t28\n-NODE_157_length_58632_cov_8.156433.2\t28\n-NODE_157_length_58632_cov_8.156433.3\t28\n-NODE_157_length_58632_cov_8.156433.4\t28\n-NODE_15_length_3555_cov_8.369058\t9\n-NODE_173_length_51809_cov_8.202050.0\t28\n-NODE_173_length_51809_cov_8.202050.1\t28\n-NODE_173_length_51809_cov_8.202050.2\t28\n-NODE_173_length_51809_cov_8.202050.3\t38\n-NODE_173_length_51809_cov_8.202050.4\t28\n-NODE_179_length_197611_cov_8.217700.0\t28\n-NODE_179_length_197611_cov_8.217700.1\t28\n-NODE_179_length_197611_cov_8.217700.10\t28\n-NODE_179_length_197611_cov_8.217700.11\t28\n-NODE_179_length_197611_cov_8.217700.12\t28\n-NODE_179_length_197611_cov_8.217700.13\t28\n-NODE_179_length_197611_cov_8.217700.14\t28\n-NODE_179_length_197611_cov_8.217700.15\t28\n-NODE_179_length_197611_cov_8.217700.16\t28\n-NODE_179_length_197611_cov_8.217700.17\t28\n-NODE_179_length_197611_cov_8.217700.18\t28\n-NODE_179_length_197611_cov_8.217700.2\t28\n-NODE_179_length_197611_cov_8.217700.3\t12\n-NODE_179_length_197611_cov_8.217700.4\t28\n-NODE_179_length_197611_cov_8.217700.5\t28\n-NODE_179_length_197611_cov_8.217700.6\t28\n-NODE_179_length_197611_cov_8.217700.7\t28\n-NODE_179_length_197611_cov_8.217700.8\t28\n-NODE_179_length_197611_cov_8.217700.9\t28\n-NODE_188_length_948_cov_28.155064\t34\n-NODE_1'..b'398.3\t28\n-NODE_254_length_191233_cov_8.270398.4\t28\n-NODE_254_length_191233_cov_8.270398.5\t28\n-NODE_254_length_191233_cov_8.270398.6\t28\n-NODE_254_length_191233_cov_8.270398.7\t28\n-NODE_254_length_191233_cov_8.270398.8\t28\n-NODE_254_length_191233_cov_8.270398.9\t28\n-NODE_257_length_6277_cov_8.895651\t28\n-NODE_258_length_263280_cov_8.177872.0\t28\n-NODE_258_length_263280_cov_8.177872.1\t28\n-NODE_258_length_263280_cov_8.177872.10\t28\n-NODE_258_length_263280_cov_8.177872.11\t28\n-NODE_258_length_263280_cov_8.177872.12\t37\n-NODE_258_length_263280_cov_8.177872.13\t28\n-NODE_258_length_263280_cov_8.177872.14\t28\n-NODE_258_length_263280_cov_8.177872.15\t28\n-NODE_258_length_263280_cov_8.177872.16\t28\n-NODE_258_length_263280_cov_8.177872.17\t28\n-NODE_258_length_263280_cov_8.177872.18\t28\n-NODE_258_length_263280_cov_8.177872.19\t28\n-NODE_258_length_263280_cov_8.177872.2\t28\n-NODE_258_length_263280_cov_8.177872.20\t28\n-NODE_258_length_263280_cov_8.177872.21\t28\n-NODE_258_length_263280_cov_8.177872.22\t28\n-NODE_258_length_263280_cov_8.177872.23\t28\n-NODE_258_length_263280_cov_8.177872.24\t28\n-NODE_258_length_263280_cov_8.177872.25\t28\n-NODE_258_length_263280_cov_8.177872.3\t28\n-NODE_258_length_263280_cov_8.177872.4\t28\n-NODE_258_length_263280_cov_8.177872.5\t28\n-NODE_258_length_263280_cov_8.177872.6\t28\n-NODE_258_length_263280_cov_8.177872.7\t28\n-NODE_258_length_263280_cov_8.177872.8\t28\n-NODE_258_length_263280_cov_8.177872.9\t28\n-NODE_260_length_165083_cov_8.801846.0\t28\n-NODE_260_length_165083_cov_8.801846.1\t28\n-NODE_260_length_165083_cov_8.801846.10\t28\n-NODE_260_length_165083_cov_8.801846.11\t28\n-NODE_260_length_165083_cov_8.801846.12\t28\n-NODE_260_length_165083_cov_8.801846.13\t28\n-NODE_260_length_165083_cov_8.801846.14\t28\n-NODE_260_length_165083_cov_8.801846.15\t28\n-NODE_260_length_165083_cov_8.801846.2\t28\n-NODE_260_length_165083_cov_8.801846.3\t28\n-NODE_260_length_165083_cov_8.801846.4\t28\n-NODE_260_length_165083_cov_8.801846.5\t28\n-NODE_260_length_165083_cov_8.801846.6\t28\n-NODE_260_length_165083_cov_8.801846.7\t28\n-NODE_260_length_165083_cov_8.801846.8\t28\n-NODE_260_length_165083_cov_8.801846.9\t28\n-NODE_261_length_321461_cov_8.199894.0\t28\n-NODE_261_length_321461_cov_8.199894.1\t28\n-NODE_261_length_321461_cov_8.199894.10\t28\n-NODE_261_length_321461_cov_8.199894.11\t28\n-NODE_261_length_321461_cov_8.199894.12\t28\n-NODE_261_length_321461_cov_8.199894.13\t28\n-NODE_261_length_321461_cov_8.199894.14\t28\n-NODE_261_length_321461_cov_8.199894.15\t28\n-NODE_261_length_321461_cov_8.199894.16\t28\n-NODE_261_length_321461_cov_8.199894.17\t28\n-NODE_261_length_321461_cov_8.199894.18\t28\n-NODE_261_length_321461_cov_8.199894.19\t28\n-NODE_261_length_321461_cov_8.199894.2\t28\n-NODE_261_length_321461_cov_8.199894.20\t28\n-NODE_261_length_321461_cov_8.199894.21\t28\n-NODE_261_length_321461_cov_8.199894.22\t28\n-NODE_261_length_321461_cov_8.199894.23\t28\n-NODE_261_length_321461_cov_8.199894.24\t28\n-NODE_261_length_321461_cov_8.199894.25\t28\n-NODE_261_length_321461_cov_8.199894.26\t28\n-NODE_261_length_321461_cov_8.199894.27\t28\n-NODE_261_length_321461_cov_8.199894.28\t28\n-NODE_261_length_321461_cov_8.199894.29\t28\n-NODE_261_length_321461_cov_8.199894.3\t28\n-NODE_261_length_321461_cov_8.199894.30\t28\n-NODE_261_length_321461_cov_8.199894.31\t28\n-NODE_261_length_321461_cov_8.199894.4\t28\n-NODE_261_length_321461_cov_8.199894.5\t28\n-NODE_261_length_321461_cov_8.199894.6\t28\n-NODE_261_length_321461_cov_8.199894.7\t28\n-NODE_261_length_321461_cov_8.199894.8\t28\n-NODE_261_length_321461_cov_8.199894.9\t28\n-NODE_267_length_4676_cov_7.631737\t3\n-NODE_26_length_3431_cov_15.138152\t4\n-NODE_27_length_35477_cov_8.181526.0\t28\n-NODE_27_length_35477_cov_8.181526.1\t28\n-NODE_27_length_35477_cov_8.181526.2\t28\n-NODE_28_length_34835_cov_8.108799.0\t28\n-NODE_28_length_34835_cov_8.108799.1\t28\n-NODE_28_length_34835_cov_8.108799.2\t28\n-NODE_290_length_1962_cov_6.746177\t1\n-NODE_29_length_44540_cov_9.429951.0\t28\n-NODE_29_length_44540_cov_9.429951.1\t28\n-NODE_29_length_44540_cov_9.429951.2\t28\n-NODE_29_length_44540_cov_9.429951.3\t28\n-NODE_2_length_16156_cov_8.219856\t28\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/ten_reads.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/ten_reads.fa Thu Jul 07 08:33:11 2022 +0000 |
| b |
| @@ -0,0 +1,75 @@ +>contig-21000001_read_0 contig-21000001 9998 nucleotides +TTTCTCTCCCAGTCGTCGATCCGGTCTGTTTCAAAATAGAGCTGAAAGTTATTTGCTGCT +GTCTTTCTGTTCAGTGATTTACCGATCATTGCTTCGTAGT +>contig-21000001_read_1 contig-21000001 9998 nucleotides +GAGTCAGTCAGACGGCTGGCCCCGGAAATACCAGCAGCAATGGAGAAAATCCATCCTCCC +CGCCTGGAAGCGAAAGCAGAAATGACCAAATACCAGCGGC +>contig-21000001_read_2 contig-21000001 9998 nucleotides +TTTCAGAGAGGCTGTTTGAGTACTCCCATCCCCTGGGGGACAGAGGGCAGATTCTGGCCG +CTTCCCGGTGGCTGCAGCGGTTTGGCCTGGAGGCCAATGA +>contig-21000001_read_3 contig-21000001 9998 nucleotides +ACGATCACAAAAGGTCATTACGGCTGGCTGATTGATAAGGAGGCGGAAACGGAGGCTCTG +TTGGAAATAATCAGATCCGGTGAAAGTCAGGAGCGGGAGC +>contig-21000001_read_4 contig-21000001 9998 nucleotides +TAAAATGGTGCTGTTTCATGGATTCAACCATCTGTTCGATCTCATCCTCCATGGACAGGG +CCTGGTCGGAGGCAATGATGTGCAGATACTCCTCTTCACA +>contig-21000001_read_5 contig-21000001 9998 nucleotides +CAGTGCAGTCAGCCAGTTAAAGGATTTGATTACGGAAAATAAAGTGGTTCTTGTTAACGA +AAGTGGTTTGGACAGCAAGGTACGAGCAATCTATGATGCA +>contig-21000001_read_6 contig-21000001 9998 nucleotides +AGTGAGAAAAAAGCAAATAGATTTGCAGCAGAATTTCTTGTGGATGAATTATTGCTGAAA +CAGGAAATCGAGTTATATAAAATTAAGAAGCTTACAATAA +>contig-21000001_read_7 contig-21000001 9998 nucleotides +TGGTAGAAAAATAATTATTGATGCAGATTTATGTATCAAGTTGGGAGGAAGTAATAAGTA +TAGATATTTGCATGATGTGCTTCCTTTGATTGCAAAAGAG +>contig-21000001_read_8 contig-21000001 9998 nucleotides +TTTTCCAATGTGAAGATTGAGCCGCTGTTTGAAGAGATGGTGGATTTTGAGACTTTCTCA +AAGTCTGATTACCGTGCAGTGAAGATCAAAGACTGCGTGG +>contig-21000001_read_9 contig-21000001 9998 nucleotides +TCCACTCCTTCGATGGCCTCCAGCTTTCTCTCCCAGTCGTCGATCCGGTCTGTTTCAAAA +TAGAGCTGAAAGTTATTTGCTGCTGTCTTTCTGTTCAGTG +>contig-75000034_read_0 contig-75000034 1615 nucleotides +TTTTACCTTCATCACAAGAAAAGATAACTACGATGTCACAAAACAGACGGAGGTTATCCT +AAGGGCGGTCAAAAAGCTGGGTGTAAATGCAGAACGGACC +>contig-75000034_read_1 contig-75000034 1615 nucleotides +CAGGATTTACAGGATCTGGTCTGCGATATGATGTAGTGCTGTGCCGTCGATTCACAGACG +CGCCTGAGAGAACAGGAGGATTGGATGGAAAAACATTATG +>contig-75000034_read_2 contig-75000034 1615 nucleotides +GGAAATACGGCAGGAAGATCCCGTTCAGCGATGAAGCCGCCGCCCGTTTTACCTGGGGGG +AGGCCCAGGTGCTGGTCCATGTGGAAGAGGGGCGTGTCCG +>contig-75000034_read_3 contig-75000034 1615 nucleotides +ATTGTCCACGAGGCCCTGATGGTGGAGCCGACGGAGACGGAATCAAAGGAGAACTTAGAT +GAACTGATCGCCGTGTTCCACGAGATCTATGAGACGGCGA +>contig-75000034_read_4 contig-75000034 1615 nucleotides +ATCCCAATTTCGGCATGGAGGAGTATTTGCTTTACGATGTGGAAGAAGAGGAATGCATTC +TCTACCTGTGGCAGAATGAGAAAACCGTGGTCATAGGCAG +>contig-75000034_read_5 contig-75000034 1615 nucleotides +TACCCCTATCCCAATTTCGGCATGGAGGAGTATTTGCTTTACGATGTGGAAGAAGAGGAA +TGCATTCTCTACCTGTGGCAGAATGAGAAAACCGTGGTCA +>contig-75000034_read_6 contig-75000034 1615 nucleotides +ATCAAAGGAGAACTTAGATGAACTGATCGCCGTGTTCCACGAGATCTATGAGACGGCGAA +GCGTGATCCCGAATATATCCGGAGCTCCCCCCACATCACC +>contig-75000034_read_7 contig-75000034 1615 nucleotides +TATCTCCACACCACCGGCCTTTACCGGGAGGTGAAGAAGACAGAGGCCGCCGGCCTCCAT +ACGGAAGGCCTGCGCGTATCCATGGAGGAACTGAAGAAAC +>contig-75000034_read_8 contig-75000034 1615 nucleotides +CCTGTTTAAACTGCGGATGCATTCCTACGAAAACGTATCTCCACACCACCGGCCTTTACC +GGGAGGTGAAGAAGACAGAGGCCGCCGGCCTCCATACGGA +>contig-75000034_read_9 contig-75000034 1615 nucleotides +AAGGGCGGTCAAAAAGCTGGGTGTAAATGCAGAACGGACCGGCCGCAATGATATCACAGT +GGATGGCCGCAAGTTTTCCGGCAACGCGTACTACGAGACC +>contig-200000042_read_0 contig-200000042 1043 nucleotides +CATCCGTGGTTTCTGGCAGCAAAAGCTTCTACTGAGAGCGAATATCGCAATTACTACATA +TTCTCTCAAGACCCGGAAGCTGACATCAAGGCAGGAAAAA +>contig-200000042_read_1 contig-200000042 1043 nucleotides +ACTATGTTCGGCAGGACTGTTTACTTGACACGCAAACGTTTTCGTAGATTAACCGTGTTT +TTTCGTTACACTTGGTCTATCGGCTTCTTTTTCTTCTCTA +>contig-200000042_read_2 contig-200000042 1043 nucleotides +ACTCTCCATCCCCAACATGGCGGTTCGCGTCACTCTCCATTAAACTCGTATCGAAAATGT +GTGAAACATCACATTTCCGGTATGAAAATATGATTGACTA +>contig-200000042_read_3 contig-200000042 1043 nucleotides +ACTTCATCAGTCTGCTCTACTACTTCGGAATGCTCACCATCAGCGGCACGCACGAAGGTA +AGACAAAACTCTCCATCCCCAACATGGCGGTTCGCGTCAC +>contig-200000042_read_4 contig-200000042 1043 nucleotides +TGTGAAGGCTATCTGGCTTTCTCCTATTCATCCGTCGCCTTCGTATCATGGCTATGATGT +GACGGATTATACGAAGGTGAATCAAAAGTTTGGTACAGAG |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/ten_reads_two_contigs-s.bam |
| b |
| Binary file test-data/ten_reads_two_contigs-s.bam has changed |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/two_contigs-cut1.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/two_contigs-cut1.fasta Thu Jul 07 08:33:11 2022 +0000 |
| b |
| b'@@ -0,0 +1,24 @@\n+>contig-21000001.concoct_part_0\n+GACCATCCGGTGGAGATTTCTCCTCTGACCAAGAGAAAACCGGAGGATCCTGACTATACGGAGCGTTTTGAGCTGTTTATCACGAAGCGTGAGATGGCTAACGCTTACTCTGAGTTAAACGATCCGATTGACCAGAGACTTCGTTTTGAGGCGCAGGAAGTGTTAAAGGCCGCAGGCGATGAGGAAGCCAACTCCATGGATGAGGACTTCTTAAATGCGCTGATGATCGGTATGCCTCCGACAGGCGGCATCGGCATCGGCATCGACCGTTTCGTTATGCTGCTGACTGATTCCTATGCAATTCGTGACGTTCTGCTGTTCCCGACCATGAAGACGCTGGGCAGTTCTGATAATAGCAGGAAGGCAGAGAAGGCCGCTCCGGCCGCTGCTTCTGCTCCGGCTGCTGAGAACGTGAAAGCCGCGGTGGAGATTGATTTTTCCAATGTGAAGATTGAGCCGCTGTTTGAAGAGATGGTGGATTTTGAGACTTTCTCAAAGTCTGATTACCGTGCAGTGAAGATCAAAGACTGCGTGGCAGTGCCGAAGAGCAAGAAGCTTCTCCAGTTTACTCTGGACGATGGAAGCGGCACAGACCGCACGATTTTAAGCGGAATTCATGAGTACTACGAGCCGGAGGATCTGATTGGTAAGACAGCCATCGCCATCGTGAATCTGCCGCCAAGAAAGATGATGGGAATTGACTCCTGCGGTATGCTGATTTCAGCCGTGCATGAGGAAGACGGACATGAGGGACTGAATCTGCTGATGGTGGATGATAGGATTCCGGCGGGGGCGAAGTTGTATTAAAATACAACAAAAGAACCGTTTTTCAGGATAGTAGGAATTCAATAACAAAAGTTGTTACCCCCAATTTTGTTAACATTGAAAAATGTAGATGTGTTTGAACAGAAGTGGCGCTTACTGATATAATGATAAGAAATTAGGACTCTATGACATTAGTCATAGAGTCCTTTTTTCTGTTTTGAAATCAAATTGTTTA\n+>contig-21000001.concoct_part_1\n+GAATATGCTTGAAAGTAAACAAAATTAAACAAGAAATAGATGAATAGTAAACAAAACGTTGACCATAAAGCTTTTTAATGGTATAATAACTATCAAAGCAAAGGAGGATAAGACCATGTACGCAATGGATTTCGCTCTGGTAGGAGCTAACATACAAAATAAATTAGTTGAAAAGGAAATGACACAACAGAGTTTGGCGGATGCTCTTGGTATATCAAAGCAGGTTATGAACAAAATCATTAAAGGAAGCAAGGCGATCAATGTGAATGAGCTTGCAAGAATTGCGGATATCCTGAACACATCTGCAGATGAATTACTTACAGTTGGGACTGAACCAGCTACTGTTGACAGCCTGAGCTTTATGGGAGATGTTTACGATGAGGTTACACGGGAACGTATTAACTTCATCAGATCTGCGATTGATGAGATTCATATGCTGGAGGATTTACTGGATGACTAATGACTTAAATGAATTAGAAGTAAATGAAATAAAGAATCATGCAATAGAAAAGTTAGGACTGTGCAGAAAAGGAAATGATATTATAGGGACACAGATTTTTTCAATCCTTGGTTTGTATGCCAGAGTAATTTACTATCCTCTGGGAAAAAATGCACCTTGGGGATTTACCAGAATCAGCGGTTCTAGAAATGATGCCTCATTGGAGAAGCCATTTGTTGCCCTTAATTCTTCTATTCCGGTGGACTGCCAGGTGTTTGCAGCGGCACACGAATTATACCATATTTGGTATGAACAAAATCCGGATATGCTTCCTTCTGATTTGTTGAATGAACACGATAAAAAGACAAGTGAGAAAAAAGCAAATAGATTTGCAGCAGAATTTCTTGTGGATGAATTATTGCTGAAACAGGAAATCGAGTTATATAAAATTAAGAAGCTTACAATAAAAAGCATATTACAATTAGCAGAACTGTTTACGGTTCCATACAGGACAATGGTGAAGCGGCTGGGAGAAATTGGAGTAATTGAGGATGCGGATCT\n+>contig-21000001.concoct_part_2\n+AAATAGATTTCTCGCAGAGTCAGAGGATTCTGTTGAAAAATATAAGAAGAGATATTCCATACCATCTCAGAAATCTGATGGTCGGATTATCATGGATAACCTGGTTGAGTTAGCCGTCGCCGCTTATGAAGCCGGGTACATTACATATGAGAAACTGGAATATTTGCTGAGAATCAGTACCTTAAAGCCAGAGGATTTAGGCATTGAAAAGAAAACTGCCTGCGAATTCCCTTCTGATGATGAATTAGATCGTATTATGGAGGAATGAGTATGGTAGAAAAATAATTATTGATGCAGATTTATGTATCAAGTTGGGAGGAAGTAATAAGTATAGATATTTGCATGATGTGCTTCCTTTGATTGCAAAAGAGATTTATATGCATACACACGCCTTTGGAGAGGTGTTGATGCCTGCCAGTGCAGTCAGCCAGTTAAAGGATTTGATTACGGAAAATAAAGTGGTTCTTGTTAACGAAAGTGGTTTGGACAGCAAGGTACGAGCAATCTATGATGCAGCTTATCGTAATCTTGAGAGAGTTATGATTGATGCAACGAGACCAAACAAGAATAAAGGAGAGATGTGTTCGCTCGCATATGCAAAAGCAGCGAGCATACCTATCTTTGCAACAGATGAAAAAGACCTACAGCCTATCATTGATAAGCAATTGAATACGGGAATGGATGATATAACCTGCATAAGAATTACAGATATTATTACGAAGGCTAAGGAGGGGGAAATAGCGGTACCGAGAAAGATTGCAAAGGCACTTTGGATCGTGGCCGGAAAGAGAAAAGAAGTATTTGATAATGAGATATGGCCGGTAACGGCTGAATGATACATATGAAAGGAGCCTGTTTGGGACAAAGGAATACCGCCTTGTCCCAAACAGGCTATTACTGGAAGCAGAGGCTTCGTGGACTGCCTGGAAACGGTGATGAAGATTCATTACACCAGCATTTCAACAAACTCAACCGGATACATAGTCCGTTTGGACACTTC\n+>contig-21000001.concoct_part_3\n+CTCAACCGCTAGTCCCTGGCTGAGAAAACGCCTGATGACGCACTCCATGCTTTCTGCTGCCTCAATGATATATTTATCAAAATCATAAAACCGCATACTCCGCTGGCCCCAGGGATATTCCGTCGGGTGATGGATAAATTCCACTCCTTCGATGGCCTCCAGCTTTCTCTCCCAGTCGTCGATCCGGTCTGTTTCAAAATAGAGCTGAAAGTTATTTGCTGCTGTCTTTCTGTTCAGTGATTTACCGATCATTGCTTCGTAGTTTGCCTGCAGGCTGAGGCCATTGTCCAATGAGACGTGTTCTCCTAAATCCATGAGGACTTTTTGCTCCAGGATTGTTTCGTAAAAATATTTTGATTTTTCCATATCATCAACTATAAGCAATGTGCCTCCGTATTTCATATGGATACCTCCTCTTTTTTTCTCAATTATAGCCTAAAACTTTGCGATCGCACTGTAAAAATCGGACAAGTTGTTTCGGTATTCCTGAGGAGTAACGCCGCATACGGCCCTAAAATCCCTGATAAAGTGAGAAATATCATAAAACCCGGATTCGGCAGATATATAATCGAGGCTGTAGCTCGTATGGTGCAGCAGATAAATGGCTTTGTTGATACGCACGATTCGGGAAAAATGTTTCAGGTTAAATCCTAAATAGTGATTGGAAAGCCTGTTTAAATGACGTTCACTGTAAAATGTTTTTTCTGTTATTTCTTTGAGACTTATGTTACCGTTACTCTGAATGATCAGCTGCACGGCCAGACGGAATTCAGCCGGGTATTGGCTGCATTGGCTGCAAAGCAGCAGACTCTCGATTCTGGTCAGCAGTTCTTCCGCGGTTCC'..b'CTTTTTTCCTGACCGCGAACTTTGCATGGAATCGTATTATCAGTGGCTGGAACTCCCGGAGCATTTAACCGGAAGGCTGTGTGAGGCCGAGCTCTCCGGCAGGGGAGTCAGCGTATTCGGCGCAGAGCGCTTCTATGTTGGAAAACAGCTGAAAGCAAATGCCGTCAGAGTGGCAACCAGCTCGGCGGAAAGTGACGAACAACTCCGCCGGGGGCTGGAGGTACTGCAGAATTTTATCCGGCAGC\n+>contig-21000001.concoct_part_8\n+GGGATGCGGGGCCTTTATTCATCGTCTAGTTTTTGACCGGAATCACGATTCGTGTAATGTATTCGTCAATGGAATTGATGGTCATCTCGTTTACCCCTGTTTCGTAGGCGTATCCGAAAAGTGTGAGGCCGTGCTGCTTCGCATAGTCCAGGATTTCCGAATATCGCTGCGGAAGCCTGTCCCAGCTTCCCGTACAGTAGGCGCACAGATAGCTGCCGCTCGGCTTTTTATGGATTTCATTTACAGAAGCTGTGTGGGAAACCTTCATAAACAGGCCGTCATACTGGTCAAACTCGGAATGGAGCAGGTGGGAGACGGAGATCAGGGAGCCGTAAGTGGTATCGTGGAGACTCTTAAAATGGTGCTGTTTCATGGATTCAACCATCTGTTCGATCTCATCCTCCATGGACAGGGCCTGGTCGGAGGCAATGATGTGCAGATACTCCTCTTCACATTCGACAACGTCGATCCGGGTCAGATCGGTGTTCAGTAAATCGGTGAAGGTACCGCATTGGTCCGTCAGCATATCACGGATCGTGTTCAGCTTTTCTATTTCACGGTCCACGTCCTGAATCTTTTTATGCAGAAGCTGAACGTAGGCTTCTGCCCCACGCCTGTCTAAAAACTCTTTGATCTCAGGAATTCCCATATTCAGTTCCCGCAAAACCAGAATCGTCTCCAGCAAAGAGCTCTGATAGTAGGTGTAATAGCGGTAGCCGTTCTCTTTTACGACCGCCGGCTTGAATAAGCCGATCTCATCGTACCACATCAGAGTCTTTTTGTTGATGTTATGAAGGGCTGCAAATTGGCCGATCGTAAATAGTTTTTCTCTTTCCATAAAAAAATCCCCTTTTCCTCTTTACCGTACAGTTACTGTATGGATTATTATACAGGTAAGACAGTACAAATACAAGAAAAAAGGAGAATAGAATCATGAATTCAGAACATATTACACTGCGCCCCATCACACGAAAGGATTATCCGTTTATAGAGGATATCA\n+>contig-21000001.concoct_part_9\n+TACGCAAGACGTGGAAATACGACGCGCTGAGCAGCAATCCGAAGGATGCAAAGCATATGGCAAGGCTGTATCTGCGTTCCTGTCTGCTGCGGGCGACATTTTCCTGTGTCGCGGCTGTGGATGGAAAGGTGCTGGGAGTTATTCTGGCCGGGAGTAAAAAATCCGTTCCGAAATTCGCCCTTCGCCGCACCCTGGCTCAGCTCTGGTCCATTGCGCTGCTGTTTACAACGAAAACCGGAAGAGGAATCGGTAAATTTTTCAGTACCTTCGACCAAACGGACGAAGAACTGCTGAAAAATGCAGGAAATGCTTTTGACGCGGAAATCTGTTTCTTTGCCGTGGATGAGAGTACAAGGGGAACCGGAATCGGAAAAATGCTTTTTGCCCAGGCCCTTGATTATCTGGAACAGGAAGGGGTAAAGACCCTGTACCTCTTCACGGATTCCAGCTGTACTTACCAGTTTTACGAGAAGCGGGGAATGCAGCGGCTGGGAGAGAAGACGGTGGAATTCAGCCCCCATACAGACTACCGCCTGAATATGTTTATCTATGGCCTGGAATTGCAGGCGGCCAGTTAAGGCCGCTCTGCAATTCAGACCGCACTGCTTCGCTGCCCGCAGGCCGGCGCATCGATGACCCGGTCATACCGGTAGGCCGAGAAGATAAATCCCAGCAGAAGCATATTTACGAGGATGCTGATACTGCCCTCCGAAACCATGGGAAGATTAGTAAAGCTGCCATACTGGAAACCAAAATTCCCAAGTATATAGAGCACGCTCTGAAACAGCAGGCACAGGCCGCAGTGAAAGGACACCGCTCCGGCGAGCGCGCCGTGTATCCTTCGGATGCAGGAGAAGAGGACTGCGTAGAAGGCGGCCATAACTGCAAGAAACAGAATTCCGGCCAGCCAGCCGAACTGTAGTATGAATACGGCCAGGAGATAGTTGTTCGCGTAATGCTGGGGCAGAATGTTCCATAAAGTGACATCTGACGGATCG\n+>contig-75000034.concoct_part_0\n+CATCCGCCGACCATGTACTTCCCGCTGATTGTCCACGAGGCCCTGATGGTGGAGCCGACGGAGACGGAATCAAAGGAGAACTTAGATGAACTGATCGCCGTGTTCCACGAGATCTATGAGACGGCGAAGCGTGATCCCGAATATATCCGGAGCTCCCCCCACATCACCATGGTGAAGCGCCTGGATGAAGTAAATGCGGCCCGGAATCCGAAGCTGCATTACGCATTCGGGGAGGAAAGCGCAGAGGGGGAAGAGGCGTGATCCGCCGACTGACCCTGGCCCTGGGGCCGGGGTCATACCCCTATCCCAATTTCGGCATGGAGGAGTATTTGCTTTACGATGTGGAAGAAGAGGAATGCATTCTCTACCTGTGGCAGAATGAGAAAACCGTGGTCATAGGCAGGAATCAGAACGCATGGAAGGAGTGCCGCAGAGAGGAACTGGAGGCGGCCGGAGGTCATCTGGTGAGACGGCTGTCGGGAGGCGGCGCCGTATTCCACGACCTGGGCAATTTAAATTTTACCTTCATCACAAGAAAAGATAACTACGATGTCACAAAACAGACGGAGGTTATCCTAAGGGCGGTCAAAAAGCTGGGTGTAAATGCAGAACGGACCGGCCGCAATGATATCACAGTGGATGGCCGCAAGTTTTCCGGCAACGCGTACTACGAGACCGGGGACTTCTGCTATCATCACGGGACCATTCTGCTCTCCGTGGACAAAGAAGAGATGGCCCGCTATCTAAACGTTTCCAGGGAAAAACTGAGATCCAAAAGCGTGGATTCCGTCAAAAGCCGTGTGGCCAATTTAATCGAATTCGTACCGGATCTGACGGTTAGACGCATGAGAGACAGTCTGGAGGAAAGCTTCGGCGAGGTCTACGGCCTTCCCGCAGGCCCATTTCCTCCGGAACGGCTTTGCGAAGACGAGGTAAGGGAGCGGACGGAGCGGTTTGCCTCCTGGGAGTGGAAATACGGCAGGAAGATCCCGTTCAGCGA\n+>contig-75000034.concoct_part_1\n+TGAAGCCGCCGCCCGTTTTACCTGGGGGGAGGCCCAGGTGCTGGTCCATGTGGAAGAGGGGCGTGTCCGGGAAGGAAAGATCTGGTCCGACGCCCTGGATACGGATTTTATCAAAGCTACGGAAGACATTCTGACCGGCATGATCTGGAACAGAAAGGCAGCGGCAGACCGTTTTGCAGCCCTGTCCTGCGGCACTCCGGTTCAGGAGGCGATGCGGCAGGATTTACAGGATCTGGTCTGCGATATGATGTAGTGCTGTGCCGTCGATTCACAGACGCGCCTGAGAGAACAGGAGGATTGGATGGAAAAACATTATGATCTCGTCGTAATCGGCGCGGGGCCGGGCGGCTATATGACGGCCCTGTACGCGTCGAAGGCGGGAAAAAGAACGGCCGTGATCGAACGGTCCCATGTGGGGGGCACCTGTTTAAACTGCGGATGCATTCCTACGAAAACGTATCTCCACACCACCGGCCTTTACCGGGAGGTGAAGAAGACAGAGGCCGCCGGCCTCCATACGGAAGGCCTGCGCGTATCCATGGAGGAACTGAAGAAACGCAAAGACGCCGTGGTGGAAGAATTGCGCGCCGGCATCGAGAAGCAGCTGGCCGCCGC\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/two_contigs-cut2-coverage.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/two_contigs-cut2-coverage.tabular Thu Jul 07 08:33:11 2022 +0000 |
| b |
| @@ -0,0 +1,11 @@ +contig cov_mean_sample_ten_reads_two_contigs-s +contig-21000001.concoct_part_0 0.100 +contig-21000001.concoct_part_1 0.100 +contig-21000001.concoct_part_2 0.200 +contig-21000001.concoct_part_3 0.200 +contig-21000001.concoct_part_4 0.000 +contig-21000001.concoct_part_5 0.100 +contig-21000001.concoct_part_6 0.100 +contig-21000001.concoct_part_7 0.100 +contig-21000001.concoct_part_8 0.050 +contig-75000034.concoct_part_0 0.619 |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/two_contigs-cut2.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/two_contigs-cut2.bed Thu Jul 07 08:33:11 2022 +0000 |
| b |
| @@ -0,0 +1,10 @@ +contig-21000001 0 1000 contig-21000001.concoct_part_0 +contig-21000001 1000 2000 contig-21000001.concoct_part_1 +contig-21000001 2000 3000 contig-21000001.concoct_part_2 +contig-21000001 3000 4000 contig-21000001.concoct_part_3 +contig-21000001 4000 5000 contig-21000001.concoct_part_4 +contig-21000001 5000 6000 contig-21000001.concoct_part_5 +contig-21000001 6000 7000 contig-21000001.concoct_part_6 +contig-21000001 7000 8000 contig-21000001.concoct_part_7 +contig-21000001 8000 9998 contig-21000001.concoct_part_8 +contig-75000034 0 1615 contig-75000034.concoct_part_0 |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/two_contigs-cut2.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/two_contigs-cut2.fasta Thu Jul 07 08:33:11 2022 +0000 |
| b |
| b'@@ -0,0 +1,20 @@\n+>contig-21000001.concoct_part_0\n+GACCATCCGGTGGAGATTTCTCCTCTGACCAAGAGAAAACCGGAGGATCCTGACTATACGGAGCGTTTTGAGCTGTTTATCACGAAGCGTGAGATGGCTAACGCTTACTCTGAGTTAAACGATCCGATTGACCAGAGACTTCGTTTTGAGGCGCAGGAAGTGTTAAAGGCCGCAGGCGATGAGGAAGCCAACTCCATGGATGAGGACTTCTTAAATGCGCTGATGATCGGTATGCCTCCGACAGGCGGCATCGGCATCGGCATCGACCGTTTCGTTATGCTGCTGACTGATTCCTATGCAATTCGTGACGTTCTGCTGTTCCCGACCATGAAGACGCTGGGCAGTTCTGATAATAGCAGGAAGGCAGAGAAGGCCGCTCCGGCCGCTGCTTCTGCTCCGGCTGCTGAGAACGTGAAAGCCGCGGTGGAGATTGATTTTTCCAATGTGAAGATTGAGCCGCTGTTTGAAGAGATGGTGGATTTTGAGACTTTCTCAAAGTCTGATTACCGTGCAGTGAAGATCAAAGACTGCGTGGCAGTGCCGAAGAGCAAGAAGCTTCTCCAGTTTACTCTGGACGATGGAAGCGGCACAGACCGCACGATTTTAAGCGGAATTCATGAGTACTACGAGCCGGAGGATCTGATTGGTAAGACAGCCATCGCCATCGTGAATCTGCCGCCAAGAAAGATGATGGGAATTGACTCCTGCGGTATGCTGATTTCAGCCGTGCATGAGGAAGACGGACATGAGGGACTGAATCTGCTGATGGTGGATGATAGGATTCCGGCGGGGGCGAAGTTGTATTAAAATACAACAAAAGAACCGTTTTTCAGGATAGTAGGAATTCAATAACAAAAGTTGTTACCCCCAATTTTGTTAACATTGAAAAATGTAGATGTGTTTGAACAGAAGTGGCGCTTACTGATATAATGATAAGAAATTAGGACTCTATGACATTAGTCATAGAGTCCTTTTTTCTGTTTTGAAATCAAATTGTTTA\n+>contig-21000001.concoct_part_1\n+GAATATGCTTGAAAGTAAACAAAATTAAACAAGAAATAGATGAATAGTAAACAAAACGTTGACCATAAAGCTTTTTAATGGTATAATAACTATCAAAGCAAAGGAGGATAAGACCATGTACGCAATGGATTTCGCTCTGGTAGGAGCTAACATACAAAATAAATTAGTTGAAAAGGAAATGACACAACAGAGTTTGGCGGATGCTCTTGGTATATCAAAGCAGGTTATGAACAAAATCATTAAAGGAAGCAAGGCGATCAATGTGAATGAGCTTGCAAGAATTGCGGATATCCTGAACACATCTGCAGATGAATTACTTACAGTTGGGACTGAACCAGCTACTGTTGACAGCCTGAGCTTTATGGGAGATGTTTACGATGAGGTTACACGGGAACGTATTAACTTCATCAGATCTGCGATTGATGAGATTCATATGCTGGAGGATTTACTGGATGACTAATGACTTAAATGAATTAGAAGTAAATGAAATAAAGAATCATGCAATAGAAAAGTTAGGACTGTGCAGAAAAGGAAATGATATTATAGGGACACAGATTTTTTCAATCCTTGGTTTGTATGCCAGAGTAATTTACTATCCTCTGGGAAAAAATGCACCTTGGGGATTTACCAGAATCAGCGGTTCTAGAAATGATGCCTCATTGGAGAAGCCATTTGTTGCCCTTAATTCTTCTATTCCGGTGGACTGCCAGGTGTTTGCAGCGGCACACGAATTATACCATATTTGGTATGAACAAAATCCGGATATGCTTCCTTCTGATTTGTTGAATGAACACGATAAAAAGACAAGTGAGAAAAAAGCAAATAGATTTGCAGCAGAATTTCTTGTGGATGAATTATTGCTGAAACAGGAAATCGAGTTATATAAAATTAAGAAGCTTACAATAAAAAGCATATTACAATTAGCAGAACTGTTTACGGTTCCATACAGGACAATGGTGAAGCGGCTGGGAGAAATTGGAGTAATTGAGGATGCGGATCT\n+>contig-21000001.concoct_part_2\n+AAATAGATTTCTCGCAGAGTCAGAGGATTCTGTTGAAAAATATAAGAAGAGATATTCCATACCATCTCAGAAATCTGATGGTCGGATTATCATGGATAACCTGGTTGAGTTAGCCGTCGCCGCTTATGAAGCCGGGTACATTACATATGAGAAACTGGAATATTTGCTGAGAATCAGTACCTTAAAGCCAGAGGATTTAGGCATTGAAAAGAAAACTGCCTGCGAATTCCCTTCTGATGATGAATTAGATCGTATTATGGAGGAATGAGTATGGTAGAAAAATAATTATTGATGCAGATTTATGTATCAAGTTGGGAGGAAGTAATAAGTATAGATATTTGCATGATGTGCTTCCTTTGATTGCAAAAGAGATTTATATGCATACACACGCCTTTGGAGAGGTGTTGATGCCTGCCAGTGCAGTCAGCCAGTTAAAGGATTTGATTACGGAAAATAAAGTGGTTCTTGTTAACGAAAGTGGTTTGGACAGCAAGGTACGAGCAATCTATGATGCAGCTTATCGTAATCTTGAGAGAGTTATGATTGATGCAACGAGACCAAACAAGAATAAAGGAGAGATGTGTTCGCTCGCATATGCAAAAGCAGCGAGCATACCTATCTTTGCAACAGATGAAAAAGACCTACAGCCTATCATTGATAAGCAATTGAATACGGGAATGGATGATATAACCTGCATAAGAATTACAGATATTATTACGAAGGCTAAGGAGGGGGAAATAGCGGTACCGAGAAAGATTGCAAAGGCACTTTGGATCGTGGCCGGAAAGAGAAAAGAAGTATTTGATAATGAGATATGGCCGGTAACGGCTGAATGATACATATGAAAGGAGCCTGTTTGGGACAAAGGAATACCGCCTTGTCCCAAACAGGCTATTACTGGAAGCAGAGGCTTCGTGGACTGCCTGGAAACGGTGATGAAGATTCATTACACCAGCATTTCAACAAACTCAACCGGATACATAGTCCGTTTGGACACTTC\n+>contig-21000001.concoct_part_3\n+CTCAACCGCTAGTCCCTGGCTGAGAAAACGCCTGATGACGCACTCCATGCTTTCTGCTGCCTCAATGATATATTTATCAAAATCATAAAACCGCATACTCCGCTGGCCCCAGGGATATTCCGTCGGGTGATGGATAAATTCCACTCCTTCGATGGCCTCCAGCTTTCTCTCCCAGTCGTCGATCCGGTCTGTTTCAAAATAGAGCTGAAAGTTATTTGCTGCTGTCTTTCTGTTCAGTGATTTACCGATCATTGCTTCGTAGTTTGCCTGCAGGCTGAGGCCATTGTCCAATGAGACGTGTTCTCCTAAATCCATGAGGACTTTTTGCTCCAGGATTGTTTCGTAAAAATATTTTGATTTTTCCATATCATCAACTATAAGCAATGTGCCTCCGTATTTCATATGGATACCTCCTCTTTTTTTCTCAATTATAGCCTAAAACTTTGCGATCGCACTGTAAAAATCGGACAAGTTGTTTCGGTATTCCTGAGGAGTAACGCCGCATACGGCCCTAAAATCCCTGATAAAGTGAGAAATATCATAAAACCCGGATTCGGCAGATATATAATCGAGGCTGTAGCTCGTATGGTGCAGCAGATAAATGGCTTTGTTGATACGCACGATTCGGGAAAAATGTTTCAGGTTAAATCCTAAATAGTGATTGGAAAGCCTGTTTAAATGACGTTCACTGTAAAATGTTTTTTCTGTTATTTCTTTGAGACTTATGTTACCGTTACTCTGAATGATCAGCTGCACGGCCAGACGGAATTCAGCCGGGTATTGGCTGCATTGGCTGCAAAGCAGCAGACTCTCGATTCTGGTCAGCAGTTCTTCCGCGGTTCC'..b'GCGGCCTGGCGTGGAAAATCATACAGAAAAAGAGAGCGGCGGCCGCGGAGCGCAATCAGATTTATGCCTCCTTTTTTCCTGACCGCGAACTTTGCATGGAATCGTATTATCAGTGGCTGGAACTCCCGGAGCATTTAACCGGAAGGCTGTGTGAGGCCGAGCTCTCCGGCAGGGGAGTCAGCGTATTCGGCGCAGAGCGCTTCTATGTTGGAAAACAGCTGAAAGCAAATGCCGTCAGAGTGGCAACCAGCTCGGCGGAAAGTGACGAACAACTCCGCCGGGGGCTGGAGGTACTGCAGAATTTTATCCGGCAGC\n+>contig-21000001.concoct_part_8\n+GGGATGCGGGGCCTTTATTCATCGTCTAGTTTTTGACCGGAATCACGATTCGTGTAATGTATTCGTCAATGGAATTGATGGTCATCTCGTTTACCCCTGTTTCGTAGGCGTATCCGAAAAGTGTGAGGCCGTGCTGCTTCGCATAGTCCAGGATTTCCGAATATCGCTGCGGAAGCCTGTCCCAGCTTCCCGTACAGTAGGCGCACAGATAGCTGCCGCTCGGCTTTTTATGGATTTCATTTACAGAAGCTGTGTGGGAAACCTTCATAAACAGGCCGTCATACTGGTCAAACTCGGAATGGAGCAGGTGGGAGACGGAGATCAGGGAGCCGTAAGTGGTATCGTGGAGACTCTTAAAATGGTGCTGTTTCATGGATTCAACCATCTGTTCGATCTCATCCTCCATGGACAGGGCCTGGTCGGAGGCAATGATGTGCAGATACTCCTCTTCACATTCGACAACGTCGATCCGGGTCAGATCGGTGTTCAGTAAATCGGTGAAGGTACCGCATTGGTCCGTCAGCATATCACGGATCGTGTTCAGCTTTTCTATTTCACGGTCCACGTCCTGAATCTTTTTATGCAGAAGCTGAACGTAGGCTTCTGCCCCACGCCTGTCTAAAAACTCTTTGATCTCAGGAATTCCCATATTCAGTTCCCGCAAAACCAGAATCGTCTCCAGCAAAGAGCTCTGATAGTAGGTGTAATAGCGGTAGCCGTTCTCTTTTACGACCGCCGGCTTGAATAAGCCGATCTCATCGTACCACATCAGAGTCTTTTTGTTGATGTTATGAAGGGCTGCAAATTGGCCGATCGTAAATAGTTTTTCTCTTTCCATAAAAAAATCCCCTTTTCCTCTTTACCGTACAGTTACTGTATGGATTATTATACAGGTAAGACAGTACAAATACAAGAAAAAAGGAGAATAGAATCATGAATTCAGAACATATTACACTGCGCCCCATCACACGAAAGGATTATCCGTTTATAGAGGATATCATACGCAAGACGTGGAAATACGACGCGCTGAGCAGCAATCCGAAGGATGCAAAGCATATGGCAAGGCTGTATCTGCGTTCCTGTCTGCTGCGGGCGACATTTTCCTGTGTCGCGGCTGTGGATGGAAAGGTGCTGGGAGTTATTCTGGCCGGGAGTAAAAAATCCGTTCCGAAATTCGCCCTTCGCCGCACCCTGGCTCAGCTCTGGTCCATTGCGCTGCTGTTTACAACGAAAACCGGAAGAGGAATCGGTAAATTTTTCAGTACCTTCGACCAAACGGACGAAGAACTGCTGAAAAATGCAGGAAATGCTTTTGACGCGGAAATCTGTTTCTTTGCCGTGGATGAGAGTACAAGGGGAACCGGAATCGGAAAAATGCTTTTTGCCCAGGCCCTTGATTATCTGGAACAGGAAGGGGTAAAGACCCTGTACCTCTTCACGGATTCCAGCTGTACTTACCAGTTTTACGAGAAGCGGGGAATGCAGCGGCTGGGAGAGAAGACGGTGGAATTCAGCCCCCATACAGACTACCGCCTGAATATGTTTATCTATGGCCTGGAATTGCAGGCGGCCAGTTAAGGCCGCTCTGCAATTCAGACCGCACTGCTTCGCTGCCCGCAGGCCGGCGCATCGATGACCCGGTCATACCGGTAGGCCGAGAAGATAAATCCCAGCAGAAGCATATTTACGAGGATGCTGATACTGCCCTCCGAAACCATGGGAAGATTAGTAAAGCTGCCATACTGGAAACCAAAATTCCCAAGTATATAGAGCACGCTCTGAAACAGCAGGCACAGGCCGCAGTGAAAGGACACCGCTCCGGCGAGCGCGCCGTGTATCCTTCGGATGCAGGAGAAGAGGACTGCGTAGAAGGCGGCCATAACTGCAAGAAACAGAATTCCGGCCAGCCAGCCGAACTGTAGTATGAATACGGCCAGGAGATAGTTGTTCGCGTAATGCTGGGGCAGAATGTTCCATAAAGTGACATCTGACGGATCG\n+>contig-75000034.concoct_part_0\n+CATCCGCCGACCATGTACTTCCCGCTGATTGTCCACGAGGCCCTGATGGTGGAGCCGACGGAGACGGAATCAAAGGAGAACTTAGATGAACTGATCGCCGTGTTCCACGAGATCTATGAGACGGCGAAGCGTGATCCCGAATATATCCGGAGCTCCCCCCACATCACCATGGTGAAGCGCCTGGATGAAGTAAATGCGGCCCGGAATCCGAAGCTGCATTACGCATTCGGGGAGGAAAGCGCAGAGGGGGAAGAGGCGTGATCCGCCGACTGACCCTGGCCCTGGGGCCGGGGTCATACCCCTATCCCAATTTCGGCATGGAGGAGTATTTGCTTTACGATGTGGAAGAAGAGGAATGCATTCTCTACCTGTGGCAGAATGAGAAAACCGTGGTCATAGGCAGGAATCAGAACGCATGGAAGGAGTGCCGCAGAGAGGAACTGGAGGCGGCCGGAGGTCATCTGGTGAGACGGCTGTCGGGAGGCGGCGCCGTATTCCACGACCTGGGCAATTTAAATTTTACCTTCATCACAAGAAAAGATAACTACGATGTCACAAAACAGACGGAGGTTATCCTAAGGGCGGTCAAAAAGCTGGGTGTAAATGCAGAACGGACCGGCCGCAATGATATCACAGTGGATGGCCGCAAGTTTTCCGGCAACGCGTACTACGAGACCGGGGACTTCTGCTATCATCACGGGACCATTCTGCTCTCCGTGGACAAAGAAGAGATGGCCCGCTATCTAAACGTTTCCAGGGAAAAACTGAGATCCAAAAGCGTGGATTCCGTCAAAAGCCGTGTGGCCAATTTAATCGAATTCGTACCGGATCTGACGGTTAGACGCATGAGAGACAGTCTGGAGGAAAGCTTCGGCGAGGTCTACGGCCTTCCCGCAGGCCCATTTCCTCCGGAACGGCTTTGCGAAGACGAGGTAAGGGAGCGGACGGAGCGGTTTGCCTCCTGGGAGTGGAAATACGGCAGGAAGATCCCGTTCAGCGATGAAGCCGCCGCCCGTTTTACCTGGGGGGAGGCCCAGGTGCTGGTCCATGTGGAAGAGGGGCGTGTCCGGGAAGGAAAGATCTGGTCCGACGCCCTGGATACGGATTTTATCAAAGCTACGGAAGACATTCTGACCGGCATGATCTGGAACAGAAAGGCAGCGGCAGACCGTTTTGCAGCCCTGTCCTGCGGCACTCCGGTTCAGGAGGCGATGCGGCAGGATTTACAGGATCTGGTCTGCGATATGATGTAGTGCTGTGCCGTCGATTCACAGACGCGCCTGAGAGAACAGGAGGATTGGATGGAAAAACATTATGATCTCGTCGTAATCGGCGCGGGGCCGGGCGGCTATATGACGGCCCTGTACGCGTCGAAGGCGGGAAAAAGAACGGCCGTGATCGAACGGTCCCATGTGGGGGGCACCTGTTTAAACTGCGGATGCATTCCTACGAAAACGTATCTCCACACCACCGGCCTTTACCGGGAGGTGAAGAAGACAGAGGCCGCCGGCCTCCATACGGAAGGCCTGCGCGTATCCATGGAGGAACTGAAGAAACGCAAAGACGCCGTGGTGGAAGAATTGCGCGCCGGCATCGAGAAGCAGCTGGCCGCCGC\n' |
| b |
| diff -r 92a2d9109528 -r bcd8d64f82b7 test-data/two_contigs.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/two_contigs.fa Thu Jul 07 08:33:11 2022 +0000 |
| b |
| b'@@ -0,0 +1,196 @@\n+>contig-21000001 9998 nucleotides\n+GACCATCCGGTGGAGATTTCTCCTCTGACCAAGAGAAAACCGGAGGATCCTGACTATACG\n+GAGCGTTTTGAGCTGTTTATCACGAAGCGTGAGATGGCTAACGCTTACTCTGAGTTAAAC\n+GATCCGATTGACCAGAGACTTCGTTTTGAGGCGCAGGAAGTGTTAAAGGCCGCAGGCGAT\n+GAGGAAGCCAACTCCATGGATGAGGACTTCTTAAATGCGCTGATGATCGGTATGCCTCCG\n+ACAGGCGGCATCGGCATCGGCATCGACCGTTTCGTTATGCTGCTGACTGATTCCTATGCA\n+ATTCGTGACGTTCTGCTGTTCCCGACCATGAAGACGCTGGGCAGTTCTGATAATAGCAGG\n+AAGGCAGAGAAGGCCGCTCCGGCCGCTGCTTCTGCTCCGGCTGCTGAGAACGTGAAAGCC\n+GCGGTGGAGATTGATTTTTCCAATGTGAAGATTGAGCCGCTGTTTGAAGAGATGGTGGAT\n+TTTGAGACTTTCTCAAAGTCTGATTACCGTGCAGTGAAGATCAAAGACTGCGTGGCAGTG\n+CCGAAGAGCAAGAAGCTTCTCCAGTTTACTCTGGACGATGGAAGCGGCACAGACCGCACG\n+ATTTTAAGCGGAATTCATGAGTACTACGAGCCGGAGGATCTGATTGGTAAGACAGCCATC\n+GCCATCGTGAATCTGCCGCCAAGAAAGATGATGGGAATTGACTCCTGCGGTATGCTGATT\n+TCAGCCGTGCATGAGGAAGACGGACATGAGGGACTGAATCTGCTGATGGTGGATGATAGG\n+ATTCCGGCGGGGGCGAAGTTGTATTAAAATACAACAAAAGAACCGTTTTTCAGGATAGTA\n+GGAATTCAATAACAAAAGTTGTTACCCCCAATTTTGTTAACATTGAAAAATGTAGATGTG\n+TTTGAACAGAAGTGGCGCTTACTGATATAATGATAAGAAATTAGGACTCTATGACATTAG\n+TCATAGAGTCCTTTTTTCTGTTTTGAAATCAAATTGTTTAGAATATGCTTGAAAGTAAAC\n+AAAATTAAACAAGAAATAGATGAATAGTAAACAAAACGTTGACCATAAAGCTTTTTAATG\n+GTATAATAACTATCAAAGCAAAGGAGGATAAGACCATGTACGCAATGGATTTCGCTCTGG\n+TAGGAGCTAACATACAAAATAAATTAGTTGAAAAGGAAATGACACAACAGAGTTTGGCGG\n+ATGCTCTTGGTATATCAAAGCAGGTTATGAACAAAATCATTAAAGGAAGCAAGGCGATCA\n+ATGTGAATGAGCTTGCAAGAATTGCGGATATCCTGAACACATCTGCAGATGAATTACTTA\n+CAGTTGGGACTGAACCAGCTACTGTTGACAGCCTGAGCTTTATGGGAGATGTTTACGATG\n+AGGTTACACGGGAACGTATTAACTTCATCAGATCTGCGATTGATGAGATTCATATGCTGG\n+AGGATTTACTGGATGACTAATGACTTAAATGAATTAGAAGTAAATGAAATAAAGAATCAT\n+GCAATAGAAAAGTTAGGACTGTGCAGAAAAGGAAATGATATTATAGGGACACAGATTTTT\n+TCAATCCTTGGTTTGTATGCCAGAGTAATTTACTATCCTCTGGGAAAAAATGCACCTTGG\n+GGATTTACCAGAATCAGCGGTTCTAGAAATGATGCCTCATTGGAGAAGCCATTTGTTGCC\n+CTTAATTCTTCTATTCCGGTGGACTGCCAGGTGTTTGCAGCGGCACACGAATTATACCAT\n+ATTTGGTATGAACAAAATCCGGATATGCTTCCTTCTGATTTGTTGAATGAACACGATAAA\n+AAGACAAGTGAGAAAAAAGCAAATAGATTTGCAGCAGAATTTCTTGTGGATGAATTATTG\n+CTGAAACAGGAAATCGAGTTATATAAAATTAAGAAGCTTACAATAAAAAGCATATTACAA\n+TTAGCAGAACTGTTTACGGTTCCATACAGGACAATGGTGAAGCGGCTGGGAGAAATTGGA\n+GTAATTGAGGATGCGGATCTAAATAGATTTCTCGCAGAGTCAGAGGATTCTGTTGAAAAA\n+TATAAGAAGAGATATTCCATACCATCTCAGAAATCTGATGGTCGGATTATCATGGATAAC\n+CTGGTTGAGTTAGCCGTCGCCGCTTATGAAGCCGGGTACATTACATATGAGAAACTGGAA\n+TATTTGCTGAGAATCAGTACCTTAAAGCCAGAGGATTTAGGCATTGAAAAGAAAACTGCC\n+TGCGAATTCCCTTCTGATGATGAATTAGATCGTATTATGGAGGAATGAGTATGGTAGAAA\n+AATAATTATTGATGCAGATTTATGTATCAAGTTGGGAGGAAGTAATAAGTATAGATATTT\n+GCATGATGTGCTTCCTTTGATTGCAAAAGAGATTTATATGCATACACACGCCTTTGGAGA\n+GGTGTTGATGCCTGCCAGTGCAGTCAGCCAGTTAAAGGATTTGATTACGGAAAATAAAGT\n+GGTTCTTGTTAACGAAAGTGGTTTGGACAGCAAGGTACGAGCAATCTATGATGCAGCTTA\n+TCGTAATCTTGAGAGAGTTATGATTGATGCAACGAGACCAAACAAGAATAAAGGAGAGAT\n+GTGTTCGCTCGCATATGCAAAAGCAGCGAGCATACCTATCTTTGCAACAGATGAAAAAGA\n+CCTACAGCCTATCATTGATAAGCAATTGAATACGGGAATGGATGATATAACCTGCATAAG\n+AATTACAGATATTATTACGAAGGCTAAGGAGGGGGAAATAGCGGTACCGAGAAAGATTGC\n+AAAGGCACTTTGGATCGTGGCCGGAAAGAGAAAAGAAGTATTTGATAATGAGATATGGCC\n+GGTAACGGCTGAATGATACATATGAAAGGAGCCTGTTTGGGACAAAGGAATACCGCCTTG\n+TCCCAAACAGGCTATTACTGGAAGCAGAGGCTTCGTGGACTGCCTGGAAACGGTGATGAA\n+GATTCATTACACCAGCATTTCAACAAACTCAACCGGATACATAGTCCGTTTGGACACTTC\n+CTCAACCGCTAGTCCCTGGCTGAGAAAACGCCTGATGACGCACTCCATGCTTTCTGCTGC\n+CTCAATGATATATTTATCAAAATCATAAAACCGCATACTCCGCTGGCCCCAGGGATATTC\n+CGTCGGGTGATGGATAAATTCCACTCCTTCGATGGCCTCCAGCTTTCTCTCCCAGTCGTC\n+GATCCGGTCTGTTTCAAAATAGAGCTGAAAGTTATTTGCTGCTGTCTTTCTGTTCAGTGA\n+TTTACCGATCATTGCTTCGTAGTTTGCCTGCAGGCTGAGGCCATTGTCCAATGAGACGTG\n+TTCTCCTAAATCCATGAGGACTTTTTGCTCCAGGATTGTTTCGTAAAAATATTTTGATTT\n+TTCCATATCATCAACTATAAGCAATGTGCCTCCGTATTTCATATGGATACCTCCTCTTTT\n+TTTCTCAATTATAGCCTAAAACTTTGCGATCGCACTGTAAAAATCGGACAAGTTGTTTCG\n+GTATTCCTGAGGAGTAACGCCGCATACGGCCCTAAAATCCCTGATAAAGTGAGAAATATC\n+ATAAAACCCGGATTCGGCAGATATATAATCGAGGCTGTAGCTCGTATGGTGCAGCAGATA\n+AATGGCTTTGTTGATACGCACGATTCGGGAAAAATGTTTCAGGTTAAATCCTAAATAGTG\n+ATTGGAAAGCCTGTTTAAATGACGTTCACTGTAAAATGTTTTTTCTGTTATTTCTTTGAG\n+ACTTATGTTACCGTTACTCTGAATGATCAGCTGCACGGCCAGACGGAATTCAGCCGGGTA\n+TTGGCTGCATTGGCTGCAAAGCAGCAGACTCTCGATTCT'..b'GCATGGAATCGTATTATCAGTG\n+GCTGGAACTCCCGGAGCATTTAACCGGAAGGCTGTGTGAGGCCGAGCTCTCCGGCAGGGG\n+AGTCAGCGTATTCGGCGCAGAGCGCTTCTATGTTGGAAAACAGCTGAAAGCAAATGCCGT\n+CAGAGTGGCAACCAGCTCGGCGGAAAGTGACGAACAACTCCGCCGGGGGCTGGAGGTACT\n+GCAGAATTTTATCCGGCAGCGGGATGCGGGGCCTTTATTCATCGTCTAGTTTTTGACCGG\n+AATCACGATTCGTGTAATGTATTCGTCAATGGAATTGATGGTCATCTCGTTTACCCCTGT\n+TTCGTAGGCGTATCCGAAAAGTGTGAGGCCGTGCTGCTTCGCATAGTCCAGGATTTCCGA\n+ATATCGCTGCGGAAGCCTGTCCCAGCTTCCCGTACAGTAGGCGCACAGATAGCTGCCGCT\n+CGGCTTTTTATGGATTTCATTTACAGAAGCTGTGTGGGAAACCTTCATAAACAGGCCGTC\n+ATACTGGTCAAACTCGGAATGGAGCAGGTGGGAGACGGAGATCAGGGAGCCGTAAGTGGT\n+ATCGTGGAGACTCTTAAAATGGTGCTGTTTCATGGATTCAACCATCTGTTCGATCTCATC\n+CTCCATGGACAGGGCCTGGTCGGAGGCAATGATGTGCAGATACTCCTCTTCACATTCGAC\n+AACGTCGATCCGGGTCAGATCGGTGTTCAGTAAATCGGTGAAGGTACCGCATTGGTCCGT\n+CAGCATATCACGGATCGTGTTCAGCTTTTCTATTTCACGGTCCACGTCCTGAATCTTTTT\n+ATGCAGAAGCTGAACGTAGGCTTCTGCCCCACGCCTGTCTAAAAACTCTTTGATCTCAGG\n+AATTCCCATATTCAGTTCCCGCAAAACCAGAATCGTCTCCAGCAAAGAGCTCTGATAGTA\n+GGTGTAATAGCGGTAGCCGTTCTCTTTTACGACCGCCGGCTTGAATAAGCCGATCTCATC\n+GTACCACATCAGAGTCTTTTTGTTGATGTTATGAAGGGCTGCAAATTGGCCGATCGTAAA\n+TAGTTTTTCTCTTTCCATAAAAAAATCCCCTTTTCCTCTTTACCGTACAGTTACTGTATG\n+GATTATTATACAGGTAAGACAGTACAAATACAAGAAAAAAGGAGAATAGAATCATGAATT\n+CAGAACATATTACACTGCGCCCCATCACACGAAAGGATTATCCGTTTATAGAGGATATCA\n+TACGCAAGACGTGGAAATACGACGCGCTGAGCAGCAATCCGAAGGATGCAAAGCATATGG\n+CAAGGCTGTATCTGCGTTCCTGTCTGCTGCGGGCGACATTTTCCTGTGTCGCGGCTGTGG\n+ATGGAAAGGTGCTGGGAGTTATTCTGGCCGGGAGTAAAAAATCCGTTCCGAAATTCGCCC\n+TTCGCCGCACCCTGGCTCAGCTCTGGTCCATTGCGCTGCTGTTTACAACGAAAACCGGAA\n+GAGGAATCGGTAAATTTTTCAGTACCTTCGACCAAACGGACGAAGAACTGCTGAAAAATG\n+CAGGAAATGCTTTTGACGCGGAAATCTGTTTCTTTGCCGTGGATGAGAGTACAAGGGGAA\n+CCGGAATCGGAAAAATGCTTTTTGCCCAGGCCCTTGATTATCTGGAACAGGAAGGGGTAA\n+AGACCCTGTACCTCTTCACGGATTCCAGCTGTACTTACCAGTTTTACGAGAAGCGGGGAA\n+TGCAGCGGCTGGGAGAGAAGACGGTGGAATTCAGCCCCCATACAGACTACCGCCTGAATA\n+TGTTTATCTATGGCCTGGAATTGCAGGCGGCCAGTTAAGGCCGCTCTGCAATTCAGACCG\n+CACTGCTTCGCTGCCCGCAGGCCGGCGCATCGATGACCCGGTCATACCGGTAGGCCGAGA\n+AGATAAATCCCAGCAGAAGCATATTTACGAGGATGCTGATACTGCCCTCCGAAACCATGG\n+GAAGATTAGTAAAGCTGCCATACTGGAAACCAAAATTCCCAAGTATATAGAGCACGCTCT\n+GAAACAGCAGGCACAGGCCGCAGTGAAAGGACACCGCTCCGGCGAGCGCGCCGTGTATCC\n+TTCGGATGCAGGAGAAGAGGACTGCGTAGAAGGCGGCCATAACTGCAAGAAACAGAATTC\n+CGGCCAGCCAGCCGAACTGTAGTATGAATACGGCCAGGAGATAGTTGTTCGCGTAATGCT\n+GGGGCAGAATGTTCCATAAAGTGACATCTGACGGATCG\n+>contig-75000034 1615 nucleotides\n+CATCCGCCGACCATGTACTTCCCGCTGATTGTCCACGAGGCCCTGATGGTGGAGCCGACG\n+GAGACGGAATCAAAGGAGAACTTAGATGAACTGATCGCCGTGTTCCACGAGATCTATGAG\n+ACGGCGAAGCGTGATCCCGAATATATCCGGAGCTCCCCCCACATCACCATGGTGAAGCGC\n+CTGGATGAAGTAAATGCGGCCCGGAATCCGAAGCTGCATTACGCATTCGGGGAGGAAAGC\n+GCAGAGGGGGAAGAGGCGTGATCCGCCGACTGACCCTGGCCCTGGGGCCGGGGTCATACC\n+CCTATCCCAATTTCGGCATGGAGGAGTATTTGCTTTACGATGTGGAAGAAGAGGAATGCA\n+TTCTCTACCTGTGGCAGAATGAGAAAACCGTGGTCATAGGCAGGAATCAGAACGCATGGA\n+AGGAGTGCCGCAGAGAGGAACTGGAGGCGGCCGGAGGTCATCTGGTGAGACGGCTGTCGG\n+GAGGCGGCGCCGTATTCCACGACCTGGGCAATTTAAATTTTACCTTCATCACAAGAAAAG\n+ATAACTACGATGTCACAAAACAGACGGAGGTTATCCTAAGGGCGGTCAAAAAGCTGGGTG\n+TAAATGCAGAACGGACCGGCCGCAATGATATCACAGTGGATGGCCGCAAGTTTTCCGGCA\n+ACGCGTACTACGAGACCGGGGACTTCTGCTATCATCACGGGACCATTCTGCTCTCCGTGG\n+ACAAAGAAGAGATGGCCCGCTATCTAAACGTTTCCAGGGAAAAACTGAGATCCAAAAGCG\n+TGGATTCCGTCAAAAGCCGTGTGGCCAATTTAATCGAATTCGTACCGGATCTGACGGTTA\n+GACGCATGAGAGACAGTCTGGAGGAAAGCTTCGGCGAGGTCTACGGCCTTCCCGCAGGCC\n+CATTTCCTCCGGAACGGCTTTGCGAAGACGAGGTAAGGGAGCGGACGGAGCGGTTTGCCT\n+CCTGGGAGTGGAAATACGGCAGGAAGATCCCGTTCAGCGATGAAGCCGCCGCCCGTTTTA\n+CCTGGGGGGAGGCCCAGGTGCTGGTCCATGTGGAAGAGGGGCGTGTCCGGGAAGGAAAGA\n+TCTGGTCCGACGCCCTGGATACGGATTTTATCAAAGCTACGGAAGACATTCTGACCGGCA\n+TGATCTGGAACAGAAAGGCAGCGGCAGACCGTTTTGCAGCCCTGTCCTGCGGCACTCCGG\n+TTCAGGAGGCGATGCGGCAGGATTTACAGGATCTGGTCTGCGATATGATGTAGTGCTGTG\n+CCGTCGATTCACAGACGCGCCTGAGAGAACAGGAGGATTGGATGGAAAAACATTATGATC\n+TCGTCGTAATCGGCGCGGGGCCGGGCGGCTATATGACGGCCCTGTACGCGTCGAAGGCGG\n+GAAAAAGAACGGCCGTGATCGAACGGTCCCATGTGGGGGGCACCTGTTTAAACTGCGGAT\n+GCATTCCTACGAAAACGTATCTCCACACCACCGGCCTTTACCGGGAGGTGAAGAAGACAG\n+AGGCCGCCGGCCTCCATACGGAAGGCCTGCGCGTATCCATGGAGGAACTGAAGAAACGCA\n+AAGACGCCGTGGTGGAAGAATTGCGCGCCGGCATCGAGAAGCAGCTGGCCGCCGC\n' |