| Previous changeset 3:76d4cbefff85 (2021-06-14) Next changeset 5:e9bd16ba5ebd (2022-06-06) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/purge_dups commit d2ef7bd6598695a681446eaf9c5b8c142e8a0199" |
|
modified:
purge_dups.xml test-data/split_out.fasta |
|
added:
macros.xml test-data/assembly_test.fasta test-data/assembly_test.paf test-data/assembly_test.paf.gz test-data/calcuts_cutoff_05.tabular test-data/calcuts_cutoff_06.tabular test-data/calcuts_cutoff_07.tabular test-data/calcuts_cutoff_08.tabular test-data/calcuts_cutoff_09.tabular test-data/calcuts_log_05.txt test-data/calcuts_log_09.txt test-data/get_seqs_hap_10.fa test-data/get_seqs_purged_10.fa test-data/hist_05.png test-data/hist_11.png test-data/ngsc_cov_08.tabular test-data/pbcstat_cov_05.tabular test-data/pbcstat_cov_05.wig test-data/pbcstat_cov_06.tabular test-data/pbcstat_cov_07.tabular test-data/pbcstats_05.tabular test-data/purge_dups_01.bed test-data/purge_dups_02.bed test-data/purge_dups_03.bed test-data/purge_dups_log_02.txt test-data/split_04.fasta |
|
removed:
test-data/calcuts_out.tsv test-data/hist.png test-data/hist_options.png test-data/ngsc_out.cov test-data/out.cov test-data/out.wig test-data/out2.cov test-data/out2.wig test-data/out_hist_options.cov test-data/out_hist_options.wig test-data/pbcstats.tabular test-data/pbcstats2.tabular test-data/pbcstats_hist_options.tabular test-data/purge_dups_out.bed test-data/purge_dups_out_2.bed test-data/purged_out.fa test-data/test.fasta test-data/test.paf test-data/test.paf.gz test-data/tx_stats.tabular |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Tue Oct 12 19:07:05 2021 +0000 |
| [ |
| @@ -0,0 +1,86 @@ +<macros> + <token name="@TOOL_VERSION@">1.2.5</token> + <token name="@VERSION_SUFFIX@">4</token> + <xml name="xrefs"> + <xrefs> + <xref type="bio.tools">purge_dups</xref> + </xrefs> + </xml> + <xml name="trimmers"> + <section name="section_hist" title="Histogram plot options" > + <!--<param name="cutoffs_his" type="data" optional="true" format="txt" label="Read depth cutoffs file" />--> + <param argument="--ymin" type="integer" optional="true" min="0" label="Specify a minimum for the Y axis"/> + <param argument="--ymax" type="integer" optional="true" label="Specify a maximum for the Y axis"/> + <param argument="--xmin" type="integer" optional="true" min="0" label="Specify a minimum for the X axis"/> + <param argument="--xmax" type="integer" optional="true" label="Specify a maximum for the X axis"/> + <param argument="--title" type="text" value="Read depth histogram plot" label="Histogram title"/> + </section> + </xml> + <token name="@HIST_PLOT@"><![CDATA[ + python '$__tool_directory__/hist_plot.py' + --cutoffs cutoffs.tsv + #if $function_select.section_hist.ymin + --ymin $function_select.section_hist.ymin + #end if + #if $function_select.section_hist.ymax + --ymax $function_select.section_hist.ymax + #end if + #if $function_select.section_hist.xmin + --xmin $function_select.section_hist.xmin + #end if + #if $function_select.section_hist.xmax + --xmax $function_select.section_hist.xmax + #end if + #if $function_select.section_hist.title + --title '${function_select.section_hist.title}' + #end if + depth.stat hist.png + ]]></token> + <token name="@CALCUTS@"><![CDATA[ + calcuts + #if $function_select.section_calcuts.min_depth: + -f $function_select.section_calcuts.min_depth + #end if + #if $function_select.section_calcuts.low_depth: + -l $function_select.section_calcuts.low_depth + #end if + #if $function_select.section_calcuts.transition: + -m $function_select.section_calcuts.transition + #end if + #if $function_select.section_calcuts.upper_depth: + -u $function_select.section_calcuts.upper_depth + #end if + $function_select.section_calcuts.ploidy + ]]></token> + <xml name="calcuts"> + <section name="section_calcuts" title="Calcuts options" expanded="true"> + <param argument="-f" name="min_depth" type="float" min="0" max="1" value="0.1" label="Minimum depth count fraction to maximum depth count"/> + <param argument="-l" name="low_depth" type="integer" min="0" optional="true" label="Lower bound for read depth" /> + <param argument="-m" name="transition" type="integer" min="0" optional="true" label="Transition between haploid and diploid"/> + <param argument="-u" name="upper_depth" type="integer" min="0" optional="true" label="Upper bound for read depth" /> + <param name="ploidy" argument="-d" type="select" label="Ploidy" help="Treat as haploid assembly or diploid assembly"> + <option value="-d 0" selected="true">Diploid</option> + <option value="-d 1">Haploid</option> + </param> + </section> + </xml> + <xml name="output_macro"> + <param name="output_options" type="select" multiple="true" display="checkboxes" label="Output files"> + <yield /> + <option value="histogram" selected="true">Histogram plot</option> + <option value="calcuts_cutoff" selected="true">Calcuts cutoff</option> + <option value="calcuts_log">Calcuts log</option> + </param> + </xml> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@TOOL_VERSION@">purge_dups</requirement> + <requirement type="package" version="3.4.2">matplotlib-base</requirement> + </requirements> + </xml> + <xml name="citations"> + <citations> + <citation type="doi">10.1093/bioinformatics/btaa025</citation> + </citations> + </xml> +</macros> |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 purge_dups.xml --- a/purge_dups.xml Mon Jun 14 18:01:05 2021 +0000 +++ b/purge_dups.xml Tue Oct 12 19:07:05 2021 +0000 |
| [ |
| b'@@ -1,71 +1,10 @@\n <tool id="purge_dups" name="Purge overlaps" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">\n <description>and haplotigs in an assembly based on read depth (purge_dups)</description>\n <macros>\n- <token name="@TOOL_VERSION@">1.2.5</token>\n- <token name="@VERSION_SUFFIX@">3</token>\n- <xml name="trimmers">\n- <section name="section_hist" title="Histogram plot options" >\n- <!--<param name="cutoffs_his" type="data" optional="true" format="txt" label="Read depth cutoffs file" />-->\n- <param argument="--ymin" type="integer" optional="true" min="0" label="Specify a minimum for the Y axis"/>\n- <param argument="--ymax" type="integer" optional="true" label="Specify a maximum for the Y axis"/>\n- <param argument="--xmin" type="integer" optional="true" min="0" label="Specify a minimum for the X axis"/>\n- <param argument="--xmax" type="integer" optional="true" label="Specify a maximum for the X axis"/>\n- <param argument="--title" type="text" value="Read depth histogram plot" label="Histogram title"/>\n- </section>\n- </xml>\n- <token name="@HIST_PLOT@"><![CDATA[\n- python \'$__tool_directory__/hist_plot.py\' \n- --cutoffs cutoffs.tsv\n- #if $function_select.section_hist.ymin\n- --ymin $function_select.section_hist.ymin\n- #end if\n- #if $function_select.section_hist.ymax\n- --ymax $function_select.section_hist.ymax\n- #end if\n- #if $function_select.section_hist.xmin\n- --xmin $function_select.section_hist.xmin\n- #end if\n- #if $function_select.section_hist.xmax\n- --xmax $function_select.section_hist.xmax\n- #end if\n- #if $function_select.section_hist.title\n- --title \'${function_select.section_hist.title}\'\n- #end if\n- depth.stat hist.png\n- ]]></token>\n- <token name="@CALCUTS@"><![CDATA[\n- calcuts\n- #if $function_select.section_calcuts.min_depth:\n- -f $function_select.section_calcuts.min_depth\n- #end if\n- #if $function_select.section_calcuts.low_depth:\n- -l $function_select.section_calcuts.low_depth\n- #end if\n- #if $function_select.section_calcuts.transition:\n- -m $function_select.section_calcuts.transition\n- #end if\n- #if $function_select.section_calcuts.upper_depth:\n- -u $function_select.section_calcuts.upper_depth\n- #end if\n- $function_select.section_calcuts.ploidy\n- ]]></token>\n- <xml name="calcuts">\n- <section name="section_calcuts" title="Calcuts options">\n- <param name="min_depth" type="float" label="Minimum depth count fraction to maximum depth coun" min="0" max="1" argument="-f" optional="true" help="Default = 0.1"/>\n- <param name="low_depth" label="Lower bound for read depth" type="integer" argument="-l" optional="true"/>\n- <param name="transition" label="Transition between haploid and diploid" type="integer" argument="-m" optional="true"/>\n- <param name="upper_depth" label="Upper bound for read depth" type="integer" argument="-u" optional="true"/>\n- <param name="ploidy" argument="-d" type="select" label="Ploidy">\n- <option value="-d 0" selected="true">Diploid [0]</option>\n- <option value="-d 1">Haploid [1]</option>\n- </param>\n- </section>\n- </xml>\n+ <import>macros.xml</import>\n </macros>\n- <requirements>\n- <requirement type="package" version="@TOOL_VERSION@">purge_dups</requirement>\n- <requirement type="package" version="3.4.2">matplotlib-base</requirement>\n- </requirem'..b'm name="min_map_qual" value="1"/>\n- <param name="flank" value="1"/>\n- <param name="primary_alignments" value="-p"/>\n+ <param name="input" value="assembly_test.paf"/>\n+ <section name="pbcstat_options">\n+ <param name="max_cov" value="1000"/>\n+ <param name="min_map_ratio" value="0.01"/>\n+ <param name="min_map_qual" value="1"/>\n+ <param name="flank" value="1"/>\n+ <param name="primary_alignments" value="-p"/>\n+ </section>\n <section name="section_calcuts">\n <param name="min_depth" value="0.01"/>\n <param name="low_depth" value="1"/>\n@@ -504,22 +482,56 @@\n <param name="cutoffs_his" value="calcuts_out.tsv"/>\n </section>\n </conditional>\n- <output name="calcuts_tab" value="calcuts_out.tsv"/>\n- <output name="pbcstat_cov" value="out_hist_options.cov"/>\n- <output name="pbcstat_wig" value="out_hist_options.wig"/>\n- <output name="stat_file" value="pbcstats_hist_options.tabular"/>\n- <output name="hist" value="hist_options.png" ftype="png" compare="sim_size"/>\n+ <param name="output_options" value="histogram"/>\n+ <output name="hist" value="hist_11.png" ftype="png" compare="sim_size"/>\n </test>\n </tests>\n <help><![CDATA[\n- .. class:: infomark\n- \n- **What it does**\n+.. class:: infomark\n+\n+**Purpose**\n+\n+The purge_dups tools are designed to remove haplotigs and contig overlaps in a de novo assembly based on read depth. \n+purge_dups can significantly improve genome assemblies by removing overlaps and haplotigs caused by sequence divergence \n+in heterozygous regions. This both removes false duplications in primary draft assemblies while retaining completeness and sequence\n+integrity, and can improve scaffolding.\n+\n+----\n+\n+.. class:: infomark\n+\n+**Pipeline Guide**\n+\n+Given a primary assembly, and an alternative assembly (optional, if you have one), follow the steps shown below to build your \n+own purge_dups pipeline, steps with same number can be run simultaneously. Among all the steps, although step 5 is optional, \n+we highly recommend our users to do so, because assemblers may produce overrepresented sequences. In such a case, the final \n+step 5 can be applied to remove those seqeuences.\n \n- The purge_dups tools are designed to remove haplotigs and contig overlaps in a de novo assembly based on read depth.\n+ - Step 1: Calculate the coverage cutoffs and base coverages.\n+ - Step 2: Split an assembly with the **split_fasfa** function and do a self-self alignment by using minimap2.\n+ - Step 3: Purge haplotigs and overlaps with the **purge_dups** function.\n+ - Step 4: Get purged primary and haplotig sequences from the draft assembly with the **get_seqs** function.\n+ - Step 5: Merge hap.fa file, generated in the previous step, and the alternate assembly, and redo the above steps to get a decent haplotig set.\n+\n+----\n+\n+.. class:: infomark\n+\n+**Limitations**\n+\n+- Read depth cutoffs calculation: the coverage cutoffs can be larger for a low heterozygosity species, which causes the purged assembly size smaller than expected. In such a case, please use script/hist_plot.py to make the histogram plot and set coverage cutoffs manually.\n+- Repeats: purge_dups has a limited ability to process repeats.\n+\n+----\n+\n+.. class:: infomark\n+\n+**Purged assembly validation**\n+\n+There are many ways to validate the purged assembly. One way is to make a coverage plot for it, the 2nd way is to run `BUSCO <https://busco.ezlab.org/>`_. A thid option is to use `Merqury <https://github.com/marbl/merqury>`_\n+\n+\n \n ]]></help>\n- <citations>\n- <citation type="doi">10.1093/bioinformatics/btaa025</citation>\n- </citations>\n+ <expand macro="citations"/>\n </tool>\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/assembly_test.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/assembly_test.fasta Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -0,0 +1,2 @@\n+>Test_sequece_purge_dups\n+ATGCCAGAGCACGTGGTCCAATGCAAGTATTGACGAGACAGCCTGTAGAGGGTAGATCGAGAGACGGTGGTTTAAGATTCGGTGAGATGGAACGTGACTGTATGATTGCTCATGGTGCTGCCTCATTCTTGAAGGAGAGATTAATGGAAGCATCCGATGCCTTTAGAGTCCATATTTGTGGTATTTGCGGGCTGATGACAGTTATCGCGAAATTAAATCATAACCAATTTGAATGTAAGGGATGTGATAATAAGATTGATATTTACCAAATTCATATTCCATACGCCGCGAAGTTATTATTCCAAGAACTTATGGCTATGAACATTACACCACGTTTATATACCGATCGTTCGAGAGATTTTTAAGAAATAATGTTGTAACTCTAAGAAAGTAAAATAATAAAAAACATTTCATTTGTGCTGATCTTGCCAAAAAAAGGGTAAACAAGTAGGCAATAGTAATAAAATAAGAATGAAGCATTTCTTTTAATAAGCAGAGAGAACTTTCAAGCATTCAAAAAACACAAAAATAATGATGAATAAAATGGGACTCACAGTGTTTATTTATAGTCCTTGTTTCGCATTTTACCAAATTAAAATTTAATTTTATCAAGACATATTAATGAACTTTAGCGGAAAACCTTAAATATCCAAGTCATAAATAATGACTTATGTAAAAAGTTATAAGAAAAATATACGGTGTTCATTTTGGAACAATGTTGCTGTTACACACTGTTAAATATATNTAGTATTCATAAAAGAAAGAAGATTTTAATACGCGTTTTGATTAAAACTACATAACAGATAAATATATACATGGATTGAAGACTGCAAAAAGGATATATAAAAAAATGACAAATAATTTCAATAAGCTATTTCAATTGGTTAAAAATTGATTCTTTAAGAGGCTCTGGTATTGATGATTGCTCATGGGCAAAGGCAGTAATATTTTGTTTATAAGGGTTTTCACTTCCATCGAAAACTTTTAAGCGGTCTAACCGTTGCTTTCTCAATTTATTTTTAGGCAACATACCGCTAACTGCTTTTTTCAAAATTTCTCCAAATCCTTTATCGGCAACNACCTTGTTCATTGTCTGTAACTTTAGCTGACCAGGTCTACCTGAATGAGACCAGTAAGTCTTCTGCTCAAATTTCTTACCTGTTACACGGATTTTTTGGCAATTAGTCACTACTACGTAGTCTCCACAGTCTTGTGACGGATGATAGACCGGCTTATGTCTACCAATTAAGGTAATTGCAATTGCTGAAGCCAATCTACCCAATGTCCTCTTATCACGGGCAACGTCGACATGGTGCCAAAGGCGCGCAAAAGCCAAGCCACTGTGTCCAATCTTCTGCGACATGAATAGGCTATTGTTGATGCTGGTATTGCTTTCTTTTTCTATATGATATCAGTGTATTCATAAGGTCTTTCTCTTTTACTTATTTAGAACGTTTTAAAGATCTCTAAACTACAAGGAAGGCTCCATGCGGGTAACAATCAACATTATAACGATAATTAACTAAACCATAACCGTCTAAGTAACCATAGCGTGCGGTGATTCTTCGCTAGATGGAACTCATGTCTTACTAGTAGCGTGTTTGGTACGTGCAATATAGAGCAAAACATTATATAGACATCGTAATAGCTTTTTATGTGCGGACTGTAATGTTTGTAAGAAGTAAAACCAGTCACTAATATAGTGAAAAAAAGTCAACTTATCGATCTATGTATCTCATAGAAGATGTATTGATTTAATATAACTTATAAAGGTGCTTCTACAGTAAGGTGCTGAGAGGACTTACTATGTCGGCAACAAGTTCAAATCTGAAGCTCTGAGGATTTCGCGAGATGCGCACAATCTGAAGTAATATAAAGATGAAAACACAATACAAAAGGCCTGAAAATCTATATGTCCGATAAGATATCATAGTATTCTTACTCGCAAGCACACATCAGGTACTTGGAAGTGTATGATGAGGTATNAATGGTGGCTTTATTTAGTATATGCCATCGGCCTAATGCTATGCCTAGGCCCGTCGTATATTCATCCAGATGAACATTTCCAATGCATCGAGATTTTGGCTATGCAGTTCATGAAGGTCAAAGGTACCATCCCATGGGAATTTAAATCAAAATTTGCTGCTAGGAGTTACGGCCCCCTATTATTGGTTTACGGGCCTTTGTTCACTATTTTAGAATCTTTTCCCCGAAATTCAGGACAACCCAGCGTTAATTCTGTATTCGATGAGACTACAAAACTATGTGATGTACCTATTGTGCTATCATTTTTTAATACCTAAATTAATAAGGGATGAGAGAAAGGCCGTACAATTCATCAAAAAAAGTCTACTTTTAACTTCTTACGTAACCTGGACGTACCAAACACACACGTTTTCCAATTCCATAGAAACGCTGGCTTTAATCTCAACTTTAACTGTAATGGAAGATATGGTAAACGAAAAAAATATTCAAAGAAGTAATTTCAAAAATTCGGTTATATTGGGACTTATATTTAGTTTTGGTGTTTTTAATAGAGTTACTTTTCCTGCATTTATTTTCTTACCATGTTTGATATTATTCTGGAAGTTTTACCGGGTCCATTGGAAATCCTTTTCTTTACTTTTACTTTCATTTTCATTTTCCTCGTGTCTATTTGTTCTTATTGATACAAATATTTATAACAACGGAAAGGGATTTGTCATTACGCCCTTGAATAACCTGAAATACAACCTCAATGTCCAAAATTTGCAAGTACATGGATTACATCCAAGATACACCCATCTGCTGGTCAATTTACCTCAAATAGTTGGCCCAGTATTGCTGCTAGCGATTTTTTCCGGTTACAAACTCGATAAATTATCTACTTACGCAATCATATCTGGCCTGCTTTTTCTTTCATTCTTTCAACATCAAGAATTAAGATTCCTTGTACCGCTAGTGCCACTACTCGTGACAAACTTAAACTGGACACCTCTGAGTTCCACGTTAGTAAACAAGAAAATTTTCAAGGGAACTTGGCTTCTTTTTAACATAATCATGGCGTTCATCATGGGAATTTCACATCAAGCAGGAATTATCCAATTTTTGGGAGATTACTTCCACTTTCGTACCGAACAAATGGGCGTTCACATATGGTGGAAAACATACTCACCACCCACCTGGATGTATATGAGCAATAACCTAACCGTTTCTTCTCTTATCAATACACAGGATGGTATTGAGTCGATAGATGAAGTGGCATTCAGTNTAGGTAACCATCATGTAATAGACCTTAAAGGCTGTGATTTACCACTTTTAACAGAAACAATTAGGCGGCTGCGTTTAAACGGGTCCATAACTCCACTAACTTTAGTAACTCCCAATTCCATGACATCAGAATTGAAAAAGTTGAAGAGAGATGGCACTATTAACTTAATACCCAAAAGAAATTACTTGTTCCATTTGGATTTGGATCATCTTGATTTCAATGATTTCACGACTTTTAAGCCAGGGCTAACAGTGTACTCCATCGAACTACTATAAGACCAGCTATATGAGGAGTTATGCATATATTATGGCTGTGAATTTAAGTTTAAATGATCTTATCCTAGGTATTCTTATAAAAAAGAAGAGTGCTTTAATCGAGCAATGGTTAACTATTTGTTGCATACTCATTTTTTCCCATTGAAATCTCTAATTGTAGGCTGATACAAACTCGGTACTCAGCTCAAGATAGGATTGTTAGTTCTGATATGCAATCTTATTAATCTATGTATAGTACACAACTGTATGAAAACCTCCCGAAGTCTAAGTAAAGCTCCATTGATGTTCTCTTGCTGTTAAGTATTATATTACTCCATAACCAAATCTGTGTTCACACGTACTACAAGCTTGACATGATACTGACCATAGTACATGTGCAAGTTATTCAAACTAAGAATTACAGAGCTTCATTTGTCACAGTCACTTCATAC'..b'AAAATGTGATTTCCAAATCTTGATTGGAGCACTTATGATCTTTCAACAACCATTTTAGAAGCCTTTCATAGATTTTCTTCTCATGGATGTATTCCTGACTGAAAACAGAGTTAATGACGAATAGATAGAACGAAATGAAAGTGGTGGTGCTCAGAATGAGCCATAGAATTTGTGACAATATCAGCCAAGACGCTATAATACTTATTTCATTCAGAGAGAACGGCCTGTTGTTTTTAATAAGAATCCACTTTAGATTGATTTTGAACCTTTCTTGAAAATTCTTTGCATCTGCTAGAAGCGATTGCTTGAACTCTCGCTCATTATTTTTTCTCAGCAAAATAGTCTCAATATTGGAAGCCTTGGTAGTGAACTTGTCATTGCTTGGAAATGTTCGGATGTGCCTTTGGGCGATCAAACATCTAACAGGTAACGAACTCTTGTAAGGTGTTATAAAAGGTCTGACATTTCCATGATTAGTTGCGACGTAAGTTCGAATACAGTGTCTTACGAGATGACTTGTAATTGGAAGCAGTGGCCGCTTTATTGTAGGGACCCGTAAACGTGTGATTAGCATGAATTTTATAAACCTCCCACCACCTGATAATCTGTATGTGCCTTTTGTTTTAATACTTCTTGACGCAAATCTACTGTCAACTTTAATATGCATCCCTCCATAGTAAGTCAAGGATCAGCTAGAACCAATAACGAGAAGTAAAAAAAAGTGACAAAAAGTCAAATGTGTCTTTATACGAATTTTTTAACCTACATATGAAGAGTAAGGTCATAAATAATAAATGTAGGGCTAAATGCAGTTAAGATTACTACAGTATTAGGTCTGTTTTTTATCACCTCTTACGGAAAGTGCGAGCGGGAAAAAATTTTTCTTCTTTCCTTATTATCATACCGATGCTCATCACAATGAAAGATACATATTGCATCAATAATAGGCAGTTTTCAATATTCTTCTGTTTAGTTAAGAAAAAGACTTGAAGTGAAAATAAACTACATTATGGTTGCGCCTACTGCTTTGAAAAAGGCTACTGTGACACCTGTAAGTGGACAAGATGGGGGCAGTAGTAGAATTNTAGGAATAAATAATACCGAAAGCATCGATGAGGACGATGATGACGACGTTCTGTTAGATGATTCCGACAATAACACAGCAAAAGAAGAGGTAGAGGGCGAAGAAGGTAGCCGGAAAACGCACGAATCTAAGACCGTAGTGGTTGATGACCAGGGGAAACCTCGCTTCACTTCAGCTAGCAAAACACAGGGTAACAAAATAAAATTTGAATCGAGAAAGATCATGGTTCCACCACACAGAATGACACCCTTGAGGAACAGTTGGACAAAAATTTATCCTCCTTTGGTCGAGCACTTGAAGCTGCAAGTCAGAATGAATTTAAAGACCAAATCCGTAGAACTAAGAACGAATCCTAAATTTACCACAGACCCTGGTGCGTTGCAAAAAGGGGCCGATTTTATCAAAGCCTTTACCTTAGGGTTTGATCTTGACGATTCTATCGCACTATTGAGGCTAGATGATTTATATATTGAGACTTTTGAAGTCAAAGATGTCAAGACTCTAACAGGTGACCATTTGTCGAGAGCCATCGGTCGTATTGCCGGTAAAGACGGTAAAACGAAATTTGCGATTGAAAACGCTACAAGAACAAGAATTGTCTTAGCTGACTCTAAAATCCACATTTTGGGCGGGTTCACCCACATCAGAATGGCAAGAGAATCTGTGGTTAGTTTAATTTTGGGTTCCCCTCCAGGTAAAGTTTATGGGAACTTACGTACCGTTGCATCTAGATTAAAAGAACGCTACTAAACATAATTTGTGGGCTTTCATCATCTGTATAATATTTATATGTCGTTTTATGGCGAAATAGAGTGAATAAATAGGTTTTTTTTTCCTTCTTTTTTTTAGGACGCCAAACGCGTAACGTTAGCGGTGATAAATTAGTTTAGTATTATTATCCGGCTATTTGCTTCATGTATTTAACGTCTTCACTGACCACCTTCGCTGCACTAAATCGTATGGTACCATAGCATTAATCTTTTTGAATCAGAGAAGGTTTTCCAATGAAAAGGCACGTGTCTTTATCTGATATATTGACAGGAAATAAGAGAAAAGTGAGAAGACAAGATGCTCTACAGATTACCATCGATGACGAAAATGATACTGAATCAGGCACTTTTGACGCCAGAACAGCCAAACATGACGATTCTTCAGTAATATTTTTAAACCACTCTGTTGTGAAGCCAATTGAAGCTGTTTCTACTAATCACAAATCTGCAAAGGAGTTTTTGATGACGAAACGCACAAAAGAAAAATGCGATGACGACGATGATGATCTTATTGTAATCAGTGATAAGAGTCCCAAAAGTGAGACTAATTGTAGCAAAATTGCACTTTCGCAGGAGCATGAAGATGATATTTCTATAATTTCCACATCGAGAATCAAATCATCGCTTCTTAATGAAAGAGCATCAAAGATTAAAAACTTCCTTAAACATGAGACAACCGACACGTTCAAAAGATTAAATAGCATCTCTAAACTAAATGAAATAGAGCCACCATTACCATTACATCAATCGATTTTCCCAGTAGGTGACAAAGAGCTGTCAGATCGGAGTGTTGATATCCCGCTTCCTTTCCGCACAATACCGCCATTAAATCATAATTTTCTTCCTAGTGACTATGAATCGTTGAAAGACAAGAATTCAGCATCTTGTATTCCTGTTCGCTATCAAGCACCGGTATTACTTGGCACAAATATTAAAAGAAATACAACTCTCACATGGCCGCAGCTATTCAAGCCTGTCACTTTAAAACAAGTATTAATTGAACCCAAATTGAAACTTCGAATCAAAAATTGGATTGAAACATCCTTTCATACGCTAGAAAAGCCTACCTTGAGGAACCGTCTATNGAACAGAATAAATCCCAATAAACAACAGGGATCTGGTGATGAGCTTGCCAACTTCATTGTACCTGATCTCGAAGAAGACGAAAACTTGCGTCCAGATTTCTACAGAAATGGCGAAGCAAATAGCAGCTTGAGCGAATTTGTTCCACTAATGATATTACACGGAAATTCAATAGGCAAGAAAACGCTGATACAGACAATCATGAGAGAGATTGCTGGCGACGATAATTCTTACCAGATATATGAAGTTAATTCAAACATGAACAGGAGCAAAAAAGATTTGCTTGATATCCTACTAGATTTTACCACCACACACTATGTCAAAGATTCCTCAAAAAGGAAAAGTGACTACGGGCTTGTTTTATTTAATGATGTTGATGTTTTATTTAAAGAACATGATAGGGGATATTGGGCAATGATCAGCAAGCTTTGTGAATTTTCACGAAGGCCCCTCGTATTGACTTGTAAGGATTTGTCACTAGTTCCTAGTGAACTTATTGCCTTGGCAAGTGAACAAAACTCTTTGTTTCATACTAAGAAAATTAGTACATCCACAGTCTATGCGTTTCTAACAAAATATTTAAAGTCCCTTGAAATCGAAGTTTGTGACGACTGGCTTCGCGATGTTGTAAAACAAAATAATGCGGATATTAGGAAGTGCTTGATGCACTTGCAGTTTTGGTGCGTTGATACTGGGGCTGATTTGATTTCATCCAAGAACAGACTACCGGTCCTAACATCAACTCTTGGTTCAAGCGTTAAAGATATATCGCAATTAACTGATCTACTCTCCATAAATGATGTTATTGGTCAAGCAACGCTCAATCGTTCCATGGTTAGACAAGAAATAGATTCTACCACAATGACCCCAGAAAAAGTTAATACTTTCCAGGATCAAAATCTGGATGATGAAATGAAATTAAAATTTGATTACGTGATAGATTATAAATTGCATTTAAATGACCCCAATAGACAACCATTATTACCCTTTGAATTGAATATTTACCAACACATCCAAGAACAATTGGAAGCTCGGTATTCCTATGTTAGAGAAGCAAACCA\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/assembly_test.paf --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/assembly_test.paf Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -0,0 +1,245 @@\n+gi|568815454:1200216-1203631\t3416\t0\t3416\t+\tgi|568815529:1421891-1425306\t3416\t0\t3416\t3416\t3416\t0\tNM:i:0\tms:i:6832\tAS:i:6832\tnn:i:0\ttp:A:S\tcm:i:637\ts1:i:3404\tde:f:0\trl:i:0\tcg:Z:3416M\n+gi|568815454:1200216-1203631\t3416\t0\t3416\t+\tgi|568815592:29942469-29945883\t3415\t0\t3415\t3371\t3416\t0\tNM:i:45\tms:i:6560\tAS:i:6560\tnn:i:0\ttp:A:S\tcm:i:540\ts1:i:3085\tde:f:0.0132\trl:i:0\tcg:Z:1212M1I2203M\n+gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815567:1196244-1200852\t4609\t1184\t4609\t3297\t3432\t0\tNM:i:135\tms:i:6090\tAS:i:6090\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2452\tde:f:0.0329\trl:i:0\tcg:Z:1339M4D149M17D495M3I183M1I238M3I1000M\n+gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815551:1197321-1201446\t4126\t701\t4126\t3289\t3432\t0\tNM:i:143\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:385\ts1:i:2485\tde:f:0.0355\trl:i:0\tcg:Z:1343M3D1M1D144M17D495M3I183M1I238M3I1000M\n+gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815561:1196951-1200436\t3486\t60\t3486\t3290\t3434\t0\tNM:i:144\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:371\ts1:i:2447\tde:f:0.0352\trl:i:0\tcg:Z:175M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n+gi|568815454:1200216-1203631\t3416\t5\t3411\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3284\t3429\t0\tNM:i:145\tms:i:6022\tAS:i:6022\tnn:i:0\ttp:A:S\tcm:i:383\ts1:i:2483\tde:f:0.0355\trl:i:0\tcg:Z:170M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n+gi|568815454:1200216-1203631\t3416\t92\t3411\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3198\t3340\t0\tNM:i:142\tms:i:5860\tAS:i:5860\tnn:i:0\ttp:A:S\tcm:i:372\ts1:i:2412\tde:f:0.0362\trl:i:0\tcg:Z:1251M3D1M1D144M17D495M3I183M1I238M3I1000M\n+gi|568815529:1421891-1425306\t3416\t0\t3416\t+\tgi|568815592:29942469-29945883\t3415\t0\t3415\t3371\t3416\t0\tNM:i:45\tms:i:6560\tAS:i:6560\tnn:i:0\ttp:A:S\tcm:i:540\ts1:i:3085\tde:f:0.0132\trl:i:0\tcg:Z:1212M1I2203M\n+gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815567:1196244-1200852\t4609\t1184\t4609\t3297\t3432\t0\tNM:i:135\tms:i:6090\tAS:i:6090\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2452\tde:f:0.0329\trl:i:0\tcg:Z:1339M4D149M17D495M3I183M1I238M3I1000M\n+gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815561:1196951-1200436\t3486\t60\t3486\t3290\t3434\t0\tNM:i:144\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:371\ts1:i:2447\tde:f:0.0352\trl:i:0\tcg:Z:175M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n+gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815551:1197321-1201446\t4126\t701\t4126\t3289\t3432\t0\tNM:i:143\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:385\ts1:i:2485\tde:f:0.0355\trl:i:0\tcg:Z:1343M3D1M1D144M17D495M3I183M1I238M3I1000M\n+gi|568815529:1421891-1425306\t3416\t5\t3411\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3284\t3429\t0\tNM:i:145\tms:i:6022\tAS:i:6022\tnn:i:0\ttp:A:S\tcm:i:383\ts1:i:2483\tde:f:0.0355\trl:i:0\tcg:Z:170M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n+gi|568815529:1421891-1425306\t3416\t92\t3411\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3198\t3340\t0\tNM:i:142\tms:i:5860\tAS:i:5860\tnn:i:0\ttp:A:S\tcm:i:372\ts1:i:2412\tde:f:0.0362\trl:i:0\tcg:Z:1251M3D1M1D144M17D495M3I183M1I238M3I1000M\n+gi|568815551:1197321-1201446\t4126\t0\t4126\t+\tgi|568815567:1196244-1200852\t4609\t483\t4609\t4061\t4126\t0\tNM:i:65\tms:i:7862\tAS:i:7862\tnn:i:0\ttp:A:S\tcm:i:604\ts1:i:3595\tde:f:0.0158\trl:i:0\tcg:Z:4126M\n+gi|568815551:1197321-1201446\t4126\t793\t4126\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3333\t3333\t0\tNM:i:0\tms:i:6666\tAS:i:6666\tnn:i:0\ttp:A:S\tcm:i:615\ts1:i:3324\tde:f:0\trl:i:0\tcg:Z:3333M\n+gi|568815551:1197321-1201446\t4126\t641\t4126\t+\tgi|568815561:1196951-1200436\t3486\t0\t3486\t3409\t3487\t0\tNM:i:78\tms:i:6504\tAS:i:6504\tnn:i:0\ttp:A:S\tcm:i:456\ts1:i:2855\tde:f:0.0221\trl:i:0\tcg:Z:235M1I1996M2D1253M\n+gi|568815551:1197321-1201446\t4126\t706\t4126\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3343\t3422\t0\tNM:i:79\tms:i:6368\tAS:i:6368\tnn:i:0\ttp:A:S\tcm:i:455\ts1:i:2819\tde:f:0.0228\trl:i:0\tcg:Z:170M1I1996M2D1253M\n+gi|568815551:1197321-1201446\t4126\t701\t4126\t+\tgi|568815592:29942469-29945883\t3415\t0\t3410\t3296\t3432\t0\tNM:i:136\tms:i:6078\tAS:i:6078\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2471\tde:f:0.0334\trl:i:0\tcg:Z:1212M1I130M3I1M1I144M17I495M3D183M1D238M3D1000M\n+gi|568815561:1196951-1200436\t3486\t65\t3486\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3398\t3421\t0\tNM:i:23\t'..b'1I7M3D7M1D90M1I5M1D37M1D49M1D30M4D4M3I3M1I53M\n+gi|157734152:29655295-29712160\t56866\t47858\t48472\t+\tgi|528476637:29857558-29915771\t58214\t7043\t7661\t488\t641\t0\tNM:i:153\tms:i:364\tAS:i:364\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:48\tde:f:0.2078\trl:i:96\tcg:Z:26M4I20M1D64M2I7M1D1M1D39M9D5M2D5M4D75M2I9M1D3M2I25M1I11M1D5M1D3M1I8M1D7M3I7M1I90M1D5M1I37M1I49M1I30M4I4M3D3M1D53M\n+gi|157734152:29655295-29712160\t56866\t47858\t48472\t+\tgi|157734152:29655295-29712160\t56866\t7021\t7639\t488\t641\t0\tNM:i:153\tms:i:364\tAS:i:364\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:48\tde:f:0.2078\trl:i:96\tcg:Z:26M4I20M1D64M2I7M1D1M1D39M9D5M2D5M4D75M2I9M1D3M2I25M1I11M1D5M1D3M1I8M1D7M3I7M1I90M1D5M1I37M1I49M1I30M4I4M3D3M1D53M\n+gi|157734152:29655295-29712160\t56866\t28499\t28764\t-\tgi|528476637:29857558-29915771\t58214\t29092\t29357\t235\t265\t41\tNM:i:30\tms:i:350\tAS:i:350\tnn:i:0\ttp:A:P\tcm:i:4\ts1:i:46\ts2:i:0\tde:f:0.1132\tzd:i:2\trl:i:96\tcg:Z:265M\n+gi|157734152:29655295-29712160\t56866\t14465\t14764\t-\tgi|528476637:29857558-29915771\t58214\t45149\t45463\t266\t316\t0\tNM:i:50\tms:i:350\tAS:i:350\tnn:i:0\ttp:A:S\tcm:i:3\ts1:i:40\tde:f:0.1192\trl:i:96\tcg:Z:5M1I26M2D116M14D2M1D114M1I34M\n+gi|157734152:29655295-29712160\t56866\t29213\t29478\t-\tgi|528476637:29857558-29915771\t58214\t28378\t28643\t234\t265\t0\tNM:i:31\tms:i:344\tAS:i:344\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:46\tde:f:0.1170\tzd:i:1\trl:i:96\tcg:Z:265M\n+gi|157734152:29655295-29712160\t56866\t28499\t28764\t-\tgi|157734152:29655295-29712160\t56866\t29213\t29478\t233\t265\t40\tNM:i:32\tms:i:338\tAS:i:338\tnn:i:0\ttp:A:P\tcm:i:4\ts1:i:46\ts2:i:0\tde:f:0.1208\tzd:i:2\trl:i:96\tcg:Z:265M\n+gi|157734152:29655295-29712160\t56866\t29213\t29478\t-\tgi|157734152:29655295-29712160\t56866\t28499\t28764\t233\t265\t0\tNM:i:32\tms:i:338\tAS:i:338\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:46\tde:f:0.1208\tzd:i:1\trl:i:96\tcg:Z:265M\n+gi|157734152:29655295-29712160\t56866\t17792\t17978\t+\tgi|157734152:29655295-29712160\t56866\t17883\t18067\t176\t186\t0\tNM:i:10\tms:i:312\tAS:i:312\tnn:i:0\ttp:A:S\tcm:i:11\ts1:i:86\tde:f:0.0486\trl:i:96\tcg:Z:6M2I178M\n+gi|157734152:29655295-29712160\t56866\t17883\t18067\t+\tgi|157734152:29655295-29712160\t56866\t17792\t17978\t176\t186\t0\tNM:i:10\tms:i:312\tAS:i:312\tnn:i:0\ttp:A:S\tcm:i:11\ts1:i:86\tde:f:0.0486\trl:i:96\tcg:Z:6M2D178M\n+gi|157734152:29655295-29712160\t56866\t6285\t6982\t-\tgi|528476637:29857558-29915771\t58214\t6307\t7004\t528\t727\t0\tNM:i:199\tms:i:272\tAS:i:272\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:44\tde:f:0.2392\trl:i:96\tcg:Z:11M1D155M1I43M2D64M2I1M1I6M3I5M2I1M2I6M1D9M2I3M3D6M8I5M1I8M1I5M1I9M1D6M1D5M1D8M8D5M3I4M2D3M2D13M2D7M5D70M2I43M1D154M1I12M\n+gi|157734152:29655295-29712160\t56866\t6285\t6982\t-\tgi|157734152:29655295-29712160\t56866\t6285\t6982\t528\t723\t0\tNM:i:195\tms:i:272\tAS:i:272\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:44\tde:f:0.2436\trl:i:96\tcg:Z:11M1D155M1I43M2D64M2I1M1I6M3I5M2I1M2I6M1D9M2I3M3D6M1I7M2D2M2I3M2D26M2I3M2D2M2I7M1D5M3I4M2D3M2D13M2D7M5D70M2I43M1D154M1I12M\n+gi|157734152:29655295-29712160\t56866\t8039\t8361\t+\tgi|157734152:29655295-29712160\t56866\t8039\t8285\t228\t323\t0\tNM:i:95\tms:i:262\tAS:i:281\tnn:i:0\ttp:A:S\tcm:i:8\ts1:i:53\tde:f:0.0769\trl:i:96\tcg:Z:131M77I89M1D25M\n+gi|157734152:29655295-29712160\t56866\t8039\t8285\t+\tgi|157734152:29655295-29712160\t56866\t8039\t8361\t228\t323\t0\tNM:i:95\tms:i:262\tAS:i:281\tnn:i:0\ttp:A:S\tcm:i:8\ts1:i:53\tde:f:0.0769\trl:i:96\tcg:Z:131M77D89M1I25M\n+gi|157734152:29655295-29712160\t56866\t46497\t46603\t-\tgi|157734152:29655295-29712160\t56866\t46497\t46603\t92\t106\t0\tNM:i:14\tms:i:128\tAS:i:128\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:54\tde:f:0.1321\trl:i:96\tcg:Z:106M\n+gi|157734152:29655295-29712160\t56866\t8206\t8392\t+\tgi|157734152:29655295-29712160\t56866\t8003\t8199\t154\t201\t0\tNM:i:47\tms:i:116\tAS:i:116\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:41\tde:f:0.1979\trl:i:96\tcg:Z:14M3D43M2I1M1I28M1D2M2D3M1D14M1D11M2D3M2D5M2I5M3D52M\n+gi|157734152:29655295-29712160\t56866\t8003\t8199\t+\tgi|157734152:29655295-29712160\t56866\t8206\t8392\t154\t201\t0\tNM:i:47\tms:i:116\tAS:i:116\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:41\tde:f:0.1979\trl:i:96\tcg:Z:14M3I43M2D1M1D28M1I2M2I3M1I14M1I11M2I3M2I5M2D5M3I52M\n+gi|157734152:29655295-29712160\t56866\t46537\t46603\t-\tgi|157734152:29655295-29712160\t56866\t46537\t46603\t60\t66\t0\tNM:i:6\tms:i:96\tAS:i:96\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:48\tde:f:0.0909\trl:i:96\tcg:Z:66M\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/assembly_test.paf.gz |
| b |
| Binary file test-data/assembly_test.paf.gz has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_cutoff_05.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_cutoff_05.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_cutoff_06.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_cutoff_06.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_cutoff_07.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_cutoff_07.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_cutoff_08.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_cutoff_08.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_cutoff_09.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_cutoff_09.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_log_05.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_log_05.txt Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +Set up cutoffs manually |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_log_09.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/calcuts_log_09.txt Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +Set up cutoffs manually |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/calcuts_out.tsv --- a/test-data/calcuts_out.tsv Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,1 +0,0 @@ -1 0 0 1 1 100 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/get_seqs_purged_10.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/get_seqs_purged_10.fa Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -0,0 +1,16 @@\n+>Test_sequece_purge_dups:1-744_1\n+ATGCCAGAGCACGTGGTCCAATGCAAGTATTGACGAGACAGCCTGTAGAGGGTAGATCGAGAGACGGTGGTTTAAGATTCGGTGAGATGGAACGTGACTGTATGATTGCTCATGGTGCTGCCTCATTCTTGAAGGAGAGATTAATGGAAGCATCCGATGCCTTTAGAGTCCATATTTGTGGTATTTGCGGGCTGATGACAGTTATCGCGAAATTAAATCATAACCAATTTGAATGTAAGGGATGTGATAATAAGATTGATATTTACCAAATTCATATTCCATACGCCGCGAAGTTATTATTCCAAGAACTTATGGCTATGAACATTACACCACGTTTATATACCGATCGTTCGAGAGATTTTTAAGAAATAATGTTGTAACTCTAAGAAAGTAAAATAATAAAAAACATTTCATTTGTGCTGATCTTGCCAAAAAAAGGGTAAACAAGTAGGCAATAGTAATAAAATAAGAATGAAGCATTTCTTTTAATAAGCAGAGAGAACTTTCAAGCATTCAAAAAACACAAAAATAATGATGAATAAAATGGGACTCACAGTGTTTATTTATAGTCCTTGTTTCGCATTTTACCAAATTAAAATTTAATTTTATCAAGACATATTAATGAACTTTAGCGGAAAACCTTAAATATCCAAGTCATAAATAATGACTTATGTAAAAAGTTATAAGAAAAATATACGGTGTTCATTTTGGAACAATGTTGCTGTTACACACTGTTAAATATAT\n+>Test_sequece_purge_dups:746-1078_1\n+TAGTATTCATAAAAGAAAGAAGATTTTAATACGCGTTTTGATTAAAACTACATAACAGATAAATATATACATGGATTGAAGACTGCAAAAAGGATATATAAAAAAATGACAAATAATTTCAATAAGCTATTTCAATTGGTTAAAAATTGATTCTTTAAGAGGCTCTGGTATTGATGATTGCTCATGGGCAAAGGCAGTAATATTTTGTTTATAAGGGTTTTCACTTCCATCGAAAACTTTTAAGCGGTCTAACCGTTGCTTTCTCAATTTATTTTTAGGCAACATACCGCTAACTGCTTTTTTCAAAATTTCTCCAAATCCTTTATCGGCAAC\n+>Test_sequece_purge_dups:1080-1985_1\n+ACCTTGTTCATTGTCTGTAACTTTAGCTGACCAGGTCTACCTGAATGAGACCAGTAAGTCTTCTGCTCAAATTTCTTACCTGTTACACGGATTTTTTGGCAATTAGTCACTACTACGTAGTCTCCACAGTCTTGTGACGGATGATAGACCGGCTTATGTCTACCAATTAAGGTAATTGCAATTGCTGAAGCCAATCTACCCAATGTCCTCTTATCACGGGCAACGTCGACATGGTGCCAAAGGCGCGCAAAAGCCAAGCCACTGTGTCCAATCTTCTGCGACATGAATAGGCTATTGTTGATGCTGGTATTGCTTTCTTTTTCTATATGATATCAGTGTATTCATAAGGTCTTTCTCTTTTACTTATTTAGAACGTTTTAAAGATCTCTAAACTACAAGGAAGGCTCCATGCGGGTAACAATCAACATTATAACGATAATTAACTAAACCATAACCGTCTAAGTAACCATAGCGTGCGGTGATTCTTCGCTAGATGGAACTCATGTCTTACTAGTAGCGTGTTTGGTACGTGCAATATAGAGCAAAACATTATATAGACATCGTAATAGCTTTTTATGTGCGGACTGTAATGTTTGTAAGAAGTAAAACCAGTCACTAATATAGTGAAAAAAAGTCAACTTATCGATCTATGTATCTCATAGAAGATGTATTGATTTAATATAACTTATAAAGGTGCTTCTACAGTAAGGTGCTGAGAGGACTTACTATGTCGGCAACAAGTTCAAATCTGAAGCTCTGAGGATTTCGCGAGATGCGCACAATCTGAAGTAATATAAAGATGAAAACACAATACAAAAGGCCTGAAAATCTATATGTCCGATAAGATATCATAGTATTCTTACTCGCAAGCACACATCAGGTACTTGGAAGTGTATGATGAGGTAT\n+>Test_sequece_purge_dups:1987-3249_1\n+AATGGTGGCTTTATTTAGTATATGCCATCGGCCTAATGCTATGCCTAGGCCCGTCGTATATTCATCCAGATGAACATTTCCAATGCATCGAGATTTTGGCTATGCAGTTCATGAAGGTCAAAGGTACCATCCCATGGGAATTTAAATCAAAATTTGCTGCTAGGAGTTACGGCCCCCTATTATTGGTTTACGGGCCTTTGTTCACTATTTTAGAATCTTTTCCCCGAAATTCAGGACAACCCAGCGTTAATTCTGTATTCGATGAGACTACAAAACTATGTGATGTACCTATTGTGCTATCATTTTTTAATACCTAAATTAATAAGGGATGAGAGAAAGGCCGTACAATTCATCAAAAAAAGTCTACTTTTAACTTCTTACGTAACCTGGACGTACCAAACACACACGTTTTCCAATTCCATAGAAACGCTGGCTTTAATCTCAACTTTAACTGTAATGGAAGATATGGTAAACGAAAAAAATATTCAAAGAAGTAATTTCAAAAATTCGGTTATATTGGGACTTATATTTAGTTTTGGTGTTTTTAATAGAGTTACTTTTCCTGCATTTATTTTCTTACCATGTTTGATATTATTCTGGAAGTTTTACCGGGTCCATTGGAAATCCTTTTCTTTACTTTTACTTTCATTTTCATTTTCCTCGTGTCTATTTGTTCTTATTGATACAAATATTTATAACAACGGAAAGGGATTTGTCATTACGCCCTTGAATAACCTGAAATACAACCTCAATGTCCAAAATTTGCAAGTACATGGATTACATCCAAGATACACCCATCTGCTGGTCAATTTACCTCAAATAGTTGGCCCAGTATTGCTGCTAGCGATTTTTTCCGGTTACAAACTCGATAAATTATCTACTTACGCAATCATATCTGGCCTGCTTTTTCTTTCATTCTTTCAACATCAAGAATTAAGATTCCTTGTACCGCTAGTGCCACTACTCGTGACAAACTTAAACTGGACACCTCTGAGTTCCACGTTAGTAAACAAGAAAATTTTCAAGGGAACTTGGCTTCTTTTTAACATAATCATGGCGTTCATCATGGGAATTTCACATCAAGCAGGAATTATCCAATTTTTGGGAGATTACTTCCACTTTCGTACCGAACAAATGGGCGTTCACATATGGTGGAAAACATACTCACCACCCACCTGGATGTATATGAGCAATAACCTAACCGTTTCTTCTCTTATCAATACACAGGATGGTATTGAGTCGATAGATGAAGTGGCATTCAGT\n+>Test_sequece_purge_dups:3251-5412_1\n+TAGGTAACCATCATGTAATAGACCTTAAAGGCTGTGATTTACCACTTTTAACAGAAACAATTAGGCGGCTGCGTTTAAACGGGTCCATAACTCCACTAACTTTAGTAACTCCCAATTCCATGACATCAGAATTGAAAAAGTTGAAGAGAGATGGCACTATTAACTTAATACCCAAAAGAAATTACTTGTTCCATTTGGATTTGGATCATCTTGATTTCAATGATTTCACGACTTTTAAGCCAGGGCTAACAGTGTACTCCATCGAACTACTATAAGACCAGCTATATGAGGAGTTATGCATATATTATGGCTGTGAATTTAAGTTTAAATGATCTTATCCTAGGTATTCTTATAAAAAAGAAGAGTGCTTTAATCGAGCAATGGTTAACTATTTGTTGCATACTCATTTTTTCCCATTGAAATCTCTAATTGTAGGCTGATACAAACTCGGTACTCAGCTCAAGATAGGATTGTTAGTTCTGATATGCAATCTTATTAATCTATGTATAGTACACAACTGTATGAAAACCTCCCGAAGTCTA'..b'CTCATGGATGTATTCCTGACTGAAAACAGAGTTAATGACGAATAGATAGAACGAAATGAAAGTGGTGGTGCTCAGAATGAGCCATAGAATTTGTGACAATATCAGCCAAGACGCTATAATACTTATTTCATTCAGAGAGAACGGCCTGTTGTTTTTAATAAGAATCCACTTTAGATTGATTTTGAACCTTTCTTGAAAATTCTTTGCATCTGCTAGAAGCGATTGCTTGAACTCTCGCTCATTATTTTTTCTCAGCAAAATAGTCTCAATATTGGAAGCCTTGGTAGTGAACTTGTCATTGCTTGGAAATGTTCGGATGTGCCTTTGGGCGATCAAACATCTAACAGGTAACGAACTCTTGTAAGGTGTTATAAAAGGTCTGACATTTCCATGATTAGTTGCGACGTAAGTTCGAATACAGTGTCTTACGAGATGACTTGTAATTGGAAGCAGTGGCCGCTTTATTGTAGGGACCCGTAAACGTGTGATTAGCATGAATTTTATAAACCTCCCACCACCTGATAATCTGTATGTGCCTTTTGTTTTAATACTTCTTGACGCAAATCTACTGTCAACTTTAATATGCATCCCTCCATAGTAAGTCAAGGATCAGCTAGAACCAATAACGAGAAGTAAAAAAAAGTGACAAAAAGTCAAATGTGTCTTTATACGAATTTTTTAACCTACATATGAAGAGTAAGGTCATAAATAATAAATGTAGGGCTAAATGCAGTTAAGATTACTACAGTATTAGGTCTGTTTTTTATCACCTCTTACGGAAAGTGCGAGCGGGAAAAAATTTTTCTTCTTTCCTTATTATCATACCGATGCTCATCACAATGAAAGATACATATTGCATCAATAATAGGCAGTTTTCAATATTCTTCTGTTTAGTTAAGAAAAAGACTTGAAGTGAAAATAAACTACATTATGGTTGCGCCTACTGCTTTGAAAAAGGCTACTGTGACACCTGTAAGTGGACAAGATGGGGGCAGTAGTAGAATT\n+>Test_sequece_purge_dups:7268-9120_1\n+TAGGAATAAATAATACCGAAAGCATCGATGAGGACGATGATGACGACGTTCTGTTAGATGATTCCGACAATAACACAGCAAAAGAAGAGGTAGAGGGCGAAGAAGGTAGCCGGAAAACGCACGAATCTAAGACCGTAGTGGTTGATGACCAGGGGAAACCTCGCTTCACTTCAGCTAGCAAAACACAGGGTAACAAAATAAAATTTGAATCGAGAAAGATCATGGTTCCACCACACAGAATGACACCCTTGAGGAACAGTTGGACAAAAATTTATCCTCCTTTGGTCGAGCACTTGAAGCTGCAAGTCAGAATGAATTTAAAGACCAAATCCGTAGAACTAAGAACGAATCCTAAATTTACCACAGACCCTGGTGCGTTGCAAAAAGGGGCCGATTTTATCAAAGCCTTTACCTTAGGGTTTGATCTTGACGATTCTATCGCACTATTGAGGCTAGATGATTTATATATTGAGACTTTTGAAGTCAAAGATGTCAAGACTCTAACAGGTGACCATTTGTCGAGAGCCATCGGTCGTATTGCCGGTAAAGACGGTAAAACGAAATTTGCGATTGAAAACGCTACAAGAACAAGAATTGTCTTAGCTGACTCTAAAATCCACATTTTGGGCGGGTTCACCCACATCAGAATGGCAAGAGAATCTGTGGTTAGTTTAATTTTGGGTTCCCCTCCAGGTAAAGTTTATGGGAACTTACGTACCGTTGCATCTAGATTAAAAGAACGCTACTAAACATAATTTGTGGGCTTTCATCATCTGTATAATATTTATATGTCGTTTTATGGCGAAATAGAGTGAATAAATAGGTTTTTTTTTCCTTCTTTTTTTTAGGACGCCAAACGCGTAACGTTAGCGGTGATAAATTAGTTTAGTATTATTATCCGGCTATTTGCTTCATGTATTTAACGTCTTCACTGACCACCTTCGCTGCACTAAATCGTATGGTACCATAGCATTAATCTTTTTGAATCAGAGAAGGTTTTCCAATGAAAAGGCACGTGTCTTTATCTGATATATTGACAGGAAATAAGAGAAAAGTGAGAAGACAAGATGCTCTACAGATTACCATCGATGACGAAAATGATACTGAATCAGGCACTTTTGACGCCAGAACAGCCAAACATGACGATTCTTCAGTAATATTTTTAAACCACTCTGTTGTGAAGCCAATTGAAGCTGTTTCTACTAATCACAAATCTGCAAAGGAGTTTTTGATGACGAAACGCACAAAAGAAAAATGCGATGACGACGATGATGATCTTATTGTAATCAGTGATAAGAGTCCCAAAAGTGAGACTAATTGTAGCAAAATTGCACTTTCGCAGGAGCATGAAGATGATATTTCTATAATTTCCACATCGAGAATCAAATCATCGCTTCTTAATGAAAGAGCATCAAAGATTAAAAACTTCCTTAAACATGAGACAACCGACACGTTCAAAAGATTAAATAGCATCTCTAAACTAAATGAAATAGAGCCACCATTACCATTACATCAATCGATTTTCCCAGTAGGTGACAAAGAGCTGTCAGATCGGAGTGTTGATATCCCGCTTCCTTTCCGCACAATACCGCCATTAAATCATAATTTTCTTCCTAGTGACTATGAATCGTTGAAAGACAAGAATTCAGCATCTTGTATTCCTGTTCGCTATCAAGCACCGGTATTACTTGGCACAAATATTAAAAGAAATACAACTCTCACATGGCCGCAGCTATTCAAGCCTGTCACTTTAAAACAAGTATTAATTGAACCCAAATTGAAACTTCGAATCAAAAATTGGATTGAAACATCCTTTCATACGCTAGAAAAGCCTACCTTGAGGAACCGTCTAT\n+>Test_sequece_purge_dups:9122-10180_1\n+GAACAGAATAAATCCCAATAAACAACAGGGATCTGGTGATGAGCTTGCCAACTTCATTGTACCTGATCTCGAAGAAGACGAAAACTTGCGTCCAGATTTCTACAGAAATGGCGAAGCAAATAGCAGCTTGAGCGAATTTGTTCCACTAATGATATTACACGGAAATTCAATAGGCAAGAAAACGCTGATACAGACAATCATGAGAGAGATTGCTGGCGACGATAATTCTTACCAGATATATGAAGTTAATTCAAACATGAACAGGAGCAAAAAAGATTTGCTTGATATCCTACTAGATTTTACCACCACACACTATGTCAAAGATTCCTCAAAAAGGAAAAGTGACTACGGGCTTGTTTTATTTAATGATGTTGATGTTTTATTTAAAGAACATGATAGGGGATATTGGGCAATGATCAGCAAGCTTTGTGAATTTTCACGAAGGCCCCTCGTATTGACTTGTAAGGATTTGTCACTAGTTCCTAGTGAACTTATTGCCTTGGCAAGTGAACAAAACTCTTTGTTTCATACTAAGAAAATTAGTACATCCACAGTCTATGCGTTTCTAACAAAATATTTAAAGTCCCTTGAAATCGAAGTTTGTGACGACTGGCTTCGCGATGTTGTAAAACAAAATAATGCGGATATTAGGAAGTGCTTGATGCACTTGCAGTTTTGGTGCGTTGATACTGGGGCTGATTTGATTTCATCCAAGAACAGACTACCGGTCCTAACATCAACTCTTGGTTCAAGCGTTAAAGATATATCGCAATTAACTGATCTACTCTCCATAAATGATGTTATTGGTCAAGCAACGCTCAATCGTTCCATGGTTAGACAAGAAATAGATTCTACCACAATGACCCCAGAAAAAGTTAATACTTTCCAGGATCAAAATCTGGATGATGAAATGAAATTAAAATTTGATTACGTGATAGATTATAAATTGCATTTAAATGACCCCAATAGACAACCATTATTACCCTTTGAATTGAATATTTACCAACACATCCAAGAACAATTGGAAGCTCGGTATTCCTATGTTAGAGAAGCAAACCA\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/hist.png |
| b |
| Binary file test-data/hist.png has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/hist_05.png |
| b |
| Binary file test-data/hist_05.png has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/hist_11.png |
| b |
| Binary file test-data/hist_11.png has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/hist_options.png |
| b |
| Binary file test-data/hist_options.png has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/ngsc_cov_08.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/ngsc_cov_08.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -0,0 +1,336 @@\n+>>chrM\t0\n+1\t0\t0\n+>GTATTCTTACTCCATAAACACATAGGCTTGGTCCTAGCCTTTTTATTAGT\t0\n+1\t0\t0\n+>CTAAATCACGTCTCTACGATTAAAAGGAGCAGGTATCAAGCACACTAGAA\t0\n+1\t0\t0\n+>ATAAAAATTAAGCTATGAACGAAAGTTCGACTAAGTCATATTAAATAAGG\t0\n+1\t0\t0\n+>ATAAATCTCCGGCGTAAAGCGTGTCAAAGACTAATACCAAAATAAAGTTA\t0\n+1\t0\t0\n+>AAGTGACTTTAATACCTCTGACTACACGATAGCTAAGACCCAAACTGGGA\t0\n+1\t0\t0\n+>AAGCTATTCGCCAGAGTACTACTAGCAACAGCCTAAAACTCAAAGGACTT\t0\n+1\t0\t0\n+>CCGATAAACCCCACCATCCCTTGCTAATTCAGCCTATATACCGCCATCTT\t0\n+1\t0\t0\n+>AACGTTAGGTCAAGGTGTAGCCCATGGGATGGAGAGAAATGGGCTACATT\t0\n+1\t0\t0\n+>TGGAGACTAAAGGAGGATTTAGCAGTAAATTAAGAATAGAGAGCTTAATT\t0\n+1\t0\t0\n+>CACAAATCATAACATAACATAAAACCGTGACCCAAACATATGAAAGGAGA\t0\n+1\t0\t0\n+>TGTAGCTTAAACAAAGCATCCAGCTTACACCTAGAAGATTTCACTCAAAA\t0\n+1\t0\t0\n+>TTAGTCACTTAACTAAAACATTCACCAAACCATTAAAGTATAGGAGATAG\t0\n+1\t0\t0\n+>ATGCATTAAAAGTACTAAACAGCAAAGCTTACCCCTTTTACCTTTTGCAT\t0\n+1\t0\t0\n+>CGAAACCAGACGAGCTACCTATGAACAGTTACAAATGAACCAACTCATCT\t0\n+1\t0\t0\n+>AGCCTGGTGATAGCTGGTTGTCCAGAAACAGAATTTCAGTTCAAATTTAA\t0\n+1\t0\t0\n+>AAAGGTACAGCTTTTTAGATACAGGTTACAACCTTCATTAGAGAGTAAGA\t0\n+1\t0\t0\n+>TTCAAGCTCAACGACACATCTATCTTAATCCCAACAATCAACCCAAACTA\t0\n+1\t0\t0\n+>TTAATATGAGTAACAAGAATTATTTCTCCTTGCATAAGCTTATATCAGAA\t0\n+1\t0\t0\n+>TCATCTATTTAAACCATTGTTAACCCAACACAGGCATGCATCTATAAGGA\t0\n+1\t0\t0\n+>ACCAAAAACATCACCTCTAGCATTTCCAGTATTAGAGGCACTGCCTGCCC\t0\n+1\t0\t0\n+>taatcacttgttccctaaatagggacttgtatgaatggccacacgagggt\t0\n+1\t0\t0\n+>cgggaatgactaaataagacgagaagaccctatggagcttTAATTAACTG\t0\n+1\t0\t0\n+>TTGATTGAATCAGCAATTTCGGTTGGGGTGACCTCGGAGAACAAAACAAC\t0\n+1\t0\t0\n+>TTGATCCAAACCATTGATCAACGGAACAAGTTACCCTAGGGATAACAGCG\t0\n+1\t0\t0\n+>TTGGATCAAGACATCCTAATGGTGCAACCGCTATTAAGGGTTCGTTTGTT\t0\n+1\t0\t0\n+>CGGTTTCTATCTATTCTATACTTTTCCCAGTACGAAAGGACAAGAAAAGT\t0\n+1\t0\t0\n+>AATCTAACTAATTTATAACTTCTACCGCCCTAGAACAGGGCTCgttaggg\t0\n+1\t0\t0\n+>caactcctctccctaacaacaTGTTCATAATTAACGTCCTCCTCCTAATT\t0\n+1\t0\t0\n+>CTTAGGCTATATGCAACTTCGCAAAGGACCCAACATCGTAGGCCCCTATG\t0\n+1\t0\t0\n+>CTACAACCACTAACATCATCGACATCCATATTCATCATCGCACCAATCCT\t0\n+1\t0\t0\n+>CACTAATCAACATAAACCTAGGAATTCTATTCATACTAGCCATGTCCAGC\t0\n+1\t0\t0\n+>CGCCCTAATTGGAGCTCTACGAGCAGTAGCACAAACCATCTCATACGAAG\t0\n+1\t0\t0\n+>ACATTATCAACACTTATTATTACCCAAGAATACCTCTGATTAATCTTCCC\t0\n+1\t0\t0\n+>ACCGAGCTCCATTTGACCTAACAGAAGGAGAATCAGAACTCGTCTCTGGA\t0\n+1\t0\t0\n+>ATACGCAAACATCATCATGATAAACATCTTCACAACAACCCTATTTCTAG\t0\n+1\t0\t0\n+>ATTAAAGCTCTCCTTCTAACATGTTCCTTCCTATGAATCCGAGCATCCTA\t0\n+1\t0\t0\n+>TACCACTCACACTAGCCCTCTGCATATGACACGTCTCACTTCCAATCATA\t0\n+1\t0\t0\n+>ACTTTGATAGAGTAAAACATAGAGGCTCAAACCCTCTTATTTctagaact\t0\n+1\t0\t0\n+>ttacaccatgtcctaCAAGTAAGGTCAGCTAAATAAGCTATCGGGCCCAT\t0\n+1\t0\t0\n+>CTTCACAACTATTCTAATAACAGTTCTTCTAGGAACTATAATCGTTATAA\t0\n+1\t0\t0\n+>GCCATTATCCCTATCCTAATAAAAAAGTACAATCCCCGAACCATAGAAGC\t0\n+1\t0\t0\n+>TAGCGATCATCATTAACCTCATACACTCAGGCCAATGAACAATCACAAAA\t0\n+1\t0\t0\n+>ACTTGGACTCACACCATTCCACTTCTGAGTACCCGAAGTCACACAGGGCA\t0\n+1\t0\t0\n+>ATATCAATCCTATATCAAATCTCACCCTCAATTAACCTAAATATCTTATT\t0\n+1\t0\t0\n+>AAACCCAACTACGAAAAATCATAGCATACTCGTCAATCGCGCATATAGGA\t0\n+1\t0\t0\n+>ATTAATTTACATTATAATAACACTCACAATATTCATACTATTTATCCACA\t0\n+1\t0\t0\n+>CTAACCACTACACTAATCTTAATTACCTTACTATCCATAGGAGGCCTCCC\t0\n+1\t0\t0\n+>AAAATAGCAGCATCATCCTCCCCACACTAATAGCCATTATAGCACTACTC\t0\n+1\t0\t0\n+>CCCATCCACAAACAACATAAAAATAAAATGACAATTCGAAACCAAACGAA\t0\n+1\t0\t0\n+>ACCCCCATACTATCAATTTTGGACTAGGAATTTAGGTTAACATCCCAGAC\t0\n+1\t0\t0\n+>TAAGGACTGCGAGACTCTATCTCACATCAATTGAACGCAAATCAAACTCT\t0\n+1\t0\t0\n+>TTTAGTTAACAGCTAAATACCCTAATCAACTGGCTTCAATCTACTTCTCC\t0\n+1\t0\t0\n+>TCCTTTGAATTTGCAATTCAATGTGAAAATTCACCACGGGACTTGATAAG\t0\n+1\t0\t0\n+>CCATCTTACCTATGTTCATCAACCGCTGACTATTTTCAACTAACCACAAA\t0\n+1\t0\t0\n+>AACTGCCCTAAGCCTCCTAATCCGTGCTGAATTAGGCCAACCTGGGACCC\t0\n+1\t0\t0\n+>GTAATAATTTTCTTTATGGTCATACCCATTATAATCGGAGGATTCGGAAA\t0\n+1\t0\t0\n+>TAAACAACATAAGCTTCTGATTACTTCCCCCATCATTCCTACTTCTTCTC\t0\n+1\t0\t0\n+>TCCTCTAGCTGGAAATCTGGCGCATGCAGGAGCCTCTGTTGACTTAACCA\t0\n+1\t0\t0\n+>TTTATTACCACAATCATTAACATAAAACCACCAGCCCTATCCCAATATCA\t0\n+1\t0\t0\n+>TAGCCCTCCCGGTCCTAGCAGCAGGCATTACCATGCTTCTCACAGACCGT\t0\n+1\t0\t0\n+>TTATCAACACCTATTCTGATTCTTCGGACACCCCGAAGTCTATATTCTTA\t0\n+1\t0\t0\n+>AAAAAGGAACCTTTTGGCTACATGGGTATAGTGTGAGCTATAATATCCAT\t0\n+1\t0\t0\n+>TAGACGTTGACACACGAGCATACTTCACATCAGCTACCATAATCATCGCT\t0\n+1\t0\t0\n+>AAATATCAAATGATCTCCAGCTATACTCTGAGCTCTAGGCTTCATCTTCT\t0\n+1\t'..b'0\n+1\t0\t0\n+>GACTATCAAAAAAGAATATAATCTGAATCAACACTACAACCTATAGTCTA\t0\n+1\t0\t0\n+>CCTAAACTTCTCACTAATATTCTTCTCCGATCCCCTATCAGCCCCACTTC\t0\n+1\t0\t0\n+>CATCTATCTAAGGAACCACTAATCCGAAAAAAACTCTACATCACCATGCT\t0\n+1\t0\t0\n+>TCTCCTTCTACATCCTATTTGAAGCCACATTAGTTCCAACACTAATTATC\t0\n+1\t0\t0\n+>CCTATTCTACACACTAATAGGTTCCCTCCCACTCTTAGTTGCACTAATCT\t0\n+1\t0\t0\n+>AACCAAGCACTACCCGACTCTTGATCCAATATTTTCCTATGACTAGCATG\t0\n+1\t0\t0\n+>TCCCAAAAGCCCATGTAGAAGCCCCAATTGCCGGATCCATAGTGCTAGCA\t0\n+1\t0\t0\n+>ACTAAACCCCCAAACTAGCTTTATAGCCTACCCCTTCCTCATACTATCCC\t0\n+1\t0\t0\n+>AAATCACTTATTGCATACTCCTCTGTCAGCCACATAGCCCTAGTAATCGT\t0\n+1\t0\t0\n+>TAATCGCTCACGGCCTTACATCATCAATACTATTCTGCCTGGCAAACTCA\t0\n+1\t0\t0\n+>AACACTTCTTCCCCTTATAGCAGCCTGATGACTATTAGCCAGCCTAACCA\t0\n+1\t0\t0\n+>ATATCATCATTCTCATGATCAAATATTACCATTATCCTAATAGGAGCCAA\t0\n+1\t0\t0\n+>GAGGGAAATACACACACCATATCAACAGCATTAAACCTTCATTTACACGA\t0\n+1\t0\t0\n+>TAACCCTAAAATTATCCTAGGCTTTACGTACTGTAAATATAGTTTAACAA\t0\n+1\t0\t0\n+>CGAGAAAGTATGCAAGAACTGCTAATTCATGCCCCCATGTCCAACAAACA\t0\n+1\t0\t0\n+>CCAAAAAATTGGTGCAACTCCAAATAAAAGTAATCAACATGTTCTCCTCC\t0\n+1\t0\t0\n+>CTTCAATACCTACAAAAACAGCACGTTCCCGCATCATGTAAAAAACACTA\t0\n+1\t0\t0\n+>TCTGGACAAGAAACAATTATCTCAAACTGACACTGAATAACCATACAAAC\t0\n+1\t0\t0\n+>TACCAGTAGCCCTATTCGTAACATGATCTATTATGGAATTCTCCCTATGA\t0\n+1\t0\t0\n+>ATTCCTCATCACTATAATAATTCTAGTCACAGCTAACAACCTTTTCCAAC\t0\n+1\t0\t0\n+>TGATGATACGGCCGAACAGATGCCAACACCGCGGCCCTTCAAGCAATCCT\t0\n+1\t0\t0\n+>TATTCAACACCAACACATGAGACCTCCAACAAATCTTCATACTCGACCCC\t0\n+1\t0\t0\n+>ATCCGCTCAATTTGGACTCCACCCATGACTTCCTTCAGCCATAGAGGGCC\t0\n+1\t0\t0\n+>GTCTTCCTGCTAATCCGCTTCCATCCACTAATAGAAAACAACAAAACAAT\t0\n+1\t0\t0\n+>TCTGCGCACTCACTCAAAACGATATCAAAAAAATCATTGCTTTCTCCACC\t0\n+1\t0\t0\n+>CCTAGCATTCCTCCACATTTGCACTCACGCATTCTTCAAAGCTATACTAT\t0\n+1\t0\t0\n+>CGAAAAATAGGCGGACTATTTAATGCAATACCCTTCACCACCACATCTCT\t0\n+1\t0\t0\n+>ACTCCAAAGACCTCATCATCGAAACCGCCAACACATCGTACACCAACGCC\t0\n+1\t0\t0\n+>TACCCGAATCATCTTCTTTGCACTCCTAGGGCAACCCCGCTTCCTCCCTC\t0\n+1\t0\t0\n+>CTCTTAATTGGCAGCATTTTTGCCGGATTCTTCATCTCCAACAATATCTA\t0\n+1\t0\t0\n+>CCCTCGCAGTAACCATCCTAGGATTTACACTAGCCCTAGAACTAAGCTTG\t0\n+1\t0\t0\n+>CAACCTCCTAGGATACTACCCAACAATTATACACCGACTCCCACCGCTCG\t0\n+1\t0\t0\n+>TGACTAGAAAACATCCTGCCAAAATCTATCTCCCAGTTCCAAATAAAAAC\t0\n+1\t0\t0\n+>CATTCCTCATCACCCTTACCCTAAGCATACTACTTTTTAATCTCCACGAG\t0\n+1\t0\t0\n+>ATCACAACCCAAGCCCCATAACTATACAATGCAGCAGCCCCTATAATTTC\t0\n+1\t0\t0\n+>CACCACTAAACTTAAACACTACCCCCACTTCCTCACTCTTCAGAACATAT\t0\n+1\t0\t0\n+>AGTCGTATTAGACACCCATACCTCAGGATACTGCTCAGTAGCCATAGCCG\t0\n+1\t0\t0\n+>ATCAACCCCAAAAAGGACCCTCCAAAATTCATAATAATACCACAACCTAC\t0\n+1\t0\t0\n+>AAGAAAACCCCACAAAACTAACAACAAAAATAACACTCAAAATAAACACA\t0\n+1\t0\t0\n+>GAAAAATCATCGTTGTATTTCAACTATAAGAACACCAATGACAAACATCC\t0\n+1\t0\t0\n+>CCAGCCCCCTCAAACATTTCATCATGATGAAACTTCGGCTCCCTCCTAGG\t0\n+1\t0\t0\n+>ACACATCAGACACGACAACTGCCTTCTCATCCGTCACTCACATCTGCCGA\t0\n+1\t0\t0\n+>AATATTTTTTATCTGCCTCTTCATTCACGTAGGACGCGGCCTCTACTACG\t0\n+1\t0\t0\n+>ACAGTTATAGCTACAGCATTCATGGGCTATGTCCTACCATGAGGCCAAAT\t0\n+1\t0\t0\n+>ACATCGGTACTACCCTCGTCGAGTGAATCTGAGGTGGATTCTCAGTAGAC\t0\n+1\t0\t0\n+>CATCACAGCCCTGGTAGTCGTACATTTACTATTTCTTCACGAAACAGGAT\t0\n+1\t0\t0\n+>CCATATTATACAATTAAAGACATCCTAGGACTCCTCCTCCTGATCTTGCT\t0\n+1\t0\t0\n+>ACTACACCCCAGCTAACCCTCTCAGCACTCCCCCTCATATTAAACCAGAA\t0\n+1\t0\t0\n+>AGGCGGCGTATTAGCCCTAATCCTCTCCATCCTGATCCTAGCACTCATCC\t0\n+1\t0\t0\n+>CAATGCGTATTCTGACTCTTAGTGGCAGACTTACTGACACTAACATGAAT\t0\n+1\t0\t0\n+>CAATCCTCTACTTCTCCCTAATTCTCATTTTTATACCACTCGCAAGCACC\t0\n+1\t0\t0\n+>ACCCTGGTCTTGTAAACCAGAAAAGGGGGAAAACGTTTCCTCCCAAGGAC\t0\n+1\t0\t0\n+>TACTTAAACTATTCCTTGATTTCTTCCCCTAAACGACAACAATTTACCCT\t0\n+1\t0\t0\n+>CTGACATGCAATATCTTATGAATGGCCTATGTACGTCGTGCATTAAATTG\t0\n+1\t0\t0\n+>GTACATTATATTATTGATCGTGCATACCCCATCCAAGTCAAATCATTTCC\t0\n+1\t0\t0\n+>GCGGGAAATCAGCAACCCTCCCAACTACGTGTCCCAATCCTCGCTCCGGG\t0\n+1\t0\t0\n+>TCTTTCTTCAGGGCCATTCCCACCCAACCTCGCCCATTCTTTCCCCTTAA\t0\n+1\t0\t0\n+>CTGTGATTTCATGCATTTGGTATCTTTTTATATTTGGGGATGCTATGACT\t0\n+1\t0\t0\n+>CTTAAATTGAACGTTATTCCTCCGCATCAGCAACCATAAGGTGTTATTCA\t0\n+1\t0\t0\n+>ctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacct\t0\n+1\t0\t0\n+>gcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgc\t0\n+1\t0\t0\n+>ctgtgcacctACCCGCGCAGTAAGCAAGTAATATAGCTTTCTTAATCAAA\t0\n+1\t0\t0\n+>GCCAAACCCCAAAAACAAGACTAAACAATGCACAATACTTCATGAAGCTT\t0\n+1\t0\t0\n+>GAACTTTCCCCCCGCCATTAATACCAACATGCTACTTTAATCAATAAAAT\t0\n+1\t0\t0\n+>TTCTTCCCCC\t0\n+1\t0\t0\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/ngsc_out.cov --- a/test-data/ngsc_out.cov Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,336 +0,0 @@\n->>chrM\t0\n-1\t0\t0\n->GTATTCTTACTCCATAAACACATAGGCTTGGTCCTAGCCTTTTTATTAGT\t0\n-1\t0\t0\n->CTAAATCACGTCTCTACGATTAAAAGGAGCAGGTATCAAGCACACTAGAA\t0\n-1\t0\t0\n->ATAAAAATTAAGCTATGAACGAAAGTTCGACTAAGTCATATTAAATAAGG\t0\n-1\t0\t0\n->ATAAATCTCCGGCGTAAAGCGTGTCAAAGACTAATACCAAAATAAAGTTA\t0\n-1\t0\t0\n->AAGTGACTTTAATACCTCTGACTACACGATAGCTAAGACCCAAACTGGGA\t0\n-1\t0\t0\n->AAGCTATTCGCCAGAGTACTACTAGCAACAGCCTAAAACTCAAAGGACTT\t0\n-1\t0\t0\n->CCGATAAACCCCACCATCCCTTGCTAATTCAGCCTATATACCGCCATCTT\t0\n-1\t0\t0\n->AACGTTAGGTCAAGGTGTAGCCCATGGGATGGAGAGAAATGGGCTACATT\t0\n-1\t0\t0\n->TGGAGACTAAAGGAGGATTTAGCAGTAAATTAAGAATAGAGAGCTTAATT\t0\n-1\t0\t0\n->CACAAATCATAACATAACATAAAACCGTGACCCAAACATATGAAAGGAGA\t0\n-1\t0\t0\n->TGTAGCTTAAACAAAGCATCCAGCTTACACCTAGAAGATTTCACTCAAAA\t0\n-1\t0\t0\n->TTAGTCACTTAACTAAAACATTCACCAAACCATTAAAGTATAGGAGATAG\t0\n-1\t0\t0\n->ATGCATTAAAAGTACTAAACAGCAAAGCTTACCCCTTTTACCTTTTGCAT\t0\n-1\t0\t0\n->CGAAACCAGACGAGCTACCTATGAACAGTTACAAATGAACCAACTCATCT\t0\n-1\t0\t0\n->AGCCTGGTGATAGCTGGTTGTCCAGAAACAGAATTTCAGTTCAAATTTAA\t0\n-1\t0\t0\n->AAAGGTACAGCTTTTTAGATACAGGTTACAACCTTCATTAGAGAGTAAGA\t0\n-1\t0\t0\n->TTCAAGCTCAACGACACATCTATCTTAATCCCAACAATCAACCCAAACTA\t0\n-1\t0\t0\n->TTAATATGAGTAACAAGAATTATTTCTCCTTGCATAAGCTTATATCAGAA\t0\n-1\t0\t0\n->TCATCTATTTAAACCATTGTTAACCCAACACAGGCATGCATCTATAAGGA\t0\n-1\t0\t0\n->ACCAAAAACATCACCTCTAGCATTTCCAGTATTAGAGGCACTGCCTGCCC\t0\n-1\t0\t0\n->taatcacttgttccctaaatagggacttgtatgaatggccacacgagggt\t0\n-1\t0\t0\n->cgggaatgactaaataagacgagaagaccctatggagcttTAATTAACTG\t0\n-1\t0\t0\n->TTGATTGAATCAGCAATTTCGGTTGGGGTGACCTCGGAGAACAAAACAAC\t0\n-1\t0\t0\n->TTGATCCAAACCATTGATCAACGGAACAAGTTACCCTAGGGATAACAGCG\t0\n-1\t0\t0\n->TTGGATCAAGACATCCTAATGGTGCAACCGCTATTAAGGGTTCGTTTGTT\t0\n-1\t0\t0\n->CGGTTTCTATCTATTCTATACTTTTCCCAGTACGAAAGGACAAGAAAAGT\t0\n-1\t0\t0\n->AATCTAACTAATTTATAACTTCTACCGCCCTAGAACAGGGCTCgttaggg\t0\n-1\t0\t0\n->caactcctctccctaacaacaTGTTCATAATTAACGTCCTCCTCCTAATT\t0\n-1\t0\t0\n->CTTAGGCTATATGCAACTTCGCAAAGGACCCAACATCGTAGGCCCCTATG\t0\n-1\t0\t0\n->CTACAACCACTAACATCATCGACATCCATATTCATCATCGCACCAATCCT\t0\n-1\t0\t0\n->CACTAATCAACATAAACCTAGGAATTCTATTCATACTAGCCATGTCCAGC\t0\n-1\t0\t0\n->CGCCCTAATTGGAGCTCTACGAGCAGTAGCACAAACCATCTCATACGAAG\t0\n-1\t0\t0\n->ACATTATCAACACTTATTATTACCCAAGAATACCTCTGATTAATCTTCCC\t0\n-1\t0\t0\n->ACCGAGCTCCATTTGACCTAACAGAAGGAGAATCAGAACTCGTCTCTGGA\t0\n-1\t0\t0\n->ATACGCAAACATCATCATGATAAACATCTTCACAACAACCCTATTTCTAG\t0\n-1\t0\t0\n->ATTAAAGCTCTCCTTCTAACATGTTCCTTCCTATGAATCCGAGCATCCTA\t0\n-1\t0\t0\n->TACCACTCACACTAGCCCTCTGCATATGACACGTCTCACTTCCAATCATA\t0\n-1\t0\t0\n->ACTTTGATAGAGTAAAACATAGAGGCTCAAACCCTCTTATTTctagaact\t0\n-1\t0\t0\n->ttacaccatgtcctaCAAGTAAGGTCAGCTAAATAAGCTATCGGGCCCAT\t0\n-1\t0\t0\n->CTTCACAACTATTCTAATAACAGTTCTTCTAGGAACTATAATCGTTATAA\t0\n-1\t0\t0\n->GCCATTATCCCTATCCTAATAAAAAAGTACAATCCCCGAACCATAGAAGC\t0\n-1\t0\t0\n->TAGCGATCATCATTAACCTCATACACTCAGGCCAATGAACAATCACAAAA\t0\n-1\t0\t0\n->ACTTGGACTCACACCATTCCACTTCTGAGTACCCGAAGTCACACAGGGCA\t0\n-1\t0\t0\n->ATATCAATCCTATATCAAATCTCACCCTCAATTAACCTAAATATCTTATT\t0\n-1\t0\t0\n->AAACCCAACTACGAAAAATCATAGCATACTCGTCAATCGCGCATATAGGA\t0\n-1\t0\t0\n->ATTAATTTACATTATAATAACACTCACAATATTCATACTATTTATCCACA\t0\n-1\t0\t0\n->CTAACCACTACACTAATCTTAATTACCTTACTATCCATAGGAGGCCTCCC\t0\n-1\t0\t0\n->AAAATAGCAGCATCATCCTCCCCACACTAATAGCCATTATAGCACTACTC\t0\n-1\t0\t0\n->CCCATCCACAAACAACATAAAAATAAAATGACAATTCGAAACCAAACGAA\t0\n-1\t0\t0\n->ACCCCCATACTATCAATTTTGGACTAGGAATTTAGGTTAACATCCCAGAC\t0\n-1\t0\t0\n->TAAGGACTGCGAGACTCTATCTCACATCAATTGAACGCAAATCAAACTCT\t0\n-1\t0\t0\n->TTTAGTTAACAGCTAAATACCCTAATCAACTGGCTTCAATCTACTTCTCC\t0\n-1\t0\t0\n->TCCTTTGAATTTGCAATTCAATGTGAAAATTCACCACGGGACTTGATAAG\t0\n-1\t0\t0\n->CCATCTTACCTATGTTCATCAACCGCTGACTATTTTCAACTAACCACAAA\t0\n-1\t0\t0\n->AACTGCCCTAAGCCTCCTAATCCGTGCTGAATTAGGCCAACCTGGGACCC\t0\n-1\t0\t0\n->GTAATAATTTTCTTTATGGTCATACCCATTATAATCGGAGGATTCGGAAA\t0\n-1\t0\t0\n->TAAACAACATAAGCTTCTGATTACTTCCCCCATCATTCCTACTTCTTCTC\t0\n-1\t0\t0\n->TCCTCTAGCTGGAAATCTGGCGCATGCAGGAGCCTCTGTTGACTTAACCA\t0\n-1\t0\t0\n->TTTATTACCACAATCATTAACATAAAACCACCAGCCCTATCCCAATATCA\t0\n-1\t0\t0\n->TAGCCCTCCCGGTCCTAGCAGCAGGCATTACCATGCTTCTCACAGACCGT\t0\n-1\t0\t0\n->TTATCAACACCTATTCTGATTCTTCGGACACCCCGAAGTCTATATTCTTA\t0\n-1\t0\t0\n->AAAAAGGAACCTTTTGGCTACATGGGTATAGTGTGAGCTATAATATCCAT\t0\n-1\t0\t0\n->TAGACGTTGACACACGAGCATACTTCACATCAGCTACCATAATCATCGCT\t0\n-1\t0\t0\n->AAATATCAAATGATCTCCAGCTATACTCTGAGCTCTAGGCTTCATCTTCT\t0\n-1\t'..b'0\n-1\t0\t0\n->GACTATCAAAAAAGAATATAATCTGAATCAACACTACAACCTATAGTCTA\t0\n-1\t0\t0\n->CCTAAACTTCTCACTAATATTCTTCTCCGATCCCCTATCAGCCCCACTTC\t0\n-1\t0\t0\n->CATCTATCTAAGGAACCACTAATCCGAAAAAAACTCTACATCACCATGCT\t0\n-1\t0\t0\n->TCTCCTTCTACATCCTATTTGAAGCCACATTAGTTCCAACACTAATTATC\t0\n-1\t0\t0\n->CCTATTCTACACACTAATAGGTTCCCTCCCACTCTTAGTTGCACTAATCT\t0\n-1\t0\t0\n->AACCAAGCACTACCCGACTCTTGATCCAATATTTTCCTATGACTAGCATG\t0\n-1\t0\t0\n->TCCCAAAAGCCCATGTAGAAGCCCCAATTGCCGGATCCATAGTGCTAGCA\t0\n-1\t0\t0\n->ACTAAACCCCCAAACTAGCTTTATAGCCTACCCCTTCCTCATACTATCCC\t0\n-1\t0\t0\n->AAATCACTTATTGCATACTCCTCTGTCAGCCACATAGCCCTAGTAATCGT\t0\n-1\t0\t0\n->TAATCGCTCACGGCCTTACATCATCAATACTATTCTGCCTGGCAAACTCA\t0\n-1\t0\t0\n->AACACTTCTTCCCCTTATAGCAGCCTGATGACTATTAGCCAGCCTAACCA\t0\n-1\t0\t0\n->ATATCATCATTCTCATGATCAAATATTACCATTATCCTAATAGGAGCCAA\t0\n-1\t0\t0\n->GAGGGAAATACACACACCATATCAACAGCATTAAACCTTCATTTACACGA\t0\n-1\t0\t0\n->TAACCCTAAAATTATCCTAGGCTTTACGTACTGTAAATATAGTTTAACAA\t0\n-1\t0\t0\n->CGAGAAAGTATGCAAGAACTGCTAATTCATGCCCCCATGTCCAACAAACA\t0\n-1\t0\t0\n->CCAAAAAATTGGTGCAACTCCAAATAAAAGTAATCAACATGTTCTCCTCC\t0\n-1\t0\t0\n->CTTCAATACCTACAAAAACAGCACGTTCCCGCATCATGTAAAAAACACTA\t0\n-1\t0\t0\n->TCTGGACAAGAAACAATTATCTCAAACTGACACTGAATAACCATACAAAC\t0\n-1\t0\t0\n->TACCAGTAGCCCTATTCGTAACATGATCTATTATGGAATTCTCCCTATGA\t0\n-1\t0\t0\n->ATTCCTCATCACTATAATAATTCTAGTCACAGCTAACAACCTTTTCCAAC\t0\n-1\t0\t0\n->TGATGATACGGCCGAACAGATGCCAACACCGCGGCCCTTCAAGCAATCCT\t0\n-1\t0\t0\n->TATTCAACACCAACACATGAGACCTCCAACAAATCTTCATACTCGACCCC\t0\n-1\t0\t0\n->ATCCGCTCAATTTGGACTCCACCCATGACTTCCTTCAGCCATAGAGGGCC\t0\n-1\t0\t0\n->GTCTTCCTGCTAATCCGCTTCCATCCACTAATAGAAAACAACAAAACAAT\t0\n-1\t0\t0\n->TCTGCGCACTCACTCAAAACGATATCAAAAAAATCATTGCTTTCTCCACC\t0\n-1\t0\t0\n->CCTAGCATTCCTCCACATTTGCACTCACGCATTCTTCAAAGCTATACTAT\t0\n-1\t0\t0\n->CGAAAAATAGGCGGACTATTTAATGCAATACCCTTCACCACCACATCTCT\t0\n-1\t0\t0\n->ACTCCAAAGACCTCATCATCGAAACCGCCAACACATCGTACACCAACGCC\t0\n-1\t0\t0\n->TACCCGAATCATCTTCTTTGCACTCCTAGGGCAACCCCGCTTCCTCCCTC\t0\n-1\t0\t0\n->CTCTTAATTGGCAGCATTTTTGCCGGATTCTTCATCTCCAACAATATCTA\t0\n-1\t0\t0\n->CCCTCGCAGTAACCATCCTAGGATTTACACTAGCCCTAGAACTAAGCTTG\t0\n-1\t0\t0\n->CAACCTCCTAGGATACTACCCAACAATTATACACCGACTCCCACCGCTCG\t0\n-1\t0\t0\n->TGACTAGAAAACATCCTGCCAAAATCTATCTCCCAGTTCCAAATAAAAAC\t0\n-1\t0\t0\n->CATTCCTCATCACCCTTACCCTAAGCATACTACTTTTTAATCTCCACGAG\t0\n-1\t0\t0\n->ATCACAACCCAAGCCCCATAACTATACAATGCAGCAGCCCCTATAATTTC\t0\n-1\t0\t0\n->CACCACTAAACTTAAACACTACCCCCACTTCCTCACTCTTCAGAACATAT\t0\n-1\t0\t0\n->AGTCGTATTAGACACCCATACCTCAGGATACTGCTCAGTAGCCATAGCCG\t0\n-1\t0\t0\n->ATCAACCCCAAAAAGGACCCTCCAAAATTCATAATAATACCACAACCTAC\t0\n-1\t0\t0\n->AAGAAAACCCCACAAAACTAACAACAAAAATAACACTCAAAATAAACACA\t0\n-1\t0\t0\n->GAAAAATCATCGTTGTATTTCAACTATAAGAACACCAATGACAAACATCC\t0\n-1\t0\t0\n->CCAGCCCCCTCAAACATTTCATCATGATGAAACTTCGGCTCCCTCCTAGG\t0\n-1\t0\t0\n->ACACATCAGACACGACAACTGCCTTCTCATCCGTCACTCACATCTGCCGA\t0\n-1\t0\t0\n->AATATTTTTTATCTGCCTCTTCATTCACGTAGGACGCGGCCTCTACTACG\t0\n-1\t0\t0\n->ACAGTTATAGCTACAGCATTCATGGGCTATGTCCTACCATGAGGCCAAAT\t0\n-1\t0\t0\n->ACATCGGTACTACCCTCGTCGAGTGAATCTGAGGTGGATTCTCAGTAGAC\t0\n-1\t0\t0\n->CATCACAGCCCTGGTAGTCGTACATTTACTATTTCTTCACGAAACAGGAT\t0\n-1\t0\t0\n->CCATATTATACAATTAAAGACATCCTAGGACTCCTCCTCCTGATCTTGCT\t0\n-1\t0\t0\n->ACTACACCCCAGCTAACCCTCTCAGCACTCCCCCTCATATTAAACCAGAA\t0\n-1\t0\t0\n->AGGCGGCGTATTAGCCCTAATCCTCTCCATCCTGATCCTAGCACTCATCC\t0\n-1\t0\t0\n->CAATGCGTATTCTGACTCTTAGTGGCAGACTTACTGACACTAACATGAAT\t0\n-1\t0\t0\n->CAATCCTCTACTTCTCCCTAATTCTCATTTTTATACCACTCGCAAGCACC\t0\n-1\t0\t0\n->ACCCTGGTCTTGTAAACCAGAAAAGGGGGAAAACGTTTCCTCCCAAGGAC\t0\n-1\t0\t0\n->TACTTAAACTATTCCTTGATTTCTTCCCCTAAACGACAACAATTTACCCT\t0\n-1\t0\t0\n->CTGACATGCAATATCTTATGAATGGCCTATGTACGTCGTGCATTAAATTG\t0\n-1\t0\t0\n->GTACATTATATTATTGATCGTGCATACCCCATCCAAGTCAAATCATTTCC\t0\n-1\t0\t0\n->GCGGGAAATCAGCAACCCTCCCAACTACGTGTCCCAATCCTCGCTCCGGG\t0\n-1\t0\t0\n->TCTTTCTTCAGGGCCATTCCCACCCAACCTCGCCCATTCTTTCCCCTTAA\t0\n-1\t0\t0\n->CTGTGATTTCATGCATTTGGTATCTTTTTATATTTGGGGATGCTATGACT\t0\n-1\t0\t0\n->CTTAAATTGAACGTTATTCCTCCGCATCAGCAACCATAAGGTGTTATTCA\t0\n-1\t0\t0\n->ctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacct\t0\n-1\t0\t0\n->gcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgcacctgtgc\t0\n-1\t0\t0\n->ctgtgcacctACCCGCGCAGTAAGCAAGTAATATAGCTTTCTTAATCAAA\t0\n-1\t0\t0\n->GCCAAACCCCAAAAACAAGACTAAACAATGCACAATACTTCATGAAGCTT\t0\n-1\t0\t0\n->GAACTTTCCCCCCGCCATTAATACCAACATGCTACTTTAATCAATAAAAT\t0\n-1\t0\t0\n->TTCTTCCCCC\t0\n-1\t0\t0\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out.cov --- a/test-data/out.cov Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,14 +0,0 @@ ->gi|528476637:29857558-29915771 58214 -1 29093 0 -29094 29356 2 -29357 33376 0 -33377 41951 1 -41952 58214 0 ->gi|157734152:29655295-29712160 56866 -1 29214 0 -29215 29477 1 -29478 33498 0 -33499 42073 1 -42074 48471 0 -48472 56865 1 -56866 56866 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out.wig --- a/test-data/out.wig Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,116 +0,0 @@ -track type="wiggle_0" name="PB" -fixedStep chrom=gi|528476637:29857558-29915771 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -variableStep chrom=gi|528476637:29857558-29915771 span=1894 -56321 0 -fixedStep chrom=gi|157734152:29655295-29712160 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -variableStep chrom=gi|157734152:29655295-29712160 span=1570 -55297 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out2.cov --- a/test-data/out2.cov Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,13 +0,0 @@ ->gi|528476637:29857558-29915771 58214 -1 29092 0 -29093 29357 2 -29358 33375 0 -33376 41952 1 -41953 58214 0 ->gi|157734152:29655295-29712160 56866 -1 29213 0 -29214 29478 1 -29479 33497 0 -33498 42074 1 -42075 48470 0 -48471 56866 1 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out2.wig --- a/test-data/out2.wig Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,116 +0,0 @@ -track type="wiggle_0" name="PB" -fixedStep chrom=gi|528476637:29857558-29915771 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -variableStep chrom=gi|528476637:29857558-29915771 span=1894 -56321 0 -fixedStep chrom=gi|157734152:29655295-29712160 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -variableStep chrom=gi|157734152:29655295-29712160 span=1570 -55297 1 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out_hist_options.cov --- a/test-data/out_hist_options.cov Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,14 +0,0 @@ ->gi|528476637:29857558-29915771 58214 -1 29093 0 -29094 29356 2 -29357 33376 0 -33377 41951 1 -41952 58214 0 ->gi|157734152:29655295-29712160 56866 -1 29214 0 -29215 29477 1 -29478 33498 0 -33499 42073 1 -42074 48471 0 -48472 56865 1 -56866 56866 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/out_hist_options.wig --- a/test-data/out_hist_options.wig Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,116 +0,0 @@ -track type="wiggle_0" name="PB" -fixedStep chrom=gi|528476637:29857558-29915771 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -variableStep chrom=gi|528476637:29857558-29915771 span=1894 -56321 0 -fixedStep chrom=gi|157734152:29655295-29712160 start=1 step=1024 span=1024 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -1 -1 -0 -0 -0 -0 -0 -0 -0 -1 -1 -1 -1 -1 -1 -variableStep chrom=gi|157734152:29655295-29712160 span=1570 -55297 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstat_cov_05.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pbcstat_cov_05.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,14 @@ +>gi|528476637:29857558-29915771 58214 +1 29093 0 +29094 29356 2 +29357 33376 0 +33377 41951 1 +41952 58214 0 +>gi|157734152:29655295-29712160 56866 +1 29214 0 +29215 29477 1 +29478 33498 0 +33499 42073 1 +42074 48471 0 +48472 56865 1 +56866 56866 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstat_cov_05.wig --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pbcstat_cov_05.wig Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,116 @@ +track type="wiggle_0" name="PB" +fixedStep chrom=gi|528476637:29857558-29915771 start=1 step=1024 span=1024 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +1 +1 +1 +1 +1 +1 +1 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +variableStep chrom=gi|528476637:29857558-29915771 span=1894 +56321 0 +fixedStep chrom=gi|157734152:29655295-29712160 start=1 step=1024 span=1024 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +0 +1 +1 +1 +1 +1 +1 +1 +1 +0 +0 +0 +0 +0 +0 +0 +1 +1 +1 +1 +1 +1 +variableStep chrom=gi|157734152:29655295-29712160 span=1570 +55297 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstat_cov_06.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pbcstat_cov_06.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,14 @@ +>gi|528476637:29857558-29915771 58214 +1 29093 0 +29094 29356 2 +29357 33376 0 +33377 41951 1 +41952 58214 0 +>gi|157734152:29655295-29712160 56866 +1 29214 0 +29215 29477 1 +29478 33498 0 +33499 42073 1 +42074 48471 0 +48472 56865 1 +56866 56866 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstat_cov_07.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pbcstat_cov_07.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,13 @@ +>gi|528476637:29857558-29915771 58214 +1 29092 0 +29093 29357 2 +29358 33375 0 +33376 41952 1 +41953 58214 0 +>gi|157734152:29655295-29712160 56866 +1 29213 0 +29214 29478 1 +29479 33497 0 +33498 42074 1 +42075 48470 0 +48471 56866 1 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstats.tabular --- a/test-data/pbcstats.tabular Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,1001 +0,0 @@ -0 89010 -1 25807 -2 263 -3 0 -4 0 -5 0 -6 0 -7 0 -8 0 -9 0 -10 0 -11 0 -12 0 -13 0 -14 0 -15 0 -16 0 -17 0 -18 0 -19 0 -20 0 -21 0 -22 0 -23 0 -24 0 -25 0 -26 0 -27 0 -28 0 -29 0 -30 0 -31 0 -32 0 -33 0 -34 0 -35 0 -36 0 -37 0 -38 0 -39 0 -40 0 -41 0 -42 0 -43 0 -44 0 -45 0 -46 0 -47 0 -48 0 -49 0 -50 0 -51 0 -52 0 -53 0 -54 0 -55 0 -56 0 -57 0 -58 0 -59 0 -60 0 -61 0 -62 0 -63 0 -64 0 -65 0 -66 0 -67 0 -68 0 -69 0 -70 0 -71 0 -72 0 -73 0 -74 0 -75 0 -76 0 -77 0 -78 0 -79 0 -80 0 -81 0 -82 0 -83 0 -84 0 -85 0 -86 0 -87 0 -88 0 -89 0 -90 0 -91 0 -92 0 -93 0 -94 0 -95 0 -96 0 -97 0 -98 0 -99 0 -100 0 -101 0 -102 0 -103 0 -104 0 -105 0 -106 0 -107 0 -108 0 -109 0 -110 0 -111 0 -112 0 -113 0 -114 0 -115 0 -116 0 -117 0 -118 0 -119 0 -120 0 -121 0 -122 0 -123 0 -124 0 -125 0 -126 0 -127 0 -128 0 -129 0 -130 0 -131 0 -132 0 -133 0 -134 0 -135 0 -136 0 -137 0 -138 0 -139 0 -140 0 -141 0 -142 0 -143 0 -144 0 -145 0 -146 0 -147 0 -148 0 -149 0 -150 0 -151 0 -152 0 -153 0 -154 0 -155 0 -156 0 -157 0 -158 0 -159 0 -160 0 -161 0 -162 0 -163 0 -164 0 -165 0 -166 0 -167 0 -168 0 -169 0 -170 0 -171 0 -172 0 -173 0 -174 0 -175 0 -176 0 -177 0 -178 0 -179 0 -180 0 -181 0 -182 0 -183 0 -184 0 -185 0 -186 0 -187 0 -188 0 -189 0 -190 0 -191 0 -192 0 -193 0 -194 0 -195 0 -196 0 -197 0 -198 0 -199 0 -200 0 -201 0 -202 0 -203 0 -204 0 -205 0 -206 0 -207 0 -208 0 -209 0 -210 0 -211 0 -212 0 -213 0 -214 0 -215 0 -216 0 -217 0 -218 0 -219 0 -220 0 -221 0 -222 0 -223 0 -224 0 -225 0 -226 0 -227 0 -228 0 -229 0 -230 0 -231 0 -232 0 -233 0 -234 0 -235 0 -236 0 -237 0 -238 0 -239 0 -240 0 -241 0 -242 0 -243 0 -244 0 -245 0 -246 0 -247 0 -248 0 -249 0 -250 0 -251 0 -252 0 -253 0 -254 0 -255 0 -256 0 -257 0 -258 0 -259 0 -260 0 -261 0 -262 0 -263 0 -264 0 -265 0 -266 0 -267 0 -268 0 -269 0 -270 0 -271 0 -272 0 -273 0 -274 0 -275 0 -276 0 -277 0 -278 0 -279 0 -280 0 -281 0 -282 0 -283 0 -284 0 -285 0 -286 0 -287 0 -288 0 -289 0 -290 0 -291 0 -292 0 -293 0 -294 0 -295 0 -296 0 -297 0 -298 0 -299 0 -300 0 -301 0 -302 0 -303 0 -304 0 -305 0 -306 0 -307 0 -308 0 -309 0 -310 0 -311 0 -312 0 -313 0 -314 0 -315 0 -316 0 -317 0 -318 0 -319 0 -320 0 -321 0 -322 0 -323 0 -324 0 -325 0 -326 0 -327 0 -328 0 -329 0 -330 0 -331 0 -332 0 -333 0 -334 0 -335 0 -336 0 -337 0 -338 0 -339 0 -340 0 -341 0 -342 0 -343 0 -344 0 -345 0 -346 0 -347 0 -348 0 -349 0 -350 0 -351 0 -352 0 -353 0 -354 0 -355 0 -356 0 -357 0 -358 0 -359 0 -360 0 -361 0 -362 0 -363 0 -364 0 -365 0 -366 0 -367 0 -368 0 -369 0 -370 0 -371 0 -372 0 -373 0 -374 0 -375 0 -376 0 -377 0 -378 0 -379 0 -380 0 -381 0 -382 0 -383 0 -384 0 -385 0 -386 0 -387 0 -388 0 -389 0 -390 0 -391 0 -392 0 -393 0 -394 0 -395 0 -396 0 -397 0 -398 0 -399 0 -400 0 -401 0 -402 0 -403 0 -404 0 -405 0 -406 0 -407 0 -408 0 -409 0 -410 0 -411 0 -412 0 -413 0 -414 0 -415 0 -416 0 -417 0 -418 0 -419 0 -420 0 -421 0 -422 0 -423 0 -424 0 -425 0 -426 0 -427 0 -428 0 -429 0 -430 0 -431 0 -432 0 -433 0 -434 0 -435 0 -436 0 -437 0 -438 0 -439 0 -440 0 -441 0 -442 0 -443 0 -444 0 -445 0 -446 0 -447 0 -448 0 -449 0 -450 0 -451 0 -452 0 -453 0 -454 0 -455 0 -456 0 -457 0 -458 0 -459 0 -460 0 -461 0 -462 0 -463 0 -464 0 -465 0 -466 0 -467 0 -468 0 -469 0 -470 0 -471 0 -472 0 -473 0 -474 0 -475 0 -476 0 -477 0 -478 0 -479 0 -480 0 -481 0 -482 0 -483 0 -484 0 -485 0 -486 0 -487 0 -488 0 -489 0 -490 0 -491 0 -492 0 -493 0 -494 0 -495 0 -496 0 -497 0 -498 0 -499 0 -500 0 -501 0 -502 0 -503 0 -504 0 -505 0 -506 0 -507 0 -508 0 -509 0 -510 0 -511 0 -512 0 -513 0 -514 0 -515 0 -516 0 -517 0 -518 0 -519 0 -520 0 -521 0 -522 0 -523 0 -524 0 -525 0 -526 0 -527 0 -528 0 -529 0 -530 0 -531 0 -532 0 -533 0 -534 0 -535 0 -536 0 -537 0 -538 0 -539 0 -540 0 -541 0 -542 0 -543 0 -544 0 -545 0 -546 0 -547 0 -548 0 -549 0 -550 0 -551 0 -552 0 -553 0 -554 0 -555 0 -556 0 -557 0 -558 0 -559 0 -560 0 -561 0 -562 0 -563 0 -564 0 -565 0 -566 0 -567 0 -568 0 -569 0 -570 0 -571 0 -572 0 -573 0 -574 0 -575 0 -576 0 -577 0 -578 0 -579 0 -580 0 -581 0 -582 0 -583 0 -584 0 -585 0 -586 0 -587 0 -588 0 -589 0 -590 0 -591 0 -592 0 -593 0 -594 0 -595 0 -596 0 -597 0 -598 0 -599 0 -600 0 -601 0 -602 0 -603 0 -604 0 -605 0 -606 0 -607 0 -608 0 -609 0 -610 0 -611 0 -612 0 -613 0 -614 0 -615 0 -616 0 -617 0 -618 0 -619 0 -620 0 -621 0 -622 0 -623 0 -624 0 -625 0 -626 0 -627 0 -628 0 -629 0 -630 0 -631 0 -632 0 -633 0 -634 0 -635 0 -636 0 -637 0 -638 0 -639 0 -640 0 -641 0 -642 0 -643 0 -644 0 -645 0 -646 0 -647 0 -648 0 -649 0 -650 0 -651 0 -652 0 -653 0 -654 0 -655 0 -656 0 -657 0 -658 0 -659 0 -660 0 -661 0 -662 0 -663 0 -664 0 -665 0 -666 0 -667 0 -668 0 -669 0 -670 0 -671 0 -672 0 -673 0 -674 0 -675 0 -676 0 -677 0 -678 0 -679 0 -680 0 -681 0 -682 0 -683 0 -684 0 -685 0 -686 0 -687 0 -688 0 -689 0 -690 0 -691 0 -692 0 -693 0 -694 0 -695 0 -696 0 -697 0 -698 0 -699 0 -700 0 -701 0 -702 0 -703 0 -704 0 -705 0 -706 0 -707 0 -708 0 -709 0 -710 0 -711 0 -712 0 -713 0 -714 0 -715 0 -716 0 -717 0 -718 0 -719 0 -720 0 -721 0 -722 0 -723 0 -724 0 -725 0 -726 0 -727 0 -728 0 -729 0 -730 0 -731 0 -732 0 -733 0 -734 0 -735 0 -736 0 -737 0 -738 0 -739 0 -740 0 -741 0 -742 0 -743 0 -744 0 -745 0 -746 0 -747 0 -748 0 -749 0 -750 0 -751 0 -752 0 -753 0 -754 0 -755 0 -756 0 -757 0 -758 0 -759 0 -760 0 -761 0 -762 0 -763 0 -764 0 -765 0 -766 0 -767 0 -768 0 -769 0 -770 0 -771 0 -772 0 -773 0 -774 0 -775 0 -776 0 -777 0 -778 0 -779 0 -780 0 -781 0 -782 0 -783 0 -784 0 -785 0 -786 0 -787 0 -788 0 -789 0 -790 0 -791 0 -792 0 -793 0 -794 0 -795 0 -796 0 -797 0 -798 0 -799 0 -800 0 -801 0 -802 0 -803 0 -804 0 -805 0 -806 0 -807 0 -808 0 -809 0 -810 0 -811 0 -812 0 -813 0 -814 0 -815 0 -816 0 -817 0 -818 0 -819 0 -820 0 -821 0 -822 0 -823 0 -824 0 -825 0 -826 0 -827 0 -828 0 -829 0 -830 0 -831 0 -832 0 -833 0 -834 0 -835 0 -836 0 -837 0 -838 0 -839 0 -840 0 -841 0 -842 0 -843 0 -844 0 -845 0 -846 0 -847 0 -848 0 -849 0 -850 0 -851 0 -852 0 -853 0 -854 0 -855 0 -856 0 -857 0 -858 0 -859 0 -860 0 -861 0 -862 0 -863 0 -864 0 -865 0 -866 0 -867 0 -868 0 -869 0 -870 0 -871 0 -872 0 -873 0 -874 0 -875 0 -876 0 -877 0 -878 0 -879 0 -880 0 -881 0 -882 0 -883 0 -884 0 -885 0 -886 0 -887 0 -888 0 -889 0 -890 0 -891 0 -892 0 -893 0 -894 0 -895 0 -896 0 -897 0 -898 0 -899 0 -900 0 -901 0 -902 0 -903 0 -904 0 -905 0 -906 0 -907 0 -908 0 -909 0 -910 0 -911 0 -912 0 -913 0 -914 0 -915 0 -916 0 -917 0 -918 0 -919 0 -920 0 -921 0 -922 0 -923 0 -924 0 -925 0 -926 0 -927 0 -928 0 -929 0 -930 0 -931 0 -932 0 -933 0 -934 0 -935 0 -936 0 -937 0 -938 0 -939 0 -940 0 -941 0 -942 0 -943 0 -944 0 -945 0 -946 0 -947 0 -948 0 -949 0 -950 0 -951 0 -952 0 -953 0 -954 0 -955 0 -956 0 -957 0 -958 0 -959 0 -960 0 -961 0 -962 0 -963 0 -964 0 -965 0 -966 0 -967 0 -968 0 -969 0 -970 0 -971 0 -972 0 -973 0 -974 0 -975 0 -976 0 -977 0 -978 0 -979 0 -980 0 -981 0 -982 0 -983 0 -984 0 -985 0 -986 0 -987 0 -988 0 -989 0 -990 0 -991 0 -992 0 -993 0 -994 0 -995 0 -996 0 -997 0 -998 0 -999 0 -1000 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstats2.tabular --- a/test-data/pbcstats2.tabular Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,501 +0,0 @@ -0 89000 -1 25815 -2 265 -3 0 -4 0 -5 0 -6 0 -7 0 -8 0 -9 0 -10 0 -11 0 -12 0 -13 0 -14 0 -15 0 -16 0 -17 0 -18 0 -19 0 -20 0 -21 0 -22 0 -23 0 -24 0 -25 0 -26 0 -27 0 -28 0 -29 0 -30 0 -31 0 -32 0 -33 0 -34 0 -35 0 -36 0 -37 0 -38 0 -39 0 -40 0 -41 0 -42 0 -43 0 -44 0 -45 0 -46 0 -47 0 -48 0 -49 0 -50 0 -51 0 -52 0 -53 0 -54 0 -55 0 -56 0 -57 0 -58 0 -59 0 -60 0 -61 0 -62 0 -63 0 -64 0 -65 0 -66 0 -67 0 -68 0 -69 0 -70 0 -71 0 -72 0 -73 0 -74 0 -75 0 -76 0 -77 0 -78 0 -79 0 -80 0 -81 0 -82 0 -83 0 -84 0 -85 0 -86 0 -87 0 -88 0 -89 0 -90 0 -91 0 -92 0 -93 0 -94 0 -95 0 -96 0 -97 0 -98 0 -99 0 -100 0 -101 0 -102 0 -103 0 -104 0 -105 0 -106 0 -107 0 -108 0 -109 0 -110 0 -111 0 -112 0 -113 0 -114 0 -115 0 -116 0 -117 0 -118 0 -119 0 -120 0 -121 0 -122 0 -123 0 -124 0 -125 0 -126 0 -127 0 -128 0 -129 0 -130 0 -131 0 -132 0 -133 0 -134 0 -135 0 -136 0 -137 0 -138 0 -139 0 -140 0 -141 0 -142 0 -143 0 -144 0 -145 0 -146 0 -147 0 -148 0 -149 0 -150 0 -151 0 -152 0 -153 0 -154 0 -155 0 -156 0 -157 0 -158 0 -159 0 -160 0 -161 0 -162 0 -163 0 -164 0 -165 0 -166 0 -167 0 -168 0 -169 0 -170 0 -171 0 -172 0 -173 0 -174 0 -175 0 -176 0 -177 0 -178 0 -179 0 -180 0 -181 0 -182 0 -183 0 -184 0 -185 0 -186 0 -187 0 -188 0 -189 0 -190 0 -191 0 -192 0 -193 0 -194 0 -195 0 -196 0 -197 0 -198 0 -199 0 -200 0 -201 0 -202 0 -203 0 -204 0 -205 0 -206 0 -207 0 -208 0 -209 0 -210 0 -211 0 -212 0 -213 0 -214 0 -215 0 -216 0 -217 0 -218 0 -219 0 -220 0 -221 0 -222 0 -223 0 -224 0 -225 0 -226 0 -227 0 -228 0 -229 0 -230 0 -231 0 -232 0 -233 0 -234 0 -235 0 -236 0 -237 0 -238 0 -239 0 -240 0 -241 0 -242 0 -243 0 -244 0 -245 0 -246 0 -247 0 -248 0 -249 0 -250 0 -251 0 -252 0 -253 0 -254 0 -255 0 -256 0 -257 0 -258 0 -259 0 -260 0 -261 0 -262 0 -263 0 -264 0 -265 0 -266 0 -267 0 -268 0 -269 0 -270 0 -271 0 -272 0 -273 0 -274 0 -275 0 -276 0 -277 0 -278 0 -279 0 -280 0 -281 0 -282 0 -283 0 -284 0 -285 0 -286 0 -287 0 -288 0 -289 0 -290 0 -291 0 -292 0 -293 0 -294 0 -295 0 -296 0 -297 0 -298 0 -299 0 -300 0 -301 0 -302 0 -303 0 -304 0 -305 0 -306 0 -307 0 -308 0 -309 0 -310 0 -311 0 -312 0 -313 0 -314 0 -315 0 -316 0 -317 0 -318 0 -319 0 -320 0 -321 0 -322 0 -323 0 -324 0 -325 0 -326 0 -327 0 -328 0 -329 0 -330 0 -331 0 -332 0 -333 0 -334 0 -335 0 -336 0 -337 0 -338 0 -339 0 -340 0 -341 0 -342 0 -343 0 -344 0 -345 0 -346 0 -347 0 -348 0 -349 0 -350 0 -351 0 -352 0 -353 0 -354 0 -355 0 -356 0 -357 0 -358 0 -359 0 -360 0 -361 0 -362 0 -363 0 -364 0 -365 0 -366 0 -367 0 -368 0 -369 0 -370 0 -371 0 -372 0 -373 0 -374 0 -375 0 -376 0 -377 0 -378 0 -379 0 -380 0 -381 0 -382 0 -383 0 -384 0 -385 0 -386 0 -387 0 -388 0 -389 0 -390 0 -391 0 -392 0 -393 0 -394 0 -395 0 -396 0 -397 0 -398 0 -399 0 -400 0 -401 0 -402 0 -403 0 -404 0 -405 0 -406 0 -407 0 -408 0 -409 0 -410 0 -411 0 -412 0 -413 0 -414 0 -415 0 -416 0 -417 0 -418 0 -419 0 -420 0 -421 0 -422 0 -423 0 -424 0 -425 0 -426 0 -427 0 -428 0 -429 0 -430 0 -431 0 -432 0 -433 0 -434 0 -435 0 -436 0 -437 0 -438 0 -439 0 -440 0 -441 0 -442 0 -443 0 -444 0 -445 0 -446 0 -447 0 -448 0 -449 0 -450 0 -451 0 -452 0 -453 0 -454 0 -455 0 -456 0 -457 0 -458 0 -459 0 -460 0 -461 0 -462 0 -463 0 -464 0 -465 0 -466 0 -467 0 -468 0 -469 0 -470 0 -471 0 -472 0 -473 0 -474 0 -475 0 -476 0 -477 0 -478 0 -479 0 -480 0 -481 0 -482 0 -483 0 -484 0 -485 0 -486 0 -487 0 -488 0 -489 0 -490 0 -491 0 -492 0 -493 0 -494 0 -495 0 -496 0 -497 0 -498 0 -499 0 -500 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstats_05.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pbcstats_05.tabular Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1001 @@ +0 89010 +1 25807 +2 263 +3 0 +4 0 +5 0 +6 0 +7 0 +8 0 +9 0 +10 0 +11 0 +12 0 +13 0 +14 0 +15 0 +16 0 +17 0 +18 0 +19 0 +20 0 +21 0 +22 0 +23 0 +24 0 +25 0 +26 0 +27 0 +28 0 +29 0 +30 0 +31 0 +32 0 +33 0 +34 0 +35 0 +36 0 +37 0 +38 0 +39 0 +40 0 +41 0 +42 0 +43 0 +44 0 +45 0 +46 0 +47 0 +48 0 +49 0 +50 0 +51 0 +52 0 +53 0 +54 0 +55 0 +56 0 +57 0 +58 0 +59 0 +60 0 +61 0 +62 0 +63 0 +64 0 +65 0 +66 0 +67 0 +68 0 +69 0 +70 0 +71 0 +72 0 +73 0 +74 0 +75 0 +76 0 +77 0 +78 0 +79 0 +80 0 +81 0 +82 0 +83 0 +84 0 +85 0 +86 0 +87 0 +88 0 +89 0 +90 0 +91 0 +92 0 +93 0 +94 0 +95 0 +96 0 +97 0 +98 0 +99 0 +100 0 +101 0 +102 0 +103 0 +104 0 +105 0 +106 0 +107 0 +108 0 +109 0 +110 0 +111 0 +112 0 +113 0 +114 0 +115 0 +116 0 +117 0 +118 0 +119 0 +120 0 +121 0 +122 0 +123 0 +124 0 +125 0 +126 0 +127 0 +128 0 +129 0 +130 0 +131 0 +132 0 +133 0 +134 0 +135 0 +136 0 +137 0 +138 0 +139 0 +140 0 +141 0 +142 0 +143 0 +144 0 +145 0 +146 0 +147 0 +148 0 +149 0 +150 0 +151 0 +152 0 +153 0 +154 0 +155 0 +156 0 +157 0 +158 0 +159 0 +160 0 +161 0 +162 0 +163 0 +164 0 +165 0 +166 0 +167 0 +168 0 +169 0 +170 0 +171 0 +172 0 +173 0 +174 0 +175 0 +176 0 +177 0 +178 0 +179 0 +180 0 +181 0 +182 0 +183 0 +184 0 +185 0 +186 0 +187 0 +188 0 +189 0 +190 0 +191 0 +192 0 +193 0 +194 0 +195 0 +196 0 +197 0 +198 0 +199 0 +200 0 +201 0 +202 0 +203 0 +204 0 +205 0 +206 0 +207 0 +208 0 +209 0 +210 0 +211 0 +212 0 +213 0 +214 0 +215 0 +216 0 +217 0 +218 0 +219 0 +220 0 +221 0 +222 0 +223 0 +224 0 +225 0 +226 0 +227 0 +228 0 +229 0 +230 0 +231 0 +232 0 +233 0 +234 0 +235 0 +236 0 +237 0 +238 0 +239 0 +240 0 +241 0 +242 0 +243 0 +244 0 +245 0 +246 0 +247 0 +248 0 +249 0 +250 0 +251 0 +252 0 +253 0 +254 0 +255 0 +256 0 +257 0 +258 0 +259 0 +260 0 +261 0 +262 0 +263 0 +264 0 +265 0 +266 0 +267 0 +268 0 +269 0 +270 0 +271 0 +272 0 +273 0 +274 0 +275 0 +276 0 +277 0 +278 0 +279 0 +280 0 +281 0 +282 0 +283 0 +284 0 +285 0 +286 0 +287 0 +288 0 +289 0 +290 0 +291 0 +292 0 +293 0 +294 0 +295 0 +296 0 +297 0 +298 0 +299 0 +300 0 +301 0 +302 0 +303 0 +304 0 +305 0 +306 0 +307 0 +308 0 +309 0 +310 0 +311 0 +312 0 +313 0 +314 0 +315 0 +316 0 +317 0 +318 0 +319 0 +320 0 +321 0 +322 0 +323 0 +324 0 +325 0 +326 0 +327 0 +328 0 +329 0 +330 0 +331 0 +332 0 +333 0 +334 0 +335 0 +336 0 +337 0 +338 0 +339 0 +340 0 +341 0 +342 0 +343 0 +344 0 +345 0 +346 0 +347 0 +348 0 +349 0 +350 0 +351 0 +352 0 +353 0 +354 0 +355 0 +356 0 +357 0 +358 0 +359 0 +360 0 +361 0 +362 0 +363 0 +364 0 +365 0 +366 0 +367 0 +368 0 +369 0 +370 0 +371 0 +372 0 +373 0 +374 0 +375 0 +376 0 +377 0 +378 0 +379 0 +380 0 +381 0 +382 0 +383 0 +384 0 +385 0 +386 0 +387 0 +388 0 +389 0 +390 0 +391 0 +392 0 +393 0 +394 0 +395 0 +396 0 +397 0 +398 0 +399 0 +400 0 +401 0 +402 0 +403 0 +404 0 +405 0 +406 0 +407 0 +408 0 +409 0 +410 0 +411 0 +412 0 +413 0 +414 0 +415 0 +416 0 +417 0 +418 0 +419 0 +420 0 +421 0 +422 0 +423 0 +424 0 +425 0 +426 0 +427 0 +428 0 +429 0 +430 0 +431 0 +432 0 +433 0 +434 0 +435 0 +436 0 +437 0 +438 0 +439 0 +440 0 +441 0 +442 0 +443 0 +444 0 +445 0 +446 0 +447 0 +448 0 +449 0 +450 0 +451 0 +452 0 +453 0 +454 0 +455 0 +456 0 +457 0 +458 0 +459 0 +460 0 +461 0 +462 0 +463 0 +464 0 +465 0 +466 0 +467 0 +468 0 +469 0 +470 0 +471 0 +472 0 +473 0 +474 0 +475 0 +476 0 +477 0 +478 0 +479 0 +480 0 +481 0 +482 0 +483 0 +484 0 +485 0 +486 0 +487 0 +488 0 +489 0 +490 0 +491 0 +492 0 +493 0 +494 0 +495 0 +496 0 +497 0 +498 0 +499 0 +500 0 +501 0 +502 0 +503 0 +504 0 +505 0 +506 0 +507 0 +508 0 +509 0 +510 0 +511 0 +512 0 +513 0 +514 0 +515 0 +516 0 +517 0 +518 0 +519 0 +520 0 +521 0 +522 0 +523 0 +524 0 +525 0 +526 0 +527 0 +528 0 +529 0 +530 0 +531 0 +532 0 +533 0 +534 0 +535 0 +536 0 +537 0 +538 0 +539 0 +540 0 +541 0 +542 0 +543 0 +544 0 +545 0 +546 0 +547 0 +548 0 +549 0 +550 0 +551 0 +552 0 +553 0 +554 0 +555 0 +556 0 +557 0 +558 0 +559 0 +560 0 +561 0 +562 0 +563 0 +564 0 +565 0 +566 0 +567 0 +568 0 +569 0 +570 0 +571 0 +572 0 +573 0 +574 0 +575 0 +576 0 +577 0 +578 0 +579 0 +580 0 +581 0 +582 0 +583 0 +584 0 +585 0 +586 0 +587 0 +588 0 +589 0 +590 0 +591 0 +592 0 +593 0 +594 0 +595 0 +596 0 +597 0 +598 0 +599 0 +600 0 +601 0 +602 0 +603 0 +604 0 +605 0 +606 0 +607 0 +608 0 +609 0 +610 0 +611 0 +612 0 +613 0 +614 0 +615 0 +616 0 +617 0 +618 0 +619 0 +620 0 +621 0 +622 0 +623 0 +624 0 +625 0 +626 0 +627 0 +628 0 +629 0 +630 0 +631 0 +632 0 +633 0 +634 0 +635 0 +636 0 +637 0 +638 0 +639 0 +640 0 +641 0 +642 0 +643 0 +644 0 +645 0 +646 0 +647 0 +648 0 +649 0 +650 0 +651 0 +652 0 +653 0 +654 0 +655 0 +656 0 +657 0 +658 0 +659 0 +660 0 +661 0 +662 0 +663 0 +664 0 +665 0 +666 0 +667 0 +668 0 +669 0 +670 0 +671 0 +672 0 +673 0 +674 0 +675 0 +676 0 +677 0 +678 0 +679 0 +680 0 +681 0 +682 0 +683 0 +684 0 +685 0 +686 0 +687 0 +688 0 +689 0 +690 0 +691 0 +692 0 +693 0 +694 0 +695 0 +696 0 +697 0 +698 0 +699 0 +700 0 +701 0 +702 0 +703 0 +704 0 +705 0 +706 0 +707 0 +708 0 +709 0 +710 0 +711 0 +712 0 +713 0 +714 0 +715 0 +716 0 +717 0 +718 0 +719 0 +720 0 +721 0 +722 0 +723 0 +724 0 +725 0 +726 0 +727 0 +728 0 +729 0 +730 0 +731 0 +732 0 +733 0 +734 0 +735 0 +736 0 +737 0 +738 0 +739 0 +740 0 +741 0 +742 0 +743 0 +744 0 +745 0 +746 0 +747 0 +748 0 +749 0 +750 0 +751 0 +752 0 +753 0 +754 0 +755 0 +756 0 +757 0 +758 0 +759 0 +760 0 +761 0 +762 0 +763 0 +764 0 +765 0 +766 0 +767 0 +768 0 +769 0 +770 0 +771 0 +772 0 +773 0 +774 0 +775 0 +776 0 +777 0 +778 0 +779 0 +780 0 +781 0 +782 0 +783 0 +784 0 +785 0 +786 0 +787 0 +788 0 +789 0 +790 0 +791 0 +792 0 +793 0 +794 0 +795 0 +796 0 +797 0 +798 0 +799 0 +800 0 +801 0 +802 0 +803 0 +804 0 +805 0 +806 0 +807 0 +808 0 +809 0 +810 0 +811 0 +812 0 +813 0 +814 0 +815 0 +816 0 +817 0 +818 0 +819 0 +820 0 +821 0 +822 0 +823 0 +824 0 +825 0 +826 0 +827 0 +828 0 +829 0 +830 0 +831 0 +832 0 +833 0 +834 0 +835 0 +836 0 +837 0 +838 0 +839 0 +840 0 +841 0 +842 0 +843 0 +844 0 +845 0 +846 0 +847 0 +848 0 +849 0 +850 0 +851 0 +852 0 +853 0 +854 0 +855 0 +856 0 +857 0 +858 0 +859 0 +860 0 +861 0 +862 0 +863 0 +864 0 +865 0 +866 0 +867 0 +868 0 +869 0 +870 0 +871 0 +872 0 +873 0 +874 0 +875 0 +876 0 +877 0 +878 0 +879 0 +880 0 +881 0 +882 0 +883 0 +884 0 +885 0 +886 0 +887 0 +888 0 +889 0 +890 0 +891 0 +892 0 +893 0 +894 0 +895 0 +896 0 +897 0 +898 0 +899 0 +900 0 +901 0 +902 0 +903 0 +904 0 +905 0 +906 0 +907 0 +908 0 +909 0 +910 0 +911 0 +912 0 +913 0 +914 0 +915 0 +916 0 +917 0 +918 0 +919 0 +920 0 +921 0 +922 0 +923 0 +924 0 +925 0 +926 0 +927 0 +928 0 +929 0 +930 0 +931 0 +932 0 +933 0 +934 0 +935 0 +936 0 +937 0 +938 0 +939 0 +940 0 +941 0 +942 0 +943 0 +944 0 +945 0 +946 0 +947 0 +948 0 +949 0 +950 0 +951 0 +952 0 +953 0 +954 0 +955 0 +956 0 +957 0 +958 0 +959 0 +960 0 +961 0 +962 0 +963 0 +964 0 +965 0 +966 0 +967 0 +968 0 +969 0 +970 0 +971 0 +972 0 +973 0 +974 0 +975 0 +976 0 +977 0 +978 0 +979 0 +980 0 +981 0 +982 0 +983 0 +984 0 +985 0 +986 0 +987 0 +988 0 +989 0 +990 0 +991 0 +992 0 +993 0 +994 0 +995 0 +996 0 +997 0 +998 0 +999 0 +1000 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/pbcstats_hist_options.tabular --- a/test-data/pbcstats_hist_options.tabular Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,1001 +0,0 @@ -0 89010 -1 25807 -2 263 -3 0 -4 0 -5 0 -6 0 -7 0 -8 0 -9 0 -10 0 -11 0 -12 0 -13 0 -14 0 -15 0 -16 0 -17 0 -18 0 -19 0 -20 0 -21 0 -22 0 -23 0 -24 0 -25 0 -26 0 -27 0 -28 0 -29 0 -30 0 -31 0 -32 0 -33 0 -34 0 -35 0 -36 0 -37 0 -38 0 -39 0 -40 0 -41 0 -42 0 -43 0 -44 0 -45 0 -46 0 -47 0 -48 0 -49 0 -50 0 -51 0 -52 0 -53 0 -54 0 -55 0 -56 0 -57 0 -58 0 -59 0 -60 0 -61 0 -62 0 -63 0 -64 0 -65 0 -66 0 -67 0 -68 0 -69 0 -70 0 -71 0 -72 0 -73 0 -74 0 -75 0 -76 0 -77 0 -78 0 -79 0 -80 0 -81 0 -82 0 -83 0 -84 0 -85 0 -86 0 -87 0 -88 0 -89 0 -90 0 -91 0 -92 0 -93 0 -94 0 -95 0 -96 0 -97 0 -98 0 -99 0 -100 0 -101 0 -102 0 -103 0 -104 0 -105 0 -106 0 -107 0 -108 0 -109 0 -110 0 -111 0 -112 0 -113 0 -114 0 -115 0 -116 0 -117 0 -118 0 -119 0 -120 0 -121 0 -122 0 -123 0 -124 0 -125 0 -126 0 -127 0 -128 0 -129 0 -130 0 -131 0 -132 0 -133 0 -134 0 -135 0 -136 0 -137 0 -138 0 -139 0 -140 0 -141 0 -142 0 -143 0 -144 0 -145 0 -146 0 -147 0 -148 0 -149 0 -150 0 -151 0 -152 0 -153 0 -154 0 -155 0 -156 0 -157 0 -158 0 -159 0 -160 0 -161 0 -162 0 -163 0 -164 0 -165 0 -166 0 -167 0 -168 0 -169 0 -170 0 -171 0 -172 0 -173 0 -174 0 -175 0 -176 0 -177 0 -178 0 -179 0 -180 0 -181 0 -182 0 -183 0 -184 0 -185 0 -186 0 -187 0 -188 0 -189 0 -190 0 -191 0 -192 0 -193 0 -194 0 -195 0 -196 0 -197 0 -198 0 -199 0 -200 0 -201 0 -202 0 -203 0 -204 0 -205 0 -206 0 -207 0 -208 0 -209 0 -210 0 -211 0 -212 0 -213 0 -214 0 -215 0 -216 0 -217 0 -218 0 -219 0 -220 0 -221 0 -222 0 -223 0 -224 0 -225 0 -226 0 -227 0 -228 0 -229 0 -230 0 -231 0 -232 0 -233 0 -234 0 -235 0 -236 0 -237 0 -238 0 -239 0 -240 0 -241 0 -242 0 -243 0 -244 0 -245 0 -246 0 -247 0 -248 0 -249 0 -250 0 -251 0 -252 0 -253 0 -254 0 -255 0 -256 0 -257 0 -258 0 -259 0 -260 0 -261 0 -262 0 -263 0 -264 0 -265 0 -266 0 -267 0 -268 0 -269 0 -270 0 -271 0 -272 0 -273 0 -274 0 -275 0 -276 0 -277 0 -278 0 -279 0 -280 0 -281 0 -282 0 -283 0 -284 0 -285 0 -286 0 -287 0 -288 0 -289 0 -290 0 -291 0 -292 0 -293 0 -294 0 -295 0 -296 0 -297 0 -298 0 -299 0 -300 0 -301 0 -302 0 -303 0 -304 0 -305 0 -306 0 -307 0 -308 0 -309 0 -310 0 -311 0 -312 0 -313 0 -314 0 -315 0 -316 0 -317 0 -318 0 -319 0 -320 0 -321 0 -322 0 -323 0 -324 0 -325 0 -326 0 -327 0 -328 0 -329 0 -330 0 -331 0 -332 0 -333 0 -334 0 -335 0 -336 0 -337 0 -338 0 -339 0 -340 0 -341 0 -342 0 -343 0 -344 0 -345 0 -346 0 -347 0 -348 0 -349 0 -350 0 -351 0 -352 0 -353 0 -354 0 -355 0 -356 0 -357 0 -358 0 -359 0 -360 0 -361 0 -362 0 -363 0 -364 0 -365 0 -366 0 -367 0 -368 0 -369 0 -370 0 -371 0 -372 0 -373 0 -374 0 -375 0 -376 0 -377 0 -378 0 -379 0 -380 0 -381 0 -382 0 -383 0 -384 0 -385 0 -386 0 -387 0 -388 0 -389 0 -390 0 -391 0 -392 0 -393 0 -394 0 -395 0 -396 0 -397 0 -398 0 -399 0 -400 0 -401 0 -402 0 -403 0 -404 0 -405 0 -406 0 -407 0 -408 0 -409 0 -410 0 -411 0 -412 0 -413 0 -414 0 -415 0 -416 0 -417 0 -418 0 -419 0 -420 0 -421 0 -422 0 -423 0 -424 0 -425 0 -426 0 -427 0 -428 0 -429 0 -430 0 -431 0 -432 0 -433 0 -434 0 -435 0 -436 0 -437 0 -438 0 -439 0 -440 0 -441 0 -442 0 -443 0 -444 0 -445 0 -446 0 -447 0 -448 0 -449 0 -450 0 -451 0 -452 0 -453 0 -454 0 -455 0 -456 0 -457 0 -458 0 -459 0 -460 0 -461 0 -462 0 -463 0 -464 0 -465 0 -466 0 -467 0 -468 0 -469 0 -470 0 -471 0 -472 0 -473 0 -474 0 -475 0 -476 0 -477 0 -478 0 -479 0 -480 0 -481 0 -482 0 -483 0 -484 0 -485 0 -486 0 -487 0 -488 0 -489 0 -490 0 -491 0 -492 0 -493 0 -494 0 -495 0 -496 0 -497 0 -498 0 -499 0 -500 0 -501 0 -502 0 -503 0 -504 0 -505 0 -506 0 -507 0 -508 0 -509 0 -510 0 -511 0 -512 0 -513 0 -514 0 -515 0 -516 0 -517 0 -518 0 -519 0 -520 0 -521 0 -522 0 -523 0 -524 0 -525 0 -526 0 -527 0 -528 0 -529 0 -530 0 -531 0 -532 0 -533 0 -534 0 -535 0 -536 0 -537 0 -538 0 -539 0 -540 0 -541 0 -542 0 -543 0 -544 0 -545 0 -546 0 -547 0 -548 0 -549 0 -550 0 -551 0 -552 0 -553 0 -554 0 -555 0 -556 0 -557 0 -558 0 -559 0 -560 0 -561 0 -562 0 -563 0 -564 0 -565 0 -566 0 -567 0 -568 0 -569 0 -570 0 -571 0 -572 0 -573 0 -574 0 -575 0 -576 0 -577 0 -578 0 -579 0 -580 0 -581 0 -582 0 -583 0 -584 0 -585 0 -586 0 -587 0 -588 0 -589 0 -590 0 -591 0 -592 0 -593 0 -594 0 -595 0 -596 0 -597 0 -598 0 -599 0 -600 0 -601 0 -602 0 -603 0 -604 0 -605 0 -606 0 -607 0 -608 0 -609 0 -610 0 -611 0 -612 0 -613 0 -614 0 -615 0 -616 0 -617 0 -618 0 -619 0 -620 0 -621 0 -622 0 -623 0 -624 0 -625 0 -626 0 -627 0 -628 0 -629 0 -630 0 -631 0 -632 0 -633 0 -634 0 -635 0 -636 0 -637 0 -638 0 -639 0 -640 0 -641 0 -642 0 -643 0 -644 0 -645 0 -646 0 -647 0 -648 0 -649 0 -650 0 -651 0 -652 0 -653 0 -654 0 -655 0 -656 0 -657 0 -658 0 -659 0 -660 0 -661 0 -662 0 -663 0 -664 0 -665 0 -666 0 -667 0 -668 0 -669 0 -670 0 -671 0 -672 0 -673 0 -674 0 -675 0 -676 0 -677 0 -678 0 -679 0 -680 0 -681 0 -682 0 -683 0 -684 0 -685 0 -686 0 -687 0 -688 0 -689 0 -690 0 -691 0 -692 0 -693 0 -694 0 -695 0 -696 0 -697 0 -698 0 -699 0 -700 0 -701 0 -702 0 -703 0 -704 0 -705 0 -706 0 -707 0 -708 0 -709 0 -710 0 -711 0 -712 0 -713 0 -714 0 -715 0 -716 0 -717 0 -718 0 -719 0 -720 0 -721 0 -722 0 -723 0 -724 0 -725 0 -726 0 -727 0 -728 0 -729 0 -730 0 -731 0 -732 0 -733 0 -734 0 -735 0 -736 0 -737 0 -738 0 -739 0 -740 0 -741 0 -742 0 -743 0 -744 0 -745 0 -746 0 -747 0 -748 0 -749 0 -750 0 -751 0 -752 0 -753 0 -754 0 -755 0 -756 0 -757 0 -758 0 -759 0 -760 0 -761 0 -762 0 -763 0 -764 0 -765 0 -766 0 -767 0 -768 0 -769 0 -770 0 -771 0 -772 0 -773 0 -774 0 -775 0 -776 0 -777 0 -778 0 -779 0 -780 0 -781 0 -782 0 -783 0 -784 0 -785 0 -786 0 -787 0 -788 0 -789 0 -790 0 -791 0 -792 0 -793 0 -794 0 -795 0 -796 0 -797 0 -798 0 -799 0 -800 0 -801 0 -802 0 -803 0 -804 0 -805 0 -806 0 -807 0 -808 0 -809 0 -810 0 -811 0 -812 0 -813 0 -814 0 -815 0 -816 0 -817 0 -818 0 -819 0 -820 0 -821 0 -822 0 -823 0 -824 0 -825 0 -826 0 -827 0 -828 0 -829 0 -830 0 -831 0 -832 0 -833 0 -834 0 -835 0 -836 0 -837 0 -838 0 -839 0 -840 0 -841 0 -842 0 -843 0 -844 0 -845 0 -846 0 -847 0 -848 0 -849 0 -850 0 -851 0 -852 0 -853 0 -854 0 -855 0 -856 0 -857 0 -858 0 -859 0 -860 0 -861 0 -862 0 -863 0 -864 0 -865 0 -866 0 -867 0 -868 0 -869 0 -870 0 -871 0 -872 0 -873 0 -874 0 -875 0 -876 0 -877 0 -878 0 -879 0 -880 0 -881 0 -882 0 -883 0 -884 0 -885 0 -886 0 -887 0 -888 0 -889 0 -890 0 -891 0 -892 0 -893 0 -894 0 -895 0 -896 0 -897 0 -898 0 -899 0 -900 0 -901 0 -902 0 -903 0 -904 0 -905 0 -906 0 -907 0 -908 0 -909 0 -910 0 -911 0 -912 0 -913 0 -914 0 -915 0 -916 0 -917 0 -918 0 -919 0 -920 0 -921 0 -922 0 -923 0 -924 0 -925 0 -926 0 -927 0 -928 0 -929 0 -930 0 -931 0 -932 0 -933 0 -934 0 -935 0 -936 0 -937 0 -938 0 -939 0 -940 0 -941 0 -942 0 -943 0 -944 0 -945 0 -946 0 -947 0 -948 0 -949 0 -950 0 -951 0 -952 0 -953 0 -954 0 -955 0 -956 0 -957 0 -958 0 -959 0 -960 0 -961 0 -962 0 -963 0 -964 0 -965 0 -966 0 -967 0 -968 0 -969 0 -970 0 -971 0 -972 0 -973 0 -974 0 -975 0 -976 0 -977 0 -978 0 -979 0 -980 0 -981 0 -982 0 -983 0 -984 0 -985 0 -986 0 -987 0 -988 0 -989 0 -990 0 -991 0 -992 0 -993 0 -994 0 -995 0 -996 0 -997 0 -998 0 -999 0 -1000 0 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_01.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/purge_dups_01.bed Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,11 @@ +gi|568815454 1200216 1203631 JUNK +gi|568815567 1196244 1200852 JUNK +gi|568815551 1197321 1201446 JUNK +gi|568815561 1196951 1200436 JUNK +gi|568815569 1240288 1243708 JUNK +gi|568815529 1421891 1425306 JUNK +gi|568815564 1286641 1289973 JUNK +gi|568815592 29942469 29945883 JUNK +gi|342187237 5004 8419 JUNK +gi|528476637 29857558 29915771 JUNK +gi|157734152 29655295 29712160 JUNK |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_02.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/purge_dups_02.bed Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,11 @@ +gi|568815454 1200216 1203631 JUNK +gi|568815567 1196244 1200852 JUNK +gi|568815551 1197321 1201446 JUNK +gi|568815561 1196951 1200436 JUNK +gi|568815569 1240288 1243708 JUNK +gi|568815529 1421891 1425306 JUNK +gi|568815564 1286641 1289973 JUNK +gi|568815592 29942469 29945883 JUNK +gi|342187237 5004 8419 JUNK +gi|528476637 29857558 29915771 JUNK +gi|157734152 29655295 29712160 JUNK |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_03.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/purge_dups_03.bed Tue Oct 12 19:07:05 2021 +0000 |
| b |
| @@ -0,0 +1,1 @@ +gi|157734152 29655294 29712160 HAPLOTIG gi|528476637 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_log_02.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/purge_dups_log_02.txt Tue Oct 12 19:07:05 2021 +0000 |
| [ |
| @@ -0,0 +1,12 @@ +tp:gi|568815454:1200216-1203631 +tp:gi|568815567:1196244-1200852 +tp:gi|568815551:1197321-1201446 +tp:gi|568815561:1196951-1200436 +tp:gi|568815569:1240288-1243708 +tp:gi|568815529:1421891-1425306 +tp:gi|568815564:1286641-1289973 +tp:gi|568815592:29942469-29945883 +tp:gi|342187237:5004-8419 +tp:gi|528476637:29857558-29915771 +tp:gi|157734152:29655295-29712160 +[M::flt_by_bm_mm] check overpuring |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_out.bed --- a/test-data/purge_dups_out.bed Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,11 +0,0 @@ -gi|568815454 1200216 1203631 JUNK -gi|568815567 1196244 1200852 JUNK -gi|568815551 1197321 1201446 JUNK -gi|568815561 1196951 1200436 JUNK -gi|568815569 1240288 1243708 JUNK -gi|568815529 1421891 1425306 JUNK -gi|568815564 1286641 1289973 JUNK -gi|568815592 29942469 29945883 JUNK -gi|342187237 5004 8419 JUNK -gi|528476637 29857558 29915771 JUNK -gi|157734152 29655295 29712160 JUNK |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purge_dups_out_2.bed --- a/test-data/purge_dups_out_2.bed Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,1 +0,0 @@ -gi|157734152 29655294 29712160 HAPLOTIG gi|528476637 |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/purged_out.fa --- a/test-data/purged_out.fa Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,2 +0,0 @@ ->Sequence:1-608_1 -gttcgatgcc taaaatacct tcttttgtcc ctacacagac cacagttttc ctaatggctttacaccgact agaaattctt gtgcaagcac taattgaaag cggttggcct agagtgttaccggtttgtat agctgagcgc gtctcttgcc ctgatcaaag gttcattttc tctactttggaagacgttgt ggaagaatac aacaagtacg agtctctccc ccctggtttg ctgattactggatacagttg taataccctt cgcaacaccg cgtaactatc tatatgaatt attttccctttattatatgt agtaggttcg tctttaatct tcctttagca agtcttttac tgttttcgacctcaatgttc atgttcttag gttgttttgg ataatatgcg gtcagtttaa tcttcgttgtttcttcttaa aatatttatt catggtttaa tttttggttt gtacttgttc aggggccagttcattattta ctctgtttgt atacagcagt tcttttattt ttagtatgat tttaatttaaaacaattcta atggtcaaaa a |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/split_04.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/split_04.fasta Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -0,0 +1,16 @@\n+>Test_sequece_purge_dups:1-744\n+ATGCCAGAGCACGTGGTCCAATGCAAGTATTGACGAGACAGCCTGTAGAGGGTAGATCGAGAGACGGTGGTTTAAGATTCGGTGAGATGGAACGTGACTGTATGATTGCTCATGGTGCTGCCTCATTCTTGAAGGAGAGATTAATGGAAGCATCCGATGCCTTTAGAGTCCATATTTGTGGTATTTGCGGGCTGATGACAGTTATCGCGAAATTAAATCATAACCAATTTGAATGTAAGGGATGTGATAATAAGATTGATATTTACCAAATTCATATTCCATACGCCGCGAAGTTATTATTCCAAGAACTTATGGCTATGAACATTACACCACGTTTATATACCGATCGTTCGAGAGATTTTTAAGAAATAATGTTGTAACTCTAAGAAAGTAAAATAATAAAAAACATTTCATTTGTGCTGATCTTGCCAAAAAAAGGGTAAACAAGTAGGCAATAGTAATAAAATAAGAATGAAGCATTTCTTTTAATAAGCAGAGAGAACTTTCAAGCATTCAAAAAACACAAAAATAATGATGAATAAAATGGGACTCACAGTGTTTATTTATAGTCCTTGTTTCGCATTTTACCAAATTAAAATTTAATTTTATCAAGACATATTAATGAACTTTAGCGGAAAACCTTAAATATCCAAGTCATAAATAATGACTTATGTAAAAAGTTATAAGAAAAATATACGGTGTTCATTTTGGAACAATGTTGCTGTTACACACTGTTAAATATAT\n+>Test_sequece_purge_dups:746-1078\n+TAGTATTCATAAAAGAAAGAAGATTTTAATACGCGTTTTGATTAAAACTACATAACAGATAAATATATACATGGATTGAAGACTGCAAAAAGGATATATAAAAAAATGACAAATAATTTCAATAAGCTATTTCAATTGGTTAAAAATTGATTCTTTAAGAGGCTCTGGTATTGATGATTGCTCATGGGCAAAGGCAGTAATATTTTGTTTATAAGGGTTTTCACTTCCATCGAAAACTTTTAAGCGGTCTAACCGTTGCTTTCTCAATTTATTTTTAGGCAACATACCGCTAACTGCTTTTTTCAAAATTTCTCCAAATCCTTTATCGGCAAC\n+>Test_sequece_purge_dups:1080-1985\n+ACCTTGTTCATTGTCTGTAACTTTAGCTGACCAGGTCTACCTGAATGAGACCAGTAAGTCTTCTGCTCAAATTTCTTACCTGTTACACGGATTTTTTGGCAATTAGTCACTACTACGTAGTCTCCACAGTCTTGTGACGGATGATAGACCGGCTTATGTCTACCAATTAAGGTAATTGCAATTGCTGAAGCCAATCTACCCAATGTCCTCTTATCACGGGCAACGTCGACATGGTGCCAAAGGCGCGCAAAAGCCAAGCCACTGTGTCCAATCTTCTGCGACATGAATAGGCTATTGTTGATGCTGGTATTGCTTTCTTTTTCTATATGATATCAGTGTATTCATAAGGTCTTTCTCTTTTACTTATTTAGAACGTTTTAAAGATCTCTAAACTACAAGGAAGGCTCCATGCGGGTAACAATCAACATTATAACGATAATTAACTAAACCATAACCGTCTAAGTAACCATAGCGTGCGGTGATTCTTCGCTAGATGGAACTCATGTCTTACTAGTAGCGTGTTTGGTACGTGCAATATAGAGCAAAACATTATATAGACATCGTAATAGCTTTTTATGTGCGGACTGTAATGTTTGTAAGAAGTAAAACCAGTCACTAATATAGTGAAAAAAAGTCAACTTATCGATCTATGTATCTCATAGAAGATGTATTGATTTAATATAACTTATAAAGGTGCTTCTACAGTAAGGTGCTGAGAGGACTTACTATGTCGGCAACAAGTTCAAATCTGAAGCTCTGAGGATTTCGCGAGATGCGCACAATCTGAAGTAATATAAAGATGAAAACACAATACAAAAGGCCTGAAAATCTATATGTCCGATAAGATATCATAGTATTCTTACTCGCAAGCACACATCAGGTACTTGGAAGTGTATGATGAGGTAT\n+>Test_sequece_purge_dups:1987-3249\n+AATGGTGGCTTTATTTAGTATATGCCATCGGCCTAATGCTATGCCTAGGCCCGTCGTATATTCATCCAGATGAACATTTCCAATGCATCGAGATTTTGGCTATGCAGTTCATGAAGGTCAAAGGTACCATCCCATGGGAATTTAAATCAAAATTTGCTGCTAGGAGTTACGGCCCCCTATTATTGGTTTACGGGCCTTTGTTCACTATTTTAGAATCTTTTCCCCGAAATTCAGGACAACCCAGCGTTAATTCTGTATTCGATGAGACTACAAAACTATGTGATGTACCTATTGTGCTATCATTTTTTAATACCTAAATTAATAAGGGATGAGAGAAAGGCCGTACAATTCATCAAAAAAAGTCTACTTTTAACTTCTTACGTAACCTGGACGTACCAAACACACACGTTTTCCAATTCCATAGAAACGCTGGCTTTAATCTCAACTTTAACTGTAATGGAAGATATGGTAAACGAAAAAAATATTCAAAGAAGTAATTTCAAAAATTCGGTTATATTGGGACTTATATTTAGTTTTGGTGTTTTTAATAGAGTTACTTTTCCTGCATTTATTTTCTTACCATGTTTGATATTATTCTGGAAGTTTTACCGGGTCCATTGGAAATCCTTTTCTTTACTTTTACTTTCATTTTCATTTTCCTCGTGTCTATTTGTTCTTATTGATACAAATATTTATAACAACGGAAAGGGATTTGTCATTACGCCCTTGAATAACCTGAAATACAACCTCAATGTCCAAAATTTGCAAGTACATGGATTACATCCAAGATACACCCATCTGCTGGTCAATTTACCTCAAATAGTTGGCCCAGTATTGCTGCTAGCGATTTTTTCCGGTTACAAACTCGATAAATTATCTACTTACGCAATCATATCTGGCCTGCTTTTTCTTTCATTCTTTCAACATCAAGAATTAAGATTCCTTGTACCGCTAGTGCCACTACTCGTGACAAACTTAAACTGGACACCTCTGAGTTCCACGTTAGTAAACAAGAAAATTTTCAAGGGAACTTGGCTTCTTTTTAACATAATCATGGCGTTCATCATGGGAATTTCACATCAAGCAGGAATTATCCAATTTTTGGGAGATTACTTCCACTTTCGTACCGAACAAATGGGCGTTCACATATGGTGGAAAACATACTCACCACCCACCTGGATGTATATGAGCAATAACCTAACCGTTTCTTCTCTTATCAATACACAGGATGGTATTGAGTCGATAGATGAAGTGGCATTCAGT\n+>Test_sequece_purge_dups:3251-5412\n+TAGGTAACCATCATGTAATAGACCTTAAAGGCTGTGATTTACCACTTTTAACAGAAACAATTAGGCGGCTGCGTTTAAACGGGTCCATAACTCCACTAACTTTAGTAACTCCCAATTCCATGACATCAGAATTGAAAAAGTTGAAGAGAGATGGCACTATTAACTTAATACCCAAAAGAAATTACTTGTTCCATTTGGATTTGGATCATCTTGATTTCAATGATTTCACGACTTTTAAGCCAGGGCTAACAGTGTACTCCATCGAACTACTATAAGACCAGCTATATGAGGAGTTATGCATATATTATGGCTGTGAATTTAAGTTTAAATGATCTTATCCTAGGTATTCTTATAAAAAAGAAGAGTGCTTTAATCGAGCAATGGTTAACTATTTGTTGCATACTCATTTTTTCCCATTGAAATCTCTAATTGTAGGCTGATACAAACTCGGTACTCAGCTCAAGATAGGATTGTTAGTTCTGATATGCAATCTTATTAATCTATGTATAGTACACAACTGTATGAAAACCTCCCGAAGTCTAAGTAAAGCTC'..b'TCTTCTCATGGATGTATTCCTGACTGAAAACAGAGTTAATGACGAATAGATAGAACGAAATGAAAGTGGTGGTGCTCAGAATGAGCCATAGAATTTGTGACAATATCAGCCAAGACGCTATAATACTTATTTCATTCAGAGAGAACGGCCTGTTGTTTTTAATAAGAATCCACTTTAGATTGATTTTGAACCTTTCTTGAAAATTCTTTGCATCTGCTAGAAGCGATTGCTTGAACTCTCGCTCATTATTTTTTCTCAGCAAAATAGTCTCAATATTGGAAGCCTTGGTAGTGAACTTGTCATTGCTTGGAAATGTTCGGATGTGCCTTTGGGCGATCAAACATCTAACAGGTAACGAACTCTTGTAAGGTGTTATAAAAGGTCTGACATTTCCATGATTAGTTGCGACGTAAGTTCGAATACAGTGTCTTACGAGATGACTTGTAATTGGAAGCAGTGGCCGCTTTATTGTAGGGACCCGTAAACGTGTGATTAGCATGAATTTTATAAACCTCCCACCACCTGATAATCTGTATGTGCCTTTTGTTTTAATACTTCTTGACGCAAATCTACTGTCAACTTTAATATGCATCCCTCCATAGTAAGTCAAGGATCAGCTAGAACCAATAACGAGAAGTAAAAAAAAGTGACAAAAAGTCAAATGTGTCTTTATACGAATTTTTTAACCTACATATGAAGAGTAAGGTCATAAATAATAAATGTAGGGCTAAATGCAGTTAAGATTACTACAGTATTAGGTCTGTTTTTTATCACCTCTTACGGAAAGTGCGAGCGGGAAAAAATTTTTCTTCTTTCCTTATTATCATACCGATGCTCATCACAATGAAAGATACATATTGCATCAATAATAGGCAGTTTTCAATATTCTTCTGTTTAGTTAAGAAAAAGACTTGAAGTGAAAATAAACTACATTATGGTTGCGCCTACTGCTTTGAAAAAGGCTACTGTGACACCTGTAAGTGGACAAGATGGGGGCAGTAGTAGAATT\n+>Test_sequece_purge_dups:7268-9120\n+TAGGAATAAATAATACCGAAAGCATCGATGAGGACGATGATGACGACGTTCTGTTAGATGATTCCGACAATAACACAGCAAAAGAAGAGGTAGAGGGCGAAGAAGGTAGCCGGAAAACGCACGAATCTAAGACCGTAGTGGTTGATGACCAGGGGAAACCTCGCTTCACTTCAGCTAGCAAAACACAGGGTAACAAAATAAAATTTGAATCGAGAAAGATCATGGTTCCACCACACAGAATGACACCCTTGAGGAACAGTTGGACAAAAATTTATCCTCCTTTGGTCGAGCACTTGAAGCTGCAAGTCAGAATGAATTTAAAGACCAAATCCGTAGAACTAAGAACGAATCCTAAATTTACCACAGACCCTGGTGCGTTGCAAAAAGGGGCCGATTTTATCAAAGCCTTTACCTTAGGGTTTGATCTTGACGATTCTATCGCACTATTGAGGCTAGATGATTTATATATTGAGACTTTTGAAGTCAAAGATGTCAAGACTCTAACAGGTGACCATTTGTCGAGAGCCATCGGTCGTATTGCCGGTAAAGACGGTAAAACGAAATTTGCGATTGAAAACGCTACAAGAACAAGAATTGTCTTAGCTGACTCTAAAATCCACATTTTGGGCGGGTTCACCCACATCAGAATGGCAAGAGAATCTGTGGTTAGTTTAATTTTGGGTTCCCCTCCAGGTAAAGTTTATGGGAACTTACGTACCGTTGCATCTAGATTAAAAGAACGCTACTAAACATAATTTGTGGGCTTTCATCATCTGTATAATATTTATATGTCGTTTTATGGCGAAATAGAGTGAATAAATAGGTTTTTTTTTCCTTCTTTTTTTTAGGACGCCAAACGCGTAACGTTAGCGGTGATAAATTAGTTTAGTATTATTATCCGGCTATTTGCTTCATGTATTTAACGTCTTCACTGACCACCTTCGCTGCACTAAATCGTATGGTACCATAGCATTAATCTTTTTGAATCAGAGAAGGTTTTCCAATGAAAAGGCACGTGTCTTTATCTGATATATTGACAGGAAATAAGAGAAAAGTGAGAAGACAAGATGCTCTACAGATTACCATCGATGACGAAAATGATACTGAATCAGGCACTTTTGACGCCAGAACAGCCAAACATGACGATTCTTCAGTAATATTTTTAAACCACTCTGTTGTGAAGCCAATTGAAGCTGTTTCTACTAATCACAAATCTGCAAAGGAGTTTTTGATGACGAAACGCACAAAAGAAAAATGCGATGACGACGATGATGATCTTATTGTAATCAGTGATAAGAGTCCCAAAAGTGAGACTAATTGTAGCAAAATTGCACTTTCGCAGGAGCATGAAGATGATATTTCTATAATTTCCACATCGAGAATCAAATCATCGCTTCTTAATGAAAGAGCATCAAAGATTAAAAACTTCCTTAAACATGAGACAACCGACACGTTCAAAAGATTAAATAGCATCTCTAAACTAAATGAAATAGAGCCACCATTACCATTACATCAATCGATTTTCCCAGTAGGTGACAAAGAGCTGTCAGATCGGAGTGTTGATATCCCGCTTCCTTTCCGCACAATACCGCCATTAAATCATAATTTTCTTCCTAGTGACTATGAATCGTTGAAAGACAAGAATTCAGCATCTTGTATTCCTGTTCGCTATCAAGCACCGGTATTACTTGGCACAAATATTAAAAGAAATACAACTCTCACATGGCCGCAGCTATTCAAGCCTGTCACTTTAAAACAAGTATTAATTGAACCCAAATTGAAACTTCGAATCAAAAATTGGATTGAAACATCCTTTCATACGCTAGAAAAGCCTACCTTGAGGAACCGTCTAT\n+>Test_sequece_purge_dups:9122-10180\n+GAACAGAATAAATCCCAATAAACAACAGGGATCTGGTGATGAGCTTGCCAACTTCATTGTACCTGATCTCGAAGAAGACGAAAACTTGCGTCCAGATTTCTACAGAAATGGCGAAGCAAATAGCAGCTTGAGCGAATTTGTTCCACTAATGATATTACACGGAAATTCAATAGGCAAGAAAACGCTGATACAGACAATCATGAGAGAGATTGCTGGCGACGATAATTCTTACCAGATATATGAAGTTAATTCAAACATGAACAGGAGCAAAAAAGATTTGCTTGATATCCTACTAGATTTTACCACCACACACTATGTCAAAGATTCCTCAAAAAGGAAAAGTGACTACGGGCTTGTTTTATTTAATGATGTTGATGTTTTATTTAAAGAACATGATAGGGGATATTGGGCAATGATCAGCAAGCTTTGTGAATTTTCACGAAGGCCCCTCGTATTGACTTGTAAGGATTTGTCACTAGTTCCTAGTGAACTTATTGCCTTGGCAAGTGAACAAAACTCTTTGTTTCATACTAAGAAAATTAGTACATCCACAGTCTATGCGTTTCTAACAAAATATTTAAAGTCCCTTGAAATCGAAGTTTGTGACGACTGGCTTCGCGATGTTGTAAAACAAAATAATGCGGATATTAGGAAGTGCTTGATGCACTTGCAGTTTTGGTGCGTTGATACTGGGGCTGATTTGATTTCATCCAAGAACAGACTACCGGTCCTAACATCAACTCTTGGTTCAAGCGTTAAAGATATATCGCAATTAACTGATCTACTCTCCATAAATGATGTTATTGGTCAAGCAACGCTCAATCGTTCCATGGTTAGACAAGAAATAGATTCTACCACAATGACCCCAGAAAAAGTTAATACTTTCCAGGATCAAAATCTGGATGATGAAATGAAATTAAAATTTGATTACGTGATAGATTATAAATTGCATTTAAATGACCCCAATAGACAACCATTATTACCCTTTGAATTGAATATTTACCAACACATCCAAGAACAATTGGAAGCTCGGTATTCCTATGTTAGAGAAGCAAACCA\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/split_out.fasta --- a/test-data/split_out.fasta Mon Jun 14 18:01:05 2021 +0000 +++ b/test-data/split_out.fasta Tue Oct 12 19:07:05 2021 +0000 |
| b |
| b'@@ -1,2 +1,16 @@\n->Sequence:1-608\n-gttcgatgcc taaaatacct tcttttgtcc ctacacagac cacagttttc ctaatggctttacaccgact agaaattctt gtgcaagcac taattgaaag cggttggcct agagtgttaccggtttgtat agctgagcgc gtctcttgcc ctgatcaaag gttcattttc tctactttggaagacgttgt ggaagaatac aacaagtacg agtctctccc ccctggtttg ctgattactggatacagttg taataccctt cgcaacaccg cgtaactatc tatatgaatt attttccctttattatatgt agtaggttcg tctttaatct tcctttagca agtcttttac tgttttcgacctcaatgttc atgttcttag gttgttttgg ataatatgcg gtcagtttaa tcttcgttgtttcttcttaa aatatttatt catggtttaa tttttggttt gtacttgttc aggggccagttcattattta ctctgtttgt atacagcagt tcttttattt ttagtatgat tttaatttaaaacaattcta atggtcaaaa a\n+>Test_sequece_purge_dups:1-744\n+ATGCCAGAGCACGTGGTCCAATGCAAGTATTGACGAGACAGCCTGTAGAGGGTAGATCGAGAGACGGTGGTTTAAGATTCGGTGAGATGGAACGTGACTGTATGATTGCTCATGGTGCTGCCTCATTCTTGAAGGAGAGATTAATGGAAGCATCCGATGCCTTTAGAGTCCATATTTGTGGTATTTGCGGGCTGATGACAGTTATCGCGAAATTAAATCATAACCAATTTGAATGTAAGGGATGTGATAATAAGATTGATATTTACCAAATTCATATTCCATACGCCGCGAAGTTATTATTCCAAGAACTTATGGCTATGAACATTACACCACGTTTATATACCGATCGTTCGAGAGATTTTTAAGAAATAATGTTGTAACTCTAAGAAAGTAAAATAATAAAAAACATTTCATTTGTGCTGATCTTGCCAAAAAAAGGGTAAACAAGTAGGCAATAGTAATAAAATAAGAATGAAGCATTTCTTTTAATAAGCAGAGAGAACTTTCAAGCATTCAAAAAACACAAAAATAATGATGAATAAAATGGGACTCACAGTGTTTATTTATAGTCCTTGTTTCGCATTTTACCAAATTAAAATTTAATTTTATCAAGACATATTAATGAACTTTAGCGGAAAACCTTAAATATCCAAGTCATAAATAATGACTTATGTAAAAAGTTATAAGAAAAATATACGGTGTTCATTTTGGAACAATGTTGCTGTTACACACTGTTAAATATAT\n+>Test_sequece_purge_dups:746-1078\n+TAGTATTCATAAAAGAAAGAAGATTTTAATACGCGTTTTGATTAAAACTACATAACAGATAAATATATACATGGATTGAAGACTGCAAAAAGGATATATAAAAAAATGACAAATAATTTCAATAAGCTATTTCAATTGGTTAAAAATTGATTCTTTAAGAGGCTCTGGTATTGATGATTGCTCATGGGCAAAGGCAGTAATATTTTGTTTATAAGGGTTTTCACTTCCATCGAAAACTTTTAAGCGGTCTAACCGTTGCTTTCTCAATTTATTTTTAGGCAACATACCGCTAACTGCTTTTTTCAAAATTTCTCCAAATCCTTTATCGGCAAC\n+>Test_sequece_purge_dups:1080-1985\n+ACCTTGTTCATTGTCTGTAACTTTAGCTGACCAGGTCTACCTGAATGAGACCAGTAAGTCTTCTGCTCAAATTTCTTACCTGTTACACGGATTTTTTGGCAATTAGTCACTACTACGTAGTCTCCACAGTCTTGTGACGGATGATAGACCGGCTTATGTCTACCAATTAAGGTAATTGCAATTGCTGAAGCCAATCTACCCAATGTCCTCTTATCACGGGCAACGTCGACATGGTGCCAAAGGCGCGCAAAAGCCAAGCCACTGTGTCCAATCTTCTGCGACATGAATAGGCTATTGTTGATGCTGGTATTGCTTTCTTTTTCTATATGATATCAGTGTATTCATAAGGTCTTTCTCTTTTACTTATTTAGAACGTTTTAAAGATCTCTAAACTACAAGGAAGGCTCCATGCGGGTAACAATCAACATTATAACGATAATTAACTAAACCATAACCGTCTAAGTAACCATAGCGTGCGGTGATTCTTCGCTAGATGGAACTCATGTCTTACTAGTAGCGTGTTTGGTACGTGCAATATAGAGCAAAACATTATATAGACATCGTAATAGCTTTTTATGTGCGGACTGTAATGTTTGTAAGAAGTAAAACCAGTCACTAATATAGTGAAAAAAAGTCAACTTATCGATCTATGTATCTCATAGAAGATGTATTGATTTAATATAACTTATAAAGGTGCTTCTACAGTAAGGTGCTGAGAGGACTTACTATGTCGGCAACAAGTTCAAATCTGAAGCTCTGAGGATTTCGCGAGATGCGCACAATCTGAAGTAATATAAAGATGAAAACACAATACAAAAGGCCTGAAAATCTATATGTCCGATAAGATATCATAGTATTCTTACTCGCAAGCACACATCAGGTACTTGGAAGTGTATGATGAGGTAT\n+>Test_sequece_purge_dups:1987-3249\n+AATGGTGGCTTTATTTAGTATATGCCATCGGCCTAATGCTATGCCTAGGCCCGTCGTATATTCATCCAGATGAACATTTCCAATGCATCGAGATTTTGGCTATGCAGTTCATGAAGGTCAAAGGTACCATCCCATGGGAATTTAAATCAAAATTTGCTGCTAGGAGTTACGGCCCCCTATTATTGGTTTACGGGCCTTTGTTCACTATTTTAGAATCTTTTCCCCGAAATTCAGGACAACCCAGCGTTAATTCTGTATTCGATGAGACTACAAAACTATGTGATGTACCTATTGTGCTATCATTTTTTAATACCTAAATTAATAAGGGATGAGAGAAAGGCCGTACAATTCATCAAAAAAAGTCTACTTTTAACTTCTTACGTAACCTGGACGTACCAAACACACACGTTTTCCAATTCCATAGAAACGCTGGCTTTAATCTCAACTTTAACTGTAATGGAAGATATGGTAAACGAAAAAAATATTCAAAGAAGTAATTTCAAAAATTCGGTTATATTGGGACTTATATTTAGTTTTGGTGTTTTTAATAGAGTTACTTTTCCTGCATTTATTTTCTTACCATGTTTGATATTATTCTGGAAGTTTTACCGGGTCCATTGGAAATCCTTTTCTTTACTTTTACTTTCATTTTCATTTTCCTCGTGTCTATTTGTTCTTATTGATACAAATATTTATAACAACGGAAAGGGATTTGTCATTACGCCCTTGAATAACCTGAAATACAACCTCAATGTCCAAAATTTGCAAGTACATGGATTACATCCAAGATACACCCATCTGCTGGTCAATTTACCTCAAATAGTTGGCCCAGTATTGCTGCTAGCGATTTTTTCCGGTTACAAACTCGATAAATTATCTACTTACGCAATCATATCTGGCCTGCTTTTTCTTTCATTCTTTCAACATCAAGAATTAAGATTCCTTGTACCGCTAGTGCCACTACTCGTGACAAACTTAAACTGGACACCTCTGAGTTCCACGTTAGTAAACAAGAAAATTTTCAAGGGAACTTGGCTTCTTTTTAACATAATCATGGCGTTCATCATGGGAATTTCACATCAAGCAGGAATTATCCAATTTTTGGGAGATTACTTCCACTTTCGTACCGAACAAATGGGCGTTCACATATGGTGGAAAACATACTCACCACCCACCTGGATGTATATGAGCAATAACCTAACCGTTTCTTCTCTTATCAATACACA'..b'TCTTCTCATGGATGTATTCCTGACTGAAAACAGAGTTAATGACGAATAGATAGAACGAAATGAAAGTGGTGGTGCTCAGAATGAGCCATAGAATTTGTGACAATATCAGCCAAGACGCTATAATACTTATTTCATTCAGAGAGAACGGCCTGTTGTTTTTAATAAGAATCCACTTTAGATTGATTTTGAACCTTTCTTGAAAATTCTTTGCATCTGCTAGAAGCGATTGCTTGAACTCTCGCTCATTATTTTTTCTCAGCAAAATAGTCTCAATATTGGAAGCCTTGGTAGTGAACTTGTCATTGCTTGGAAATGTTCGGATGTGCCTTTGGGCGATCAAACATCTAACAGGTAACGAACTCTTGTAAGGTGTTATAAAAGGTCTGACATTTCCATGATTAGTTGCGACGTAAGTTCGAATACAGTGTCTTACGAGATGACTTGTAATTGGAAGCAGTGGCCGCTTTATTGTAGGGACCCGTAAACGTGTGATTAGCATGAATTTTATAAACCTCCCACCACCTGATAATCTGTATGTGCCTTTTGTTTTAATACTTCTTGACGCAAATCTACTGTCAACTTTAATATGCATCCCTCCATAGTAAGTCAAGGATCAGCTAGAACCAATAACGAGAAGTAAAAAAAAGTGACAAAAAGTCAAATGTGTCTTTATACGAATTTTTTAACCTACATATGAAGAGTAAGGTCATAAATAATAAATGTAGGGCTAAATGCAGTTAAGATTACTACAGTATTAGGTCTGTTTTTTATCACCTCTTACGGAAAGTGCGAGCGGGAAAAAATTTTTCTTCTTTCCTTATTATCATACCGATGCTCATCACAATGAAAGATACATATTGCATCAATAATAGGCAGTTTTCAATATTCTTCTGTTTAGTTAAGAAAAAGACTTGAAGTGAAAATAAACTACATTATGGTTGCGCCTACTGCTTTGAAAAAGGCTACTGTGACACCTGTAAGTGGACAAGATGGGGGCAGTAGTAGAATT\n+>Test_sequece_purge_dups:7268-9120\n+TAGGAATAAATAATACCGAAAGCATCGATGAGGACGATGATGACGACGTTCTGTTAGATGATTCCGACAATAACACAGCAAAAGAAGAGGTAGAGGGCGAAGAAGGTAGCCGGAAAACGCACGAATCTAAGACCGTAGTGGTTGATGACCAGGGGAAACCTCGCTTCACTTCAGCTAGCAAAACACAGGGTAACAAAATAAAATTTGAATCGAGAAAGATCATGGTTCCACCACACAGAATGACACCCTTGAGGAACAGTTGGACAAAAATTTATCCTCCTTTGGTCGAGCACTTGAAGCTGCAAGTCAGAATGAATTTAAAGACCAAATCCGTAGAACTAAGAACGAATCCTAAATTTACCACAGACCCTGGTGCGTTGCAAAAAGGGGCCGATTTTATCAAAGCCTTTACCTTAGGGTTTGATCTTGACGATTCTATCGCACTATTGAGGCTAGATGATTTATATATTGAGACTTTTGAAGTCAAAGATGTCAAGACTCTAACAGGTGACCATTTGTCGAGAGCCATCGGTCGTATTGCCGGTAAAGACGGTAAAACGAAATTTGCGATTGAAAACGCTACAAGAACAAGAATTGTCTTAGCTGACTCTAAAATCCACATTTTGGGCGGGTTCACCCACATCAGAATGGCAAGAGAATCTGTGGTTAGTTTAATTTTGGGTTCCCCTCCAGGTAAAGTTTATGGGAACTTACGTACCGTTGCATCTAGATTAAAAGAACGCTACTAAACATAATTTGTGGGCTTTCATCATCTGTATAATATTTATATGTCGTTTTATGGCGAAATAGAGTGAATAAATAGGTTTTTTTTTCCTTCTTTTTTTTAGGACGCCAAACGCGTAACGTTAGCGGTGATAAATTAGTTTAGTATTATTATCCGGCTATTTGCTTCATGTATTTAACGTCTTCACTGACCACCTTCGCTGCACTAAATCGTATGGTACCATAGCATTAATCTTTTTGAATCAGAGAAGGTTTTCCAATGAAAAGGCACGTGTCTTTATCTGATATATTGACAGGAAATAAGAGAAAAGTGAGAAGACAAGATGCTCTACAGATTACCATCGATGACGAAAATGATACTGAATCAGGCACTTTTGACGCCAGAACAGCCAAACATGACGATTCTTCAGTAATATTTTTAAACCACTCTGTTGTGAAGCCAATTGAAGCTGTTTCTACTAATCACAAATCTGCAAAGGAGTTTTTGATGACGAAACGCACAAAAGAAAAATGCGATGACGACGATGATGATCTTATTGTAATCAGTGATAAGAGTCCCAAAAGTGAGACTAATTGTAGCAAAATTGCACTTTCGCAGGAGCATGAAGATGATATTTCTATAATTTCCACATCGAGAATCAAATCATCGCTTCTTAATGAAAGAGCATCAAAGATTAAAAACTTCCTTAAACATGAGACAACCGACACGTTCAAAAGATTAAATAGCATCTCTAAACTAAATGAAATAGAGCCACCATTACCATTACATCAATCGATTTTCCCAGTAGGTGACAAAGAGCTGTCAGATCGGAGTGTTGATATCCCGCTTCCTTTCCGCACAATACCGCCATTAAATCATAATTTTCTTCCTAGTGACTATGAATCGTTGAAAGACAAGAATTCAGCATCTTGTATTCCTGTTCGCTATCAAGCACCGGTATTACTTGGCACAAATATTAAAAGAAATACAACTCTCACATGGCCGCAGCTATTCAAGCCTGTCACTTTAAAACAAGTATTAATTGAACCCAAATTGAAACTTCGAATCAAAAATTGGATTGAAACATCCTTTCATACGCTAGAAAAGCCTACCTTGAGGAACCGTCTAT\n+>Test_sequece_purge_dups:9122-10180\n+GAACAGAATAAATCCCAATAAACAACAGGGATCTGGTGATGAGCTTGCCAACTTCATTGTACCTGATCTCGAAGAAGACGAAAACTTGCGTCCAGATTTCTACAGAAATGGCGAAGCAAATAGCAGCTTGAGCGAATTTGTTCCACTAATGATATTACACGGAAATTCAATAGGCAAGAAAACGCTGATACAGACAATCATGAGAGAGATTGCTGGCGACGATAATTCTTACCAGATATATGAAGTTAATTCAAACATGAACAGGAGCAAAAAAGATTTGCTTGATATCCTACTAGATTTTACCACCACACACTATGTCAAAGATTCCTCAAAAAGGAAAAGTGACTACGGGCTTGTTTTATTTAATGATGTTGATGTTTTATTTAAAGAACATGATAGGGGATATTGGGCAATGATCAGCAAGCTTTGTGAATTTTCACGAAGGCCCCTCGTATTGACTTGTAAGGATTTGTCACTAGTTCCTAGTGAACTTATTGCCTTGGCAAGTGAACAAAACTCTTTGTTTCATACTAAGAAAATTAGTACATCCACAGTCTATGCGTTTCTAACAAAATATTTAAAGTCCCTTGAAATCGAAGTTTGTGACGACTGGCTTCGCGATGTTGTAAAACAAAATAATGCGGATATTAGGAAGTGCTTGATGCACTTGCAGTTTTGGTGCGTTGATACTGGGGCTGATTTGATTTCATCCAAGAACAGACTACCGGTCCTAACATCAACTCTTGGTTCAAGCGTTAAAGATATATCGCAATTAACTGATCTACTCTCCATAAATGATGTTATTGGTCAAGCAACGCTCAATCGTTCCATGGTTAGACAAGAAATAGATTCTACCACAATGACCCCAGAAAAAGTTAATACTTTCCAGGATCAAAATCTGGATGATGAAATGAAATTAAAATTTGATTACGTGATAGATTATAAATTGCATTTAAATGACCCCAATAGACAACCATTATTACCCTTTGAATTGAATATTTACCAACACATCCAAGAACAATTGGAAGCTCGGTATTCCTATGTTAGAGAAGCAAACCA\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/test.fasta --- a/test-data/test.fasta Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,11 +0,0 @@ ->Sequence 561 BP; 135 A; 106 C; 98 G; 222 T; 0 other; -gttcgatgcc taaaatacct tcttttgtcc ctacacagac cacagttttc ctaatggctt -tacaccgact agaaattctt gtgcaagcac taattgaaag cggttggcct agagtgttac -cggtttgtat agctgagcgc gtctcttgcc ctgatcaaag gttcattttc tctactttgg -aagacgttgt ggaagaatac aacaagtacg agtctctccc ccctggtttg ctgattactg -gatacagttg taataccctt cgcaacaccg cgtaactatc tatatgaatt attttccctt -tattatatgt agtaggttcg tctttaatct tcctttagca agtcttttac tgttttcgac -ctcaatgttc atgttcttag gttgttttgg ataatatgcg gtcagtttaa tcttcgttgt -ttcttcttaa aatatttatt catggtttaa tttttggttt gtacttgttc aggggccagt -tcattattta ctctgtttgt atacagcagt tcttttattt ttagtatgat tttaatttaa -aacaattcta atggtcaaaa a \ No newline at end of file |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/test.paf --- a/test-data/test.paf Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,245 +0,0 @@\n-gi|568815454:1200216-1203631\t3416\t0\t3416\t+\tgi|568815529:1421891-1425306\t3416\t0\t3416\t3416\t3416\t0\tNM:i:0\tms:i:6832\tAS:i:6832\tnn:i:0\ttp:A:S\tcm:i:637\ts1:i:3404\tde:f:0\trl:i:0\tcg:Z:3416M\n-gi|568815454:1200216-1203631\t3416\t0\t3416\t+\tgi|568815592:29942469-29945883\t3415\t0\t3415\t3371\t3416\t0\tNM:i:45\tms:i:6560\tAS:i:6560\tnn:i:0\ttp:A:S\tcm:i:540\ts1:i:3085\tde:f:0.0132\trl:i:0\tcg:Z:1212M1I2203M\n-gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815567:1196244-1200852\t4609\t1184\t4609\t3297\t3432\t0\tNM:i:135\tms:i:6090\tAS:i:6090\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2452\tde:f:0.0329\trl:i:0\tcg:Z:1339M4D149M17D495M3I183M1I238M3I1000M\n-gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815551:1197321-1201446\t4126\t701\t4126\t3289\t3432\t0\tNM:i:143\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:385\ts1:i:2485\tde:f:0.0355\trl:i:0\tcg:Z:1343M3D1M1D144M17D495M3I183M1I238M3I1000M\n-gi|568815454:1200216-1203631\t3416\t0\t3411\t+\tgi|568815561:1196951-1200436\t3486\t60\t3486\t3290\t3434\t0\tNM:i:144\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:371\ts1:i:2447\tde:f:0.0352\trl:i:0\tcg:Z:175M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n-gi|568815454:1200216-1203631\t3416\t5\t3411\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3284\t3429\t0\tNM:i:145\tms:i:6022\tAS:i:6022\tnn:i:0\ttp:A:S\tcm:i:383\ts1:i:2483\tde:f:0.0355\trl:i:0\tcg:Z:170M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n-gi|568815454:1200216-1203631\t3416\t92\t3411\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3198\t3340\t0\tNM:i:142\tms:i:5860\tAS:i:5860\tnn:i:0\ttp:A:S\tcm:i:372\ts1:i:2412\tde:f:0.0362\trl:i:0\tcg:Z:1251M3D1M1D144M17D495M3I183M1I238M3I1000M\n-gi|568815529:1421891-1425306\t3416\t0\t3416\t+\tgi|568815592:29942469-29945883\t3415\t0\t3415\t3371\t3416\t0\tNM:i:45\tms:i:6560\tAS:i:6560\tnn:i:0\ttp:A:S\tcm:i:540\ts1:i:3085\tde:f:0.0132\trl:i:0\tcg:Z:1212M1I2203M\n-gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815567:1196244-1200852\t4609\t1184\t4609\t3297\t3432\t0\tNM:i:135\tms:i:6090\tAS:i:6090\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2452\tde:f:0.0329\trl:i:0\tcg:Z:1339M4D149M17D495M3I183M1I238M3I1000M\n-gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815561:1196951-1200436\t3486\t60\t3486\t3290\t3434\t0\tNM:i:144\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:371\ts1:i:2447\tde:f:0.0352\trl:i:0\tcg:Z:175M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n-gi|568815529:1421891-1425306\t3416\t0\t3411\t+\tgi|568815551:1197321-1201446\t4126\t701\t4126\t3289\t3432\t0\tNM:i:143\tms:i:6038\tAS:i:6038\tnn:i:0\ttp:A:S\tcm:i:385\ts1:i:2485\tde:f:0.0355\trl:i:0\tcg:Z:1343M3D1M1D144M17D495M3I183M1I238M3I1000M\n-gi|568815529:1421891-1425306\t3416\t5\t3411\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3284\t3429\t0\tNM:i:145\tms:i:6022\tAS:i:6022\tnn:i:0\ttp:A:S\tcm:i:383\ts1:i:2483\tde:f:0.0355\trl:i:0\tcg:Z:170M1I1163M4D149M17D495M3I165M2D18M1I238M3I1000M\n-gi|568815529:1421891-1425306\t3416\t92\t3411\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3198\t3340\t0\tNM:i:142\tms:i:5860\tAS:i:5860\tnn:i:0\ttp:A:S\tcm:i:372\ts1:i:2412\tde:f:0.0362\trl:i:0\tcg:Z:1251M3D1M1D144M17D495M3I183M1I238M3I1000M\n-gi|568815551:1197321-1201446\t4126\t0\t4126\t+\tgi|568815567:1196244-1200852\t4609\t483\t4609\t4061\t4126\t0\tNM:i:65\tms:i:7862\tAS:i:7862\tnn:i:0\ttp:A:S\tcm:i:604\ts1:i:3595\tde:f:0.0158\trl:i:0\tcg:Z:4126M\n-gi|568815551:1197321-1201446\t4126\t793\t4126\t+\tgi|568815564:1286641-1289973\t3333\t0\t3333\t3333\t3333\t0\tNM:i:0\tms:i:6666\tAS:i:6666\tnn:i:0\ttp:A:S\tcm:i:615\ts1:i:3324\tde:f:0\trl:i:0\tcg:Z:3333M\n-gi|568815551:1197321-1201446\t4126\t641\t4126\t+\tgi|568815561:1196951-1200436\t3486\t0\t3486\t3409\t3487\t0\tNM:i:78\tms:i:6504\tAS:i:6504\tnn:i:0\ttp:A:S\tcm:i:456\ts1:i:2855\tde:f:0.0221\trl:i:0\tcg:Z:235M1I1996M2D1253M\n-gi|568815551:1197321-1201446\t4126\t706\t4126\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3343\t3422\t0\tNM:i:79\tms:i:6368\tAS:i:6368\tnn:i:0\ttp:A:S\tcm:i:455\ts1:i:2819\tde:f:0.0228\trl:i:0\tcg:Z:170M1I1996M2D1253M\n-gi|568815551:1197321-1201446\t4126\t701\t4126\t+\tgi|568815592:29942469-29945883\t3415\t0\t3410\t3296\t3432\t0\tNM:i:136\tms:i:6078\tAS:i:6078\tnn:i:0\ttp:A:S\tcm:i:381\ts1:i:2471\tde:f:0.0334\trl:i:0\tcg:Z:1212M1I130M3I1M1I144M17I495M3D183M1D238M3D1000M\n-gi|568815561:1196951-1200436\t3486\t65\t3486\t+\tgi|568815569:1240288-1243708\t3421\t0\t3421\t3398\t3421\t0\tNM:i:23\t'..b'1I7M3D7M1D90M1I5M1D37M1D49M1D30M4D4M3I3M1I53M\n-gi|157734152:29655295-29712160\t56866\t47858\t48472\t+\tgi|528476637:29857558-29915771\t58214\t7043\t7661\t488\t641\t0\tNM:i:153\tms:i:364\tAS:i:364\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:48\tde:f:0.2078\trl:i:96\tcg:Z:26M4I20M1D64M2I7M1D1M1D39M9D5M2D5M4D75M2I9M1D3M2I25M1I11M1D5M1D3M1I8M1D7M3I7M1I90M1D5M1I37M1I49M1I30M4I4M3D3M1D53M\n-gi|157734152:29655295-29712160\t56866\t47858\t48472\t+\tgi|157734152:29655295-29712160\t56866\t7021\t7639\t488\t641\t0\tNM:i:153\tms:i:364\tAS:i:364\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:48\tde:f:0.2078\trl:i:96\tcg:Z:26M4I20M1D64M2I7M1D1M1D39M9D5M2D5M4D75M2I9M1D3M2I25M1I11M1D5M1D3M1I8M1D7M3I7M1I90M1D5M1I37M1I49M1I30M4I4M3D3M1D53M\n-gi|157734152:29655295-29712160\t56866\t28499\t28764\t-\tgi|528476637:29857558-29915771\t58214\t29092\t29357\t235\t265\t41\tNM:i:30\tms:i:350\tAS:i:350\tnn:i:0\ttp:A:P\tcm:i:4\ts1:i:46\ts2:i:0\tde:f:0.1132\tzd:i:2\trl:i:96\tcg:Z:265M\n-gi|157734152:29655295-29712160\t56866\t14465\t14764\t-\tgi|528476637:29857558-29915771\t58214\t45149\t45463\t266\t316\t0\tNM:i:50\tms:i:350\tAS:i:350\tnn:i:0\ttp:A:S\tcm:i:3\ts1:i:40\tde:f:0.1192\trl:i:96\tcg:Z:5M1I26M2D116M14D2M1D114M1I34M\n-gi|157734152:29655295-29712160\t56866\t29213\t29478\t-\tgi|528476637:29857558-29915771\t58214\t28378\t28643\t234\t265\t0\tNM:i:31\tms:i:344\tAS:i:344\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:46\tde:f:0.1170\tzd:i:1\trl:i:96\tcg:Z:265M\n-gi|157734152:29655295-29712160\t56866\t28499\t28764\t-\tgi|157734152:29655295-29712160\t56866\t29213\t29478\t233\t265\t40\tNM:i:32\tms:i:338\tAS:i:338\tnn:i:0\ttp:A:P\tcm:i:4\ts1:i:46\ts2:i:0\tde:f:0.1208\tzd:i:2\trl:i:96\tcg:Z:265M\n-gi|157734152:29655295-29712160\t56866\t29213\t29478\t-\tgi|157734152:29655295-29712160\t56866\t28499\t28764\t233\t265\t0\tNM:i:32\tms:i:338\tAS:i:338\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:46\tde:f:0.1208\tzd:i:1\trl:i:96\tcg:Z:265M\n-gi|157734152:29655295-29712160\t56866\t17792\t17978\t+\tgi|157734152:29655295-29712160\t56866\t17883\t18067\t176\t186\t0\tNM:i:10\tms:i:312\tAS:i:312\tnn:i:0\ttp:A:S\tcm:i:11\ts1:i:86\tde:f:0.0486\trl:i:96\tcg:Z:6M2I178M\n-gi|157734152:29655295-29712160\t56866\t17883\t18067\t+\tgi|157734152:29655295-29712160\t56866\t17792\t17978\t176\t186\t0\tNM:i:10\tms:i:312\tAS:i:312\tnn:i:0\ttp:A:S\tcm:i:11\ts1:i:86\tde:f:0.0486\trl:i:96\tcg:Z:6M2D178M\n-gi|157734152:29655295-29712160\t56866\t6285\t6982\t-\tgi|528476637:29857558-29915771\t58214\t6307\t7004\t528\t727\t0\tNM:i:199\tms:i:272\tAS:i:272\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:44\tde:f:0.2392\trl:i:96\tcg:Z:11M1D155M1I43M2D64M2I1M1I6M3I5M2I1M2I6M1D9M2I3M3D6M8I5M1I8M1I5M1I9M1D6M1D5M1D8M8D5M3I4M2D3M2D13M2D7M5D70M2I43M1D154M1I12M\n-gi|157734152:29655295-29712160\t56866\t6285\t6982\t-\tgi|157734152:29655295-29712160\t56866\t6285\t6982\t528\t723\t0\tNM:i:195\tms:i:272\tAS:i:272\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:44\tde:f:0.2436\trl:i:96\tcg:Z:11M1D155M1I43M2D64M2I1M1I6M3I5M2I1M2I6M1D9M2I3M3D6M1I7M2D2M2I3M2D26M2I3M2D2M2I7M1D5M3I4M2D3M2D13M2D7M5D70M2I43M1D154M1I12M\n-gi|157734152:29655295-29712160\t56866\t8039\t8361\t+\tgi|157734152:29655295-29712160\t56866\t8039\t8285\t228\t323\t0\tNM:i:95\tms:i:262\tAS:i:281\tnn:i:0\ttp:A:S\tcm:i:8\ts1:i:53\tde:f:0.0769\trl:i:96\tcg:Z:131M77I89M1D25M\n-gi|157734152:29655295-29712160\t56866\t8039\t8285\t+\tgi|157734152:29655295-29712160\t56866\t8039\t8361\t228\t323\t0\tNM:i:95\tms:i:262\tAS:i:281\tnn:i:0\ttp:A:S\tcm:i:8\ts1:i:53\tde:f:0.0769\trl:i:96\tcg:Z:131M77D89M1I25M\n-gi|157734152:29655295-29712160\t56866\t46497\t46603\t-\tgi|157734152:29655295-29712160\t56866\t46497\t46603\t92\t106\t0\tNM:i:14\tms:i:128\tAS:i:128\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:54\tde:f:0.1321\trl:i:96\tcg:Z:106M\n-gi|157734152:29655295-29712160\t56866\t8206\t8392\t+\tgi|157734152:29655295-29712160\t56866\t8003\t8199\t154\t201\t0\tNM:i:47\tms:i:116\tAS:i:116\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:41\tde:f:0.1979\trl:i:96\tcg:Z:14M3D43M2I1M1I28M1D2M2D3M1D14M1D11M2D3M2D5M2I5M3D52M\n-gi|157734152:29655295-29712160\t56866\t8003\t8199\t+\tgi|157734152:29655295-29712160\t56866\t8206\t8392\t154\t201\t0\tNM:i:47\tms:i:116\tAS:i:116\tnn:i:0\ttp:A:S\tcm:i:5\ts1:i:41\tde:f:0.1979\trl:i:96\tcg:Z:14M3I43M2D1M1D28M1I2M2I3M1I14M1I11M2I3M2I5M2D5M3I52M\n-gi|157734152:29655295-29712160\t56866\t46537\t46603\t-\tgi|157734152:29655295-29712160\t56866\t46537\t46603\t60\t66\t0\tNM:i:6\tms:i:96\tAS:i:96\tnn:i:0\ttp:A:S\tcm:i:4\ts1:i:48\tde:f:0.0909\trl:i:96\tcg:Z:66M\n' |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/test.paf.gz |
| b |
| Binary file test-data/test.paf.gz has changed |
| b |
| diff -r 76d4cbefff85 -r a315c25dc813 test-data/tx_stats.tabular --- a/test-data/tx_stats.tabular Mon Jun 14 18:01:05 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| @@ -1,501 +0,0 @@ -0 0 -1 0 -2 0 -3 0 -4 0 -5 0 -6 0 -7 0 -8 0 -9 0 -10 0 -11 0 -12 0 -13 0 -14 0 -15 0 -16 0 -17 0 -18 0 -19 0 -20 0 -21 0 -22 0 -23 0 -24 0 -25 0 -26 0 -27 0 -28 0 -29 0 -30 0 -31 0 -32 0 -33 0 -34 0 -35 0 -36 0 -37 0 -38 0 -39 0 -40 0 -41 0 -42 0 -43 0 -44 0 -45 0 -46 0 -47 0 -48 0 -49 0 -50 0 -51 0 -52 0 -53 0 -54 0 -55 0 -56 0 -57 0 -58 0 -59 0 -60 0 -61 0 -62 0 -63 0 -64 0 -65 0 -66 0 -67 0 -68 0 -69 0 -70 0 -71 0 -72 0 -73 0 -74 0 -75 0 -76 0 -77 0 -78 0 -79 0 -80 0 -81 0 -82 0 -83 0 -84 0 -85 0 -86 0 -87 0 -88 0 -89 0 -90 0 -91 0 -92 0 -93 0 -94 0 -95 0 -96 0 -97 0 -98 0 -99 0 -100 0 -101 0 -102 0 -103 0 -104 0 -105 0 -106 0 -107 0 -108 0 -109 0 -110 0 -111 0 -112 0 -113 0 -114 0 -115 0 -116 0 -117 0 -118 0 -119 0 -120 0 -121 0 -122 0 -123 0 -124 0 -125 0 -126 0 -127 0 -128 0 -129 0 -130 0 -131 0 -132 0 -133 0 -134 0 -135 0 -136 0 -137 0 -138 0 -139 0 -140 0 -141 0 -142 0 -143 0 -144 0 -145 0 -146 0 -147 0 -148 0 -149 0 -150 0 -151 0 -152 0 -153 0 -154 0 -155 0 -156 0 -157 0 -158 0 -159 0 -160 0 -161 0 -162 0 -163 0 -164 0 -165 0 -166 0 -167 0 -168 0 -169 0 -170 0 -171 0 -172 0 -173 0 -174 0 -175 0 -176 0 -177 0 -178 0 -179 0 -180 0 -181 0 -182 0 -183 0 -184 0 -185 0 -186 0 -187 0 -188 0 -189 0 -190 0 -191 0 -192 0 -193 0 -194 0 -195 0 -196 0 -197 0 -198 0 -199 0 -200 0 -201 0 -202 0 -203 0 -204 0 -205 0 -206 0 -207 0 -208 0 -209 0 -210 0 -211 0 -212 0 -213 0 -214 0 -215 0 -216 0 -217 0 -218 0 -219 0 -220 0 -221 0 -222 0 -223 0 -224 0 -225 0 -226 0 -227 0 -228 0 -229 0 -230 0 -231 0 -232 0 -233 0 -234 0 -235 0 -236 0 -237 0 -238 0 -239 0 -240 0 -241 0 -242 0 -243 0 -244 0 -245 0 -246 0 -247 0 -248 0 -249 0 -250 0 -251 0 -252 0 -253 0 -254 0 -255 0 -256 0 -257 0 -258 0 -259 0 -260 0 -261 0 -262 0 -263 0 -264 0 -265 0 -266 0 -267 0 -268 0 -269 0 -270 0 -271 0 -272 0 -273 0 -274 0 -275 0 -276 0 -277 0 -278 0 -279 0 -280 0 -281 0 -282 0 -283 0 -284 0 -285 0 -286 0 -287 0 -288 0 -289 0 -290 0 -291 0 -292 0 -293 0 -294 0 -295 0 -296 0 -297 0 -298 0 -299 0 -300 0 -301 0 -302 0 -303 0 -304 0 -305 0 -306 0 -307 0 -308 0 -309 0 -310 0 -311 0 -312 0 -313 0 -314 0 -315 0 -316 0 -317 0 -318 0 -319 0 -320 0 -321 0 -322 0 -323 0 -324 0 -325 0 -326 0 -327 0 -328 0 -329 0 -330 0 -331 0 -332 0 -333 0 -334 0 -335 0 -336 0 -337 0 -338 0 -339 0 -340 0 -341 0 -342 0 -343 0 -344 0 -345 0 -346 0 -347 0 -348 0 -349 0 -350 0 -351 0 -352 0 -353 0 -354 0 -355 0 -356 0 -357 0 -358 0 -359 0 -360 0 -361 0 -362 0 -363 0 -364 0 -365 0 -366 0 -367 0 -368 0 -369 0 -370 0 -371 0 -372 0 -373 0 -374 0 -375 0 -376 0 -377 0 -378 0 -379 0 -380 0 -381 0 -382 0 -383 0 -384 0 -385 0 -386 0 -387 0 -388 0 -389 0 -390 0 -391 0 -392 0 -393 0 -394 0 -395 0 -396 0 -397 0 -398 0 -399 0 -400 0 -401 0 -402 0 -403 0 -404 0 -405 0 -406 0 -407 0 -408 0 -409 0 -410 0 -411 0 -412 0 -413 0 -414 0 -415 0 -416 0 -417 0 -418 0 -419 0 -420 0 -421 0 -422 0 -423 0 -424 0 -425 0 -426 0 -427 0 -428 0 -429 0 -430 0 -431 0 -432 0 -433 0 -434 0 -435 0 -436 0 -437 0 -438 0 -439 0 -440 0 -441 0 -442 0 -443 0 -444 0 -445 0 -446 0 -447 0 -448 0 -449 0 -450 0 -451 0 -452 0 -453 0 -454 0 -455 0 -456 0 -457 0 -458 0 -459 0 -460 0 -461 0 -462 0 -463 0 -464 0 -465 0 -466 0 -467 0 -468 0 -469 0 -470 0 -471 0 -472 0 -473 0 -474 0 -475 0 -476 0 -477 0 -478 0 -479 0 -480 0 -481 0 -482 0 -483 0 -484 0 -485 0 -486 0 -487 0 -488 0 -489 0 -490 0 -491 0 -492 0 -493 0 -494 0 -495 0 -496 0 -497 0 -498 0 -499 0 -500 0 |
