| Next changeset 1:864279a0d64b (2018-10-16) |
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Commit message:
planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tools/maxbin2 commit 8e118a4d24047e2c62912b962e854f789d6ff559-dirty |
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added:
maxbin2.xml test-data/1/out.001.fasta test-data/1/out.001.marker.fasta test-data/1/out.002.fasta test-data/1/out.abund1 test-data/1/out.log test-data/1/out.marker test-data/1/out.marker_of_each_bin.tar.gz test-data/1/out.noclass test-data/1/out.summary test-data/1/out.tooshort test-data/2/out.001.fasta test-data/2/out.001.marker.fasta test-data/2/out.002.fasta test-data/2/out.log test-data/2/out.marker test-data/2/out.marker.pdf test-data/2/out.marker_of_each_bin.tar.gz test-data/2/out.noclass test-data/2/out.summary test-data/2/out.tooshort test-data/3/out.001.fasta test-data/3/out.001.marker.fasta test-data/3/out.002.fasta test-data/3/out.abund1 test-data/3/out.idba.err test-data/3/out.idba.out test-data/3/out.log test-data/3/out.marker test-data/3/out.marker_of_each_bin.tar.gz test-data/3/out.noclass test-data/3/out.reassem/N50.txt test-data/3/out.reassem/out.001.fasta test-data/3/out.reassem/out.002.fasta test-data/3/out.reassem/out.reads.001 test-data/3/out.reassem/out.reads.002 test-data/3/out.reassem/out.reads.noclass test-data/3/out.summary test-data/3/out.tooshort test-data/Bin_Sample3_contigs.fasta test-data/abundances.tsv test-data/interleavedPE_unmapped_Sample3_total.fasta |
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| diff -r 000000000000 -r 35aa0df55a62 maxbin2.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/maxbin2.xml Thu Jun 28 08:49:29 2018 -0400 |
| [ |
| b'@@ -0,0 +1,272 @@\n+<tool id="maxbin2" name="MaxBin2" version="2.2.4">\n+ <requirements>\n+ <requirement type="package" version="2.2.4">maxbin2</requirement>\n+ </requirements>\n+ <version_command><![CDATA[run_MaxBin.pl -version | head -n 1]]></version_command>\n+ <command detect_errors="exit_code"><![CDATA[\n+ ## generate read or abundance files\t\n+ #if $intype_cond.intype_select == \'rds\':\n+ #for $r in $intype_cond.reads\n+ #if $r\n+ echo \'$r\' >> reads_list &&\n+ #end if\n+ #end for\n+ #else if $intype_cond.intype_select == \'abdc\':\n+ #for $a in $intype_cond.abund\n+ #if $a\n+ echo \'$a\' >> abund_list &&\n+ #end if\n+ #end for\n+ #end if\n+\n+ ## in case of reassembly the IBDA out and err is appended\n+ ## to differentiate this a header is added also befor the\n+ ## MaxBin2 outputs\n+ #if $intype_cond.intype_select == \'rds\' and $intype_cond.reassembly != ""\n+ echo "==== MaxBin2 stdout ====" &&\n+ echo "==== MaxBin2 stderr ====" 1>&2 &&\n+ #end if\n+\n+ run_MaxBin.pl\n+ -contig \'$contig\'\n+ -out out\n+ #if $intype_cond.intype_select == \'rds\':\n+ -reads_list reads_list\n+ $intype_cond.reassembly\n+ #else if $intype_cond.intype_select == \'abdc\':\n+ -abund_list abund_list\n+ #end if\n+ #if $adv_cond.adv_select == \'yes\':\n+ -min_contig_length $adv_cond.min_contig_length\n+ -max_iteration $adv_cond.max_iteration\n+ -prob_threshold $adv_cond.prob_threshold\n+ $adv_cond.plotmarker\n+ -markerset $adv_cond.markerset\n+ #end if\n+ -thread \\${GALAXY_SLOTS:-1}\n+\n+ && tar -xf out.marker_of_each_bin.tar.gz\n+\n+ ## redirect the idba out and err file content to stdout and err\n+ #if $intype_cond.intype_select == \'rds\' and $intype_cond.reassembly != ""\n+ && echo "==== IDBA stdout ===="\n+ && cat out.idba.out\n+ && echo "==== IDBA stderr ====" 1>&2\n+ && cat out.idba.err 1>&2\n+ #end if\n+ ]]></command>\n+ <inputs>\n+ <param argument="-contig" type="data" format="fasta,fasta.gz" label="Contig file"/>\n+ <conditional name="intype_cond">\n+ <param name="intype_select" type="select" label="Input type">\n+ <option value="rds" selected="true">Sequencing Reads</option>\n+ <option value="abdc">Abundances</option>\n+ </param>\n+ <when value="rds">\n+ <param name="reads" argument="-read/-read2/..." type="data" format="fasta,fastq" multiple="true" label="Reads file(s)"/>\n+ <param argument="--reassembly" type="boolean" truevalue="-reassembly" falsevalue="" checked="false" label="" help="Reassembly option is still highly experimental. To use this function, you need to feed MaxBin interleaved paired-end fastq or fasta file if you were to use this option." />\n+ </when>\n+ <when value="abdc">\n+ <param name="abund" argument="-abund/-abund2/..." type="data" format="tabular" multiple="true" label="Abundance file(s)"/>\n+ </when>\n+ </conditional>\n+ <conditional name="adv_cond">\n+ <param name="adv_select" type="select" label="Advanced options">\n+ <option value="yes">Yes</option>\n+ <option value="no" selected="true">No</option>\n+ </param>\n+ <when value="no"/>\n+ <when value="yes">\n+ <param argument="-min_contig_length" type="integer" min="0" value="1000" label="minimum contig length" />\n+ <param argument="-max_iteration" type="integer" min="0" value="50" label="Maximum Expectation-Maximization algorithm iteration number" />\n+ <param argument="-prob_threshold" type="float" min="0" max="1.0" value="0.9" label="Probability threshold for EM final classification" />\n+ <param name="plotmarker" type="boolean" truevalue="-pl'..b'<output name="noclass" file="3/out.noclass" ftype="fasta" />\n+ <output name="toshort" file="3/out.tooshort" ftype="fasta" />\n+ <output_collection name="markers" type="list" count="1">\n+ <element name="001" file="3/out.001.marker.fasta" ftype="fasta"/>\n+ </output_collection>\n+ <output_collection name="reassembly_bins" type="list" count="2">\n+ <element name="001" file="3/out.reassem/out.001.fasta" ftype="fasta"/>\n+ <element name="002" file="3/out.reassem/out.002.fasta" ftype="fasta"/>\n+ </output_collection>\n+ <output_collection name="reassembly_reads" type="list" count="2">\n+ <element name="001" file="3/out.reassem/out.reads.001" ftype="fasta"/>\n+ <element name="002" file="3/out.reassem/out.reads.002" ftype="fasta"/>\n+ </output_collection>\n+ <output name="reassembly_noclass" file="3/out.reassem/out.reads.noclass" ftype="fasta" />\n+ <output name="reassembly_n50" file="3/out.reassem/N50.txt" ftype="text" />\n+ </test>\n+ </tests>\n+ <help><![CDATA[\n+MaxBin is a software that clusters metagenomic contigs into different bins,\n+each consists (hopefully) of contigs from one species. MaxBin uses the\n+nucleotide composition information and contig abundance information to do\n+achieve binning through an Expectation-Maximization algorithm.\n+\n+\n+**Input**:\n+\n+MaxBin need the contigs and contig abundance information. The contig abundance\n+information can be provided in two ways: the user can choose to provide\n+\n+- the abundance file or\n+- the sequencing reads in fasta format (and MaxBin will use Bowtie2 to map the\n+ sequencing reads against the contigs and generate the abundance information)\n+\n+The abundance information can be provided as tabular file:\n+\n+For example, assume I have three contigs named A0001, A0002, and A0003, then my abundance file will look like\n+\n+A0001\t30.89\n+A0002\t20.02\n+A0003\t78.93\n+\n+Reads/Abundundance files can be given in multiple files.\n+\n+By default MaxBin will look for 107 marker genes present in >95% of bacteria.\n+Alternatively you can also choose 40 marker gene sets that are universal among\n+bacteria and archaea (Wu et al., PLoS ONE 2013). This option may be better\n+suited for environment dominated by archaea; however it tend to split genomes\n+into more bins. You can choose between different marker gene sets and see which\n+one works better.\n+\n+**Outputs**\n+\n+- bins: binned sequences\n+- summary: a summary file describing which contigs are being classified into which bin.\n+- log: a log file recording the core steps of MaxBin algorithm\n+- abundances (only if reads are used as input): a summary file describing which contigs are being classified into which bin\n+- marker: marker gene presence numbers for each bin. This table is ready to be plotted by R or other 3rd-party software.\n+- marker plot (anly present if selected in the advanced options): visualization of the marker gene presence numbers using R. Will only appear if -plotmarker is specified.\n+- unclassified sequences: this file stores all sequences that pass the minimum length threshold but are not classified successfully.\n+- to short sequences: this file stores all sequences that do not meet the minimum length threshold.\n+- markers prediced for bins: these data sets store all markers predicted from the individual bins.\n+\n+**Reassembly**\n+\n+This is an experimental feature of MaxBin. It calls for each read bin IDBA_UD with the pre_correction parameter. Of course this IDBA_UD call can be done also with the corresponding Galaxy tool\n+\n+]]></help>\n+ <citations>\n+ <citation type="doi">10.1093/bioinformatics/btv638</citation>\n+ <citation type="bibtex">\n+@misc{renameTODO,\n+ author = {LastTODO, FirstTODO},\n+ year = {TODO},\n+ title = {TODO},\n+ url = {https://downloads.jbei.org/data/microbial_communities/MaxBin/MaxBin.html},\n+}</citation>\n+ </citations>\n+</tool>\n' |
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| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.001.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.001.fasta Thu Jun 28 08:49:29 2018 -0400 |
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| b'@@ -0,0 +1,8225 @@\n+>contig-201_2\n+TAACCAGACGGAACGGTATCTGATGGCCACGGGATTGGTGCACCGACTGGATAAAACTCTGCAGGAGGAT\n+GAGCCGAGGTGTAAAGCTGCGCCCACGGCGACCAGTTTGCGTCGGTCGTATCCCGTCGTGAACGAATAAA\n+TGCCGGAGCATGAGCACCGCTTGTACCACTCCAGCCGATGAGTAACTCACCTTCGCCAACGGCTGTCATC\n+CCTTTCAGGTGAATGATATTTCCATACGCTGTTGGATATCCGTTGTTATACACCTCGTATAACTCAAGAC\n+CTGCTGCCCCCTGCGTATTGTCTGTCAGCGCGGTTATATTCACTCAGCAACCCCGGTATCAGTTCATCCA\n+GCGCGGCTGCTTTGTTCATGGCTTTGATGATATCCCGTTTCAGGAAATCAACATGTCGGTTTTCCAGTTC\n+CGGAAAACGCCGCTGCACCGACAGGGGGATCCCGTCGAGAATACTGGCAATTTCACCTGCGATCCGCGAC\n+AGCACGAAAGTACAGAATGCGGTTTCCACCACTTCAGCGGAGTCTCTGGCATTTTTCAGCTCCTGTGCGT\n+CGGCCTGCGCACGCGTAAGTCGATGGCGTTCGTACTCAATAGTCCCTGGCTGGAGATCTGTCTCGCTGGC\n+CTGCCGCAGTTCTTCAACTTCCCGGCGCAGCTTTTCGTTCTCAATTTCAGCATCCCTTTCGGCATACCAT\n+CTTATAACGGCGGCAGAGTCATAAAGCACCTCATTACCCTTGCCACCGCCTCGCAGAACGGGCATTCCCT\n+GTTCCTGCCAGTTCTGAATGGTACGGATACTCGCACCGAAAATGTCAGCCAGCTGCTTTTTGTTGACTTC\n+CATTGCACATTCCACGGACAAAAACAGAGAAAGGAAACGACAGAGGCCAAAAAGCTCGCTTTCAGCACCT\n+GTCGTTTCCTTTCTTTTCAGGGGGTATTTTAAATAAATACATTAAGTTACGACGAAGAAGAACGGAAACA\n+CCTTAAACCGGAAAATTTTCATAAATAGCGAAAACCCGCGAGGTCGCCGCCCCGTAACCTGTCGGATCGC\n+CGGAAAGGACCCACAAAATGATAATAATTATCATCTACATGTCACAACGTGCATCTACGCCATCAAACCA\n+CGTCAAATAATCAATTATGACGCAGGTATCGTATTAATTGATCTGCATCAACTTAACGTAAAAACAACTT\n+CAGACAATACAAATCAGCGACACTGAATACGGGGCAACCTCATGTCAACGAAGAACAGAACCCGCAGAAC\n+AACAACCCGCAACATCCGCTTTCCTAACCAAATGATTGAACAAATTAACATCGCTCTTGAGCAAAAAGGG\n+TCCGGGAATTTCTCAGCCTGGGTCATTGAAGCCTGCCGCCGGAGACTGTGCTCAGAAAAAAGAGTTTCTT\n+CTGAAGCAAACAAAGAAAAGAGTGACATTACTGAATTGCTCAGAAAACAGGTCAGACCAGATTGAAGCAA\n+TTTAGATAATCGTGCAGACTACGCCCCCTCATATCACATGGAAGGTTTATCTATGGATCAGGTAGTCATT\n+TTTAAACAAATATTTGATAAAGTTCGAAACGATTTAAACTATCAATGGTTTTATTCTGAGCTAAAACGTC\n+ACAATGTCTCACATTACATTTACTATTTAGCCACAGAGAATGTTCATATTGTATTAAAAAATGATAATAC\n+AGTGTTATTAAAGGGCCTAAAAAACATTGTGTCTGTCAAATTTTCAAAGGATAGGCATCTTATAGAAACG\n+ACCTCTAATAAGCTGAAATCCAGAGAGATCACATTTCAGGAATACAGAAGAAACCTTGCTAAAGCAGGAG\n+TTTTTCGGTGGGTTACAAATATCCACGAACAAAAAAGATATTACTATACCTTTGATAATTCATTACTATT\n+TACTGAAAGCATCCAGAAAACTACACAGATCTTACCACGCTAAACCATAACGTCCGGCTTCTCTCACTCC\n+TGAGCCGGACTGCATTGGTTTAATAAAAACCATCAACAATTGTGATTTAGATATTCGGAACCATTCAAAT\n+ATAACAAAACCCCGTAAAAACGAGGTTTATGGATAAATTTTATTATTGAATACATCAGATTAAATTAATC\n+TTGACATCATAGCTTTCAAGACCCGTCATTTTTTCCCGTGCGGTAAACTGAATACTGGTAACTTCTTTCC\n+CGGTCTTTTTCTTAAGTTCAATAATTTTTTTTGTTATATATTCAGAAATATCTGCTTCTGCTTTTGTTTT\n+TAAGTTTTCAATATTCATCATTTCCTCTTTTAGTCTGTTATGACTTTCCAGTTACACAGTAAGTCGATTA\n+TATGGTGCAAACGTGTAAAAGATAAGATGAAACATCGCAATAATCAACATACGATAGTCTAAATTTTACA\n+CAAACAGACAAAGAGAATTTTCCTGAATTATCAATGCAATAGCATCAAATCAACTCAAGAGCCTTATTGC\n+TGCTTCCAGAATTTCTTCTGAAGTAACATGTCGATCCGCGGCTACATAAATGACTTTATGATCTCCGGTC\n+AGAGATGGAAACCCTGCGGCCATTACAGTAAGGTGTGTTTTTTCGCCATTTGGATATTCACGCATGATGG\n+TGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATG\n+ATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCTTCATT\n+TTCACTTTTTTAAATCCAACGACAGACGGCTGGCATTTAAGTATTGTGAAATATTATCAAATGTAATCAT\n+CATTGATTTACAAAAGATACATTTTGCCCCGAAAGGATTCATGTCAGAAACATCAAAAGATGATGTTCTA\n+TACTGGGAACCATGACAACACGGGCATCTAAAGTGAATATGGTTTGTAATATTGTCTACCTCAAAGCGCC\n+ACTACATGAACAGCGGCAGGACCTTTAGGTCCGTTCTCAATACCAAATTCAACTTCCTGATTCTCAGTTA\n+ATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGT\n+GATGAAACCAAAACCTTTTTCAGGGTTAAACCATTTCACTAAACCAGTCATTTTGTTAGACATAATTATT\n+ACCTTTTGAAGAAATTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGG\n+AAATCTCAAGAGGTACAAATAATAAAATTATAACAATGACTGCTTCAGATAAATTTGTAACAAACCAGAA\n+CACCATTAACGCATGATTAACCACCCATAGCAAGGATTACTTTTGTAAAGAAAAACACAGCAATGAAAGA\n+ATAGCTTTATTTATTAATAAAACGTGTCATTCTGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGA\n+ATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATA\n+TTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGT\n+AGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCATGTTGGTGAGCAT\n+TCCTTCGGCGGTTTTGGTTGTTTTGCCTCTGACGGCAGCGGCAAGATCTGCGGTATGCTTCGCTGCGTCA\n+AGGCGTATGGCATATTTTTTTGCTTCGGCACGCAACTGGTTAACACTATCAGACAGATAAGCAGCCCTGG\n+CAGAAATTTCAGCAGATTTCTGTTGCGCATCTTTAACAGCCTCATCACGGGCTATAGTTCGCCCCTGTTC\n+AATT'..b'GATGTATAACACCAAAACTTGCTATGCAGAAATTTGCACAGTGCGCAATTTTC\n+TGCATAGCCGCTCATTCTCCTTATAAATCCCCATCCAATTTATCCCTTCATATTCAATTAGTTAAATAAC\n+TAAATCCAAT\n+>contig-201_954\n+AATATTGCCAGTAGATTATTATCTAATCAAACATACTTTCCTATAATTCACAATTATAATTCAGGTGAAT\n+AAAAAAAGACCATGAAATATATAAATTGTGTATATAATATAAATTACAAATTAAAACCACATTCTCATTA\n+TAAATAATTATATGATGAAAAAACGGTATGAATTAATACTCAAATAAATAAAGCAGAGCTTAAACATAAC\n+TCTGCTTTATAATTAAAGGGACAAAATAATTTTACATCTGTTACTGTTTCGGTCGCAGATTCTCATCAAA\n+TACCAGGCGTTTCCTGCCAGGTTCAATTTCCCGCAATGGCTCGACTTGATGTAACGTCTGCTTACAGCGT\n+GTCACCAGCACCTGGTACTCATGCGTACCCTGCTTTTTCCATGCCAACTCCTGCTCACTGAGTTCACGAA\n+TCGCTTTCGCCGGGCTGCCGACAATCAGGTAATTAGCTGGCATTTCTGCTTTGGCTTTCACAAATGCGGA\n+TGCACCAACAATGCTGTTCTCGCCAATCACCGCACCGTCCATCACTACCGCGTTCATTCCCACTAATGCA\n+TTGCGGCGGATAATGCAGCCGTGAAGGATAGCGCTATGACCAATATGTCCATCTTCTCCTACAACAGTAT\n+CCTGCTCGGGAAAACCGTGCATAACGCAATTATCCTGAATGTTCGCGCCATCTTTCACCACGATACGACC\n+AAAATCGCCACGCAGGCTGGCATTTGGCCCAACGTAAACGCCCTTGCCGAGAATAACATCGCCGATCAAT\n+ACCGCTGTCGGATGGACAAAACTCTCTTCTGGCACAACCGGAGTCAGACCGTCTATCTGATAAATTGGCA\n+TAACGCCTCCTGTTCAATATTCAAGCCGCCAAAACGTTGAAAATACAGGCTTCCCGGCGCAGGCAGTTCA\n+CCGACCGAGGTTTCACCTTTTTCACTAACGAACGCTAAAGCAGCAGGCGCTACGCGCTGATAAATGTTGA\n+TACACAGCTGACGCGCCGTATGCCCTGCCCAGTGTGCCGGAAGCAACTCCTCCGGCAACAATGGGTCTTT\n+AAGGACGACACGGCGATAAAAATGGATCAGTAAAAGCTGAATATGAAATGCCCGCTCCGGGGTTAACTCG\n+TCTGCCGCCTCTTTTAAAAGCGGCACCAGCGGGCGGAATGACTGAATAAAGGTTTCGTACATGGCATTTT\n+GTTCAGTTAAATGCCAGCACTCTTCTACTCTGGCACGCAGTGCTGCGCGAGAAAG\n+>contig-201_956\n+GTTCGGGATGTTTCACTTCATCAATTAGAGTTAGTGCATCATTAAGACCAAGGTAATTCTGTGTCGAATA\n+GCGATAGGCCGCGATATTCAGTGAAGTACTTGTTTCTTCGAATAACTTGTTCCAGGAAACACGATAACTT\n+TGCCCCTGGTATGTTTTATCATCCGGGATACGAACATTGGAATGAGTCACATCGAAAGAAAATGCACCAA\n+CTGAAGTATTCAGACCAAGACCTAACAAACCAGCGGTATAGTTATTATCGGTTATCTGAATACCGGTATA\n+ACCCGTCAGATAGTTATTCAGGCCGTAGTAGTAGCTTGCTTGAAATAAATTAGGCTCATCCTGAATATCA\n+TCTTTTAAGACCTGACCGCCGCTAATATCCCAACGTCCAACGCCAGGGCGTAACATTTGAACAACGGATG\n+AGAAAGGTTGCGAGAATGTCCGCTTTGAGCCATCGGATTCTTCGATGGTAACAATAAGATCGCTGCCGTA\n+CCCTGACGGACTCAGATCATCAATGACGAAAGCGCCTGGCGGCACCGTCGTTTCATAAATCTTATAGCCA\n+CCTTGCGTAATAGTGACTTTGGCGTTGGTATTGGCAACGCCATGAATGATAGGCGCAAAGCTGGCTAAAG\n+TCGGAGGCAACATGCGGCTGTCACTGTATAAACGAATGCCTCGGATACTGACGGAATCAAAGGTTTCGCC\n+CGTCGTATAAGACTCACCAAGAATGAGTTGAGAACGCAGCGAGGCGATATCACGCTGAACATACCGATTC\n+TTAAAATCATAATTACTGCCAGAATCGGTCATCCAGTTGTAGTTGCCCGAGGCACGCAGTCGCCATGCAC\n+CTAAATTCATCCCACCGTTAAATGCAGCATAAATGCTTTCATTTTTTCGACCAGGGGTTTCACTATGATA\n+TCCGTTGAGGTTGTATGACAACATGGCCGCATTAATGCCGTTTTCCCATAACGATGGATCAACATAGTTT\n+TGGTAATTTTTCATTACCCAGGCTTGAGGAACGTCTATATCCAGACGTTGATCGTTAACGTCATAACGAA\n+CAGAAGCCTGAGGGATAATTTCCGTCAAATTGAGGCAATTGCCGAGCGTTTCATCCCTGGCAAGCAGAAC\n+GGCTTTTTCGTTATTTATATCGGGAGAATTAATATGAAACTGCAATAAATTCTTTAATGTGATACAAGCC\n+TGGGCGTTCTTTTTTCCTTCAATTGCGACAAATGTAATACTTTGGTTAAT\n+>contig-201_962\n+CCGGCTCGCGTTTGCCAAGATCCAACTCATTGAAGGCATAACCATGACGCTCAAGCAGTTGTGCCTCTTT\n+GATGGTGAAATCACCATGACGAGAGAATCCACGTGGATAATGTTTATTGTCGAAATATCGATTAGTCGTC\n+GTAAAGCTTTCCGCCATCCTGCACGCTCCTAATTCTTTGACCGAGCTAGTTATGGCGCGGAGTATTAGTT\n+ACGCTTGACAGAGTGTAAAACAAAACATTTAAATCATAACGACAAATAATTTTGCGGAGAGCACTGTGGA\n+TACGGAATTGTTAAAAACTTTCCTGGAAGTTAGCCGAACGCGTCACTTTGGTCGAGCGGCTGAATCGCTC\n+TATCTGACCCAGTCAGCAGTGAGCTTTCGAATCAGACAACTGGAAAATCAACTGGGTGTGAACCTTTTCA\n+CCCGCCACAGAAACAATATCCGTTTAACCGCTGCCGGTGAAAAACTACTGCCTTATGCAGAAACGCTCAT\n+GAGCACCTGGCAGGCCGCCCGTAAGGAGGTGGCGCATACCTCACGACATAACGAGTTTTCTATCGGTGCC\n+AGCGCCTCGTTGTGGGAATGTATGCTTAATCAGTGGCTGGGACGCTTGTATCAAAATCAGGATGCCCATA\n+CAGGCTTACAGTTCGAAGCGCGAATTGCCCAACGGCAGTCTCTGGTAAAACAGCTGCATGAACGCCAGCT\n+TGATCTTCTTATTACCACTGAAGCGCCCAAAATGGACGAATTTAGTAGTCAGTTGCTGGGATATTTCACT\n+TTAGCGCTTTATACCAGTGCCCCTTCAAAACTAAAGGGAGATCTTAATTATCTGCGACTTGAGTGGGGGC\n+CAGATTTTCAACAGCATGAGGCAGGTTTGATCGGTGCTGACGAAGTGCCCATTCTGACAACCAGTTCTGC\n+TGAACTGGCACAGCAACAGATTGCGATGCTTAATGGTTGCACCTGGCTACCCGTCAGCTGGGCGCGTAAA\n+AAAGGCGGCCTGCATACCGTTGTCGATAGCACAACACTTTCACGGCCGCTTTATGCCATATGGCTGCAAA\n+ATAGCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGA\n+ATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAG\n+CTTTCGCTAAGGATGATTTCTGGCAGG\n' |
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| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.001.marker.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.001.marker.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,8 @@ +>out.001.TIGR00092 +MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKPQRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVNPADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRALDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAVEADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGATAPQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFLFNV +>out.001.TIGR00418 +MPVITLPDGSQRHYDHAVSPMDVALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSIITAKDEEGLEIIRHSCAHLLGHAIKQLWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDKPGLYFHEEYVDMCRGPHVPNMRFCHHFKLMKTAGAYWRGDSNNKMLQRIYGTAWADKKALNAYLQRLEEAAKRDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGTVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLKQLEE +>out.001.TIGR00810 +MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLATLFFIISLVLGNINSNKTNKGSEWENLSAPAKTEQTQPAAPAKPTSDIPN +>out.001.TIGR01024 +MSNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERLN |
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| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.002.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.002.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,2186 @@\n+>contig-201_29\n+GAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTAT\n+GATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGT\n+TGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCACTATACTTG\n+GTCAACGCAACGGTATAAATAAACTCATCAAATGGTAGTGTTTCGATTTCAAGTATTGGTATTGTCAATA\n+AATCTTGCGGTAACCCGGTAAATATAATCCGATAATTTTCAAAGTGTGTTTTCACTTCTTGATATATAAC\n+TTTTATTTGCTCAAACGTAAGACGGCATATTTTTTTTGCACCTAATGGATTAATAATGACTATTCTTGTA\n+TCTCCAATAAATTCTTTTATTTTATCTTCAACATCTACTGGTAAATGCAAGTCGTAGTTGGTGGAAAATT\n+TACCCTCACCATAAATATGCTTCAGTATTTCTATTGCTCGTGTACTCATATGTTCTTTTAAACATTCATC\n+GTGGGGATGGTAAAATGAATAGTAACGCTTATACCAATGATCAAAACCCAGAATGTAAGAATCTTTTAAA\n+CTTGATAATATTAAGCTATGCTTAAATGAGGGCATAGTTTCAAAGGGGTCTAATACAATATCGAACTGTA\n+AATCCCGCAGATGCTTACATAGAGTAAGCATTTCAAGAAAACCGGTTGATTCTTTAATACAGAACTCAAA\n+TATATTTTTATTATTAGAGAGAAATTCCCCACCCTTTCTATTTGTGAGAAGAGTTATTTTAACCCCTTTA\n+CTATAAAGTTCACGATAAATCGAACTTAATACAATTAGATCACCAAGTTTATTATTATCATGAATAATAA\n+GGCATGATTTAACTTGTGCTGGATCTGTAATTTGATTATTTATTTTATTACGAAATAAAAAAGAAAGGAA\n+ATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCA\n+TATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCATTTTTTTTCT\n+TGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATA\n+GCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATCATGCATAAAACGAAAAAATGGCA\n+ATATTTTGAATAAATCCCTACTTAATTCCGAGGGCATGGGATTTTTATTCTCATCATAGAAACGAGAACA\n+GCTACCCGTTAAATCAAGACCAGAACAAATAATCCGCGCATACTTAAGTGAATATGCGATTTGAATTGCA\n+GCAAAGGCAATAGTATGGCATGAGCAATAACCAAGACTAATGTCCTTGCAAAATCCAACCAGACGACCTT\n+TTTTAGACAACGGTACAGAGATCAGCAGTTCTTTGTGAATCTGTCTCAAAATATTAAATTTAATCTTCTT\n+TATAAAACCACCTTTTTCCCGACGGTAAAAGGACCGTAATACGAGGCAGTTCTGGAGGATATAAAGTTTA\n+TCTTCTTTGGAAGCGTGTTCATAAACGTCAACGTTTACTATGGTATAACGACTTCTCTGGCTAAATTTAT\n+AAAAATCATCACGACGCTGATGTAAAAATCGGACATCTGTAAGTACATATATAAAAGGAACGATATTATT\n+ACTTAACAGATATTGCGCAGAACCATTGACAGCAATAATATCCTTTGTTCGTAATACTGACAAAGGTGTT\n+TTTTGCGATGTAGGGCCCGAAAGAAAAATAATAACATCATCAGATATTTTATTTTCAATCAGGTTTTCAA\n+CATCTTTTTTGTCAATGTATCTAATATTCTTCATGATAAACCTGTGAAATAAATAACTCCGCTTAAAACT\n+GTCCTGGTGAAGACATGTAATTGTGGGATTTTTTTTAGCGCGCTGGTTTCCCTTTCAAACGCCGCATAAA\n+ATTGCGCATTTTTTTACGATATACTAAAAGATAATAGCCTAGATCTCTAATCTCATTTTTAATACCGTAA\n+TGACGCTCTAAGTCAATACGATCTTTCGCTTTACGCTGCGCTGAAGCACGCTTTCCGGAGAGATCGATAA\n+TTCGAACCTCACCATTTTTTATAATGAAGTTACCACGATGGGGGTCGCCAGAAACCATGCCATGTTGATG\n+TAAGGCATTAATTGATTGCTGAATTTTATTTTTTAGCGCATCATCAATATCGGGCATATCACACAACTCT\n+ATGCCATCAATATACTCGATGATCATGATATAAGTATGGACAAAACGTAAGGTTTTCCGTTCAGCCAATA\n+AATAAAAGTCATTGAGTGTATTTAACCCTTCATTTCGTACTTTTTGGGTTTGCTCAAAAAGGCGTTCGTA\n+ATAATCACCTTTTAACAGAGACTTAAAGAAACGTTCGTTACGCTTAACTTTCGGAGAAAAAACCTTAAGA\n+ATCAATTTACCGTAATCGGTATCAATAAGCATAACTTTTGTATCATCAATAGAACGAAAAACCTTGATGA\n+TATTTATATTATAAGACAAGAAGTCATTTAATACATTGAGGTACTTTGAATTGTTTTCATCGGTAAAAAC\n+AACCAAGTCTTTGATCTTGCTCTTCTGAATCATAATAAACCAGTTAAATGTTATTTACGGTAATATTTTC\n+GGCAAAGATAACAGACTCCTGCTATAATTCCTGAGATATAATGATGTTGCACTAAAAGATGTTTATATCT\n+TTTTTTAAATTCAATAATTGATTTCGCATCTCGTGGAGAGTCATCTTTCCAGGGGGAATTTTCTAAAGCT\n+ATTTTATAGTATTTTACCGATGGATAAATTGCCCATTTGTGCCACGGTTTAGTTGCACCTGTATAATGAA\n+TAAGAAGAGTACTTTCTGTAATCAGCTTTTTATAGTTTTGATGTGTTTTGTCTTTTAATTCACTTTTAAT\n+TGTATAAATTGTATTGTACTCACGAGGCAAAAATAATGTCATCCCTTTCAGTAAGACATTCATAACATCC\n+TGATCAGGGTATTTATAAACATTATCTTTACTCATAAGAATAGACAACGCTTTTTCTGTTAGTTTTGCGT\n+CAGCCCATTTTTTTAAGTCTAAATAAACGACACCGGAATTAAAGTACTGCCCAAGTAATTCAGGATCAGA\n+CAACCTGGATACCGCCTTTTCTTGCATTGGCTCAACATCTTTAACAACAGCAGCAACCGCTCCATTTAAA\n+CCCAGATGTAATAGTTGGCTAATATCGCCTTTACAAACAACATCTGCATCAAGATAAAGCAAACGATCAA\n+GCGTTAAACCCAATAATTGAAATGCAAATAAACGGAAGTACATTGCTCTTGACCAGACCTGTGTACAAGG\n+CAAGCACTGGAGCTTATCAGTGTTAATTCTATATAACGTGATTCTTAATTGGTTTTGCTCTGCAAGCTTT\n+GCAATTTTTTGAAAAAAACCATCATTATAAACATCAGCAATAATATAAAAATCAAGATTAATATGTCGAT\n+TATTTAGGACAATTGATGTGATGGAAACACCTACACCATCAAGATAATTAGCATCGACACCATAGGCAAC\n+ATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATG\n+GCAGGAAATGAGTCCACAATGCTACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCT\n+TTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGC\n+GCT'..b'TGCATGATTATTTATGATCTCAATTCTGCATTTTGTCAGTAAAATGC\n+>contig-201_940\n+AGCGTTACGTGATCTTTCCCTGCAAATGGAACGCAAAATAAACACCTATTCCATGAGTTATATAATTTTT\n+CACAATGATTAATTTGTTTTCTCAGGAAGAGATTTTATTTCTCTTCACTACGAATTAGTTCATGCTGTAT\n+CTTTATTAAACATTCGTAAGACTCATTTTTGTTCGGGAGATGTGCTGTCATTCGAGCATAAGTTGGTTTC\n+TCATCTTTAAAATATTTTACCATGATTGAATTATCAAGGACTGCCAACAACTGAACTGGATCACTGCTCT\n+TTTTTTGATAGATACCCGCTCTTATATAACTTCTAAACCGATCGCCGAGAAACGCCGTTTTTTCTGCTGT\n+ATTTATCAACTCCTGCAACGTTCCTTTGATGGCATGATTTTCATTAAGGCGTAGTGACCCGACGCGAATT\n+AAGAGTCTCGCCCCGCTTGGTGTGAATTTATTATTTTTACATGTACCCAGTTCTGTTTGCCAATAATACT\n+CACCGATGTCCTCATTCTGATACCATCTCCACATGGCTTTATTATTTAAGACAGGAAACGCGGAAAAAAT\n+AGTACCCTTAGCGAAAATAGTAAAACAATCATGATCTTTAGCTTGTATTTCGCAATCAGCTATAACACCA\n+AAACTAACAAATATCATCAGCAAAAAGAACAAAACTCTTTTCATTTTCTTATTCCTCTCGATGTTCTCTG\n+TTTCATCTTAGCTAAAATTTCACCCAAATCATCTATCCCTGCTGTTGCTGGCCCATCGGGTTTATTAATG\n+TCTGGGAATAAATAGGGTTCTGCACAAGTATATCCTGGTGGTAATTGAGTTGTTGGCCAATTTGTCTGTG\n+GCAGGTAATCACTTGCTGTCTTTGTATCCATCCCTGGATACTGGGAATCATCCTGTGGCGTACAAGTCAG\n+ATTTGGTTTTACCCACTTCCTGCAATACAGTGTGTAGTCGTAAGGGCTTAATGCTCTGAAGAATGTTTTG\n+AAAACATTAGGCGCACTACTGGCCTGGTCAATAGGATATGGCAGTCTTAATTGTTTCGCTATGTCCGGCA\n+ATTTACTTGGATCGGGCGTAGGCGGTTTGTTGGGTCTCGCTCCATATCCGCCATTATTTAAGTGTCCATA\n+TTTTGATGCCAGTCCCATTGAATCTATATACTGAACCGGATTCAGCGGATACTGATAAAAATTCCATCCC\n+CCCTTCAGCCCAATCGGATCCTGAGTGATATACCTCCCCTGCAGCGGGTCATAATAGCGGTGGCGGTTGT\n+AATACAGGCCGGACTCCTCATCATACTGCTG\n+>contig-201_950\n+GGATCTTAGATTCTGTGCTTTTAAGCAGAGATTACAGGCTGGTTACGTTACCAGCTGCCGGGCCTTTAGC\n+GCCGCTTTCGATGGTGAAGGACACTTTCTGACCTTCGTCCAGAGATTTGTAACCATCGTTCTGGATAGCA\n+GAGAAGTGTACGAACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGA\n+ACCATTTTACGATACCAGTCATTTTACCGGACATAGTGTATTACCTTTAATAATTAAGTGTGCCTTTCGG\n+CGATATGGCGTGCTTTACAGATTTTGAAGCGTTAAAGGAATGTGCACTACGAGGGGTATCAACGATAACT\n+CTTGAAGGGACTTGCCTTACTACACTGCTTTAATGGTCTGTACGTCAAACCGTTGATGTGCATTAAGCCA\n+CGCATTGGCGGGTGATGCAACAATTATTTTTCATATTTATGATTAATCGGTTGGAAAACGGTCCTGTCAT\n+CAGGACCGTAAACAGCAATAAAGTGGATAAAAGTCTATTCCATCAACTGCTTACTTAATGCCGGGTTGGC\n+TTGAATCAAACGCATCAATTTTAGTTCGGCACTTGAAGGCTTCACGCGTCTGGATTCCCATTCCTTTACC\n+ATGGCGACTGATACGCCCAAAACCCGGGCGAAATCATCGATTTTTAATCCTGTCCCTTTTCGTAACTGCT\n+CAATTTCGGTACAGGACGTTGTTCTGTGCGTCAGGGTAATTTTCTGCGTTTCATCTTTAAAAACAATCTG\n+TTCCAGGCTGCTCAACAGCTCATGCATTGGATCTTTATATTCCATTGAAAACTCCTCAAATCACACTGCG\n+GGATCGTGAATTGCATCGAAGCTCATTAAGAATAGTCGGGAAAAGCAGACACAGCGGGGTGAAGTCAGGG\n+CATGCTCTGGCTATGATTCGATTCAGCCTGTCATTTAGCGTGACTTATAGCCACCTAACGATCTGATAAA\n+TGCCGATATATCTCTTACCACTCCTGTTTTGTAAAGATTTCGAAAATCTAACCTTCTGCGAAGGCGTAAA\n+TCTCTGGCTACAAAAAAGGCAACGGCACTATCATTTTTTAACAATGAAACAACAAATTAACCTTGTTTCA\n+TTTTCTCCATGATTTTACCAGGAAGATTACGTAGAAAGGGTATCCTGCAAGCCTGTCCTGGACTATCCTT\n+GTCACGTCAGACACGCGTGTGTCGTTGTGCGCTTTTTTTGGGTGAAAGGAGTAAGAAAATGGCGACAGG\n+>contig-201_955\n+TGGCCCCCTTTCCAGGTGACCGTGTAATCTGAACTACCCTTTGGTATCTTCAGTGCCTGCCTGCAGGCTG\n+AGGTGTTGCCCTTACAAATGCAACAACGACATGGATTACAACACCCTCATAAACAAAGGGCAATCACCTG\n+ATCTAAGCTCTTACCTATGACAGTGATAGGTTATGCCTTTTACTCGACTTTTGCACTGACTGAAAAGGAC\n+AAATTAATGTTAAAAAAGATACTTTTACTGGCTCTGCTTCCTGCAATCGCCTTCGCAGAGGAACTTCCTG\n+CTCCAGTAAAAGCGATTGAAAAACAGGGCATTACAATCATCAAAACATTCGATGCCCCCGGAGGAATGAA\n+AGGTTATCTCGGAAAGTATCAGGATATGGGCGTCACCATCTACCTGACTCCAGATGGTAAGCACGCTATC\n+TCTGGTTACATGTACAACGAGAAAGGTGAAAACCTGAGTAACACACTTATCGAAAAAGAAATTTACGCAC\n+CAGCCGGACGCGAAATGTGGCAACGGATGGAACAATCCCACTGGCTCCTCGACGGTAAAAAAGATGCGCC\n+GGTCATTGTCTACGTCTTCGCCGATCCGTTCTGCCCATATTGTAAACAGTTCTGGCAGCAGGCGCGCCCG\n+TGGGTAGATTCTGGCAAAGTGCAATTAAGAACATTGTTGGTTGGGGTTATCAAGCCAGAAAGCCCGGCGA\n+CAGCAGCGGCAATTCTTGCCTCCAAAGATCCCGCAAAAACCTGGCAACAATATGAAGCCTCTGGTGGCAA\n+GCTTAAGCTAAACGTGCCTGCAAACGTAAGTACAGAGCAAATGAAAGTGTTAAGTGACAATGAGAAACTG\n+ATGGACGATCTGGGGGCAAATGTCACGCCGGCTATCTATTACATGAGTAAGGAAAATACGCTACAACAGG\n+CCGTGGGGTTGCCCGATCAGAAAACGCTTAATATCATTATGGGGAATAAATAAAAGGTAATTCATGGATG\n+GTTGAACTATATCCCTGCTTTTCAACCATCCTAAAAAAGCATGAATTGCTCGCTCTGCCCTAAGTGGCTG\n+TGCTATTTTAGAAAAACTTAATCCTGAGTTAAGCAAAAAAACATAATCAATAAAAATATATACGCAAAAA\n+ACATTGATTAAGTGAATATATCATGGAAGAAAAATATAACCGGAGTAGTGTATGGCCAATCTCTACGACT\n+TGAAAAAGTTCGACTTAAATCTTCTTGTCATATTTGAGTGTATTTACCAG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.abund1 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.abund1 Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,236 @@ +contig-201_100 10.0483036227717 +contig-201_103 10.4792113995706 +contig-201_109 10.5951955529085 +contig-201_114 10.1189427312775 +contig-201_119 11.1817996742671 +contig-201_122 9.84835390946502 +contig-201_123 10.0651769087523 +contig-201_125 10.7371808179365 +contig-201_126 10.1927310488058 +contig-201_132 9.99578770008425 +contig-201_140 11.8097592433362 +contig-201_143 9.2919455841071 +contig-201_151 10.6901439162669 +contig-201_156 16.047619047619 +contig-201_162 10.0604567845947 +contig-201_163 10.6779775280899 +contig-201_165 10.2735870299482 +contig-201_170 10.6238677536232 +contig-201_171 9.66833257610177 +contig-201_177 9.95110192837465 +contig-201_18 9.66596565019278 +contig-201_188 10.5986903648269 +contig-201_19 9.77999062792877 +contig-201_193 9.41183431952663 +contig-201_2 11.2932163046712 +contig-201_205 10.8216295571324 +contig-201_219 10.9125751503006 +contig-201_221 9.079456877043 +contig-201_223 9.71570121951219 +contig-201_225 10.4176635276152 +contig-201_229 10.7303457106274 +contig-201_230 9.82517303255575 +contig-201_234 10.2354155911203 +contig-201_239 10.5213430504945 +contig-201_242 10.924464192368 +contig-201_245 10.0052673163023 +contig-201_249 10.086876155268 +contig-201_250 9.36224219989424 +contig-201_252 10.6196660482375 +contig-201_253 28.5196286472149 +contig-201_258 9.87939833467634 +contig-201_260 10.638418079096 +contig-201_262 9.12540453074434 +contig-201_266 9.86262241566921 +contig-201_269 10.088517402028 +contig-201_27 10.21198336366 +contig-201_272 8.72764786795048 +contig-201_282 25.3983739837398 +contig-201_285 10.9570621468927 +contig-201_286 10.087620124364 +contig-201_29 10.4003450106157 +contig-201_292 10.0156784492588 +contig-201_295 9.90841654778887 +contig-201_30 15.7308001070377 +contig-201_303 10.1399766218586 +contig-201_305 10.6149341142021 +contig-201_311 9.75299043062201 +contig-201_313 9.08580858085809 +contig-201_315 16.765681544029 +contig-201_321 10.4130829800121 +contig-201_330 8.33675373134328 +contig-201_332 9.38154613466334 +contig-201_333 10.9499687304565 +contig-201_339 9.52913385826772 +contig-201_343 9.55541441727533 +contig-201_351 9.25497113534317 +contig-201_352 12.2714101738571 +contig-201_357 10.5730081300813 +contig-201_359 9.8930081300813 +contig-201_366 10.5828665568369 +contig-201_368 10.1939755047997 +contig-201_371 12.8882215548882 +contig-201_376 10.102157788267 +contig-201_377 9.71317567567568 +contig-201_382 9.04791238877481 +contig-201_39 10.4600701754386 +contig-201_390 9.93353994490358 +contig-201_394 10.1849030470914 +contig-201_398 10.178596247394 +contig-201_401 9.71203638908328 +contig-201_402 9.81140657802659 +contig-201_404 10.6093366093366 +contig-201_406 10.6410978184377 +contig-201_408 10.5934530095037 +contig-201_411 9.83786647827623 +contig-201_412 9.8696113074205 +contig-201_417 10.2807829181495 +contig-201_423 10.6444444444444 +contig-201_429 10.2130371449381 +contig-201_431 10.3230316409124 +contig-201_434 9.97744082840237 +contig-201_44 16.7263474770642 +contig-201_447 9.71740768651093 +contig-201_448 9.72209653092006 +contig-201_449 9.26442851754055 +contig-201_459 8.52840259245139 +contig-201_464 11.4007766990291 +contig-201_465 8.2289156626506 +contig-201_471 11.0184893784422 +contig-201_475 9.54829770387965 +contig-201_477 10.3786138613861 +contig-201_48 10.7450922509225 +contig-201_480 25.2854864433812 +contig-201_483 9.03528468323977 +contig-201_484 10.0991569650743 +contig-201_495 9.98851988519885 +contig-201_504 9.30788381742739 +contig-201_507 10.3704781704782 +contig-201_508 11.3304203079484 +contig-201_515 10.3013008812421 +contig-201_516 10.1732548359966 +contig-201_519 10.1124210526316 +contig-201_528 9.29434447300771 +contig-201_534 8.86960313999128 +contig-201_539 9.87609841827768 +contig-201_540 9.43227792436236 +contig-201_548 11.7796081923419 +contig-201_55 10.8483426668685 +contig-201_557 9.3613369467028 +contig-201_558 8.55515370705244 +contig-201_559 10.5521305530372 +contig-201_560 9.5265306122449 +contig-201_561 9.86000911992704 +contig-201_563 9.20054819552307 +contig-201_566 11.7594123048669 +contig-201_567 10.4967860422406 +contig-201_569 9.78903730999539 +contig-201_571 10.623730378578 +contig-201_573 10.4485634847081 +contig-201_575 8.82311977715877 +contig-201_577 11.9446788560713 +contig-201_582 10.9886739027843 +contig-201_584 9.35541883577851 +contig-201_585 10.3745265151515 +contig-201_589 10.0463671128107 +contig-201_591 10.6379722620756 +contig-201_596 9.9985549132948 +contig-201_60 10.2119669000637 +contig-201_608 9.88295288975231 +contig-201_609 9.4914924647545 +contig-201_615 10.1020009760859 +contig-201_617 8.84799608993157 +contig-201_618 11.3785504407444 +contig-201_620 9.93851451057551 +contig-201_621 10.2567634038367 +contig-201_63 10.9189624617367 +contig-201_631 10.2543815723585 +contig-201_635 8.51132360342224 +contig-201_636 11.7353830645161 +contig-201_64 9.8240246074146 +contig-201_649 9.53666146645866 +contig-201_653 9.32603025560772 +contig-201_654 9.60574412532637 +contig-201_657 10.648167539267 +contig-201_658 10.2545835515977 +contig-201_659 9.54645669291339 +contig-201_66 10.8223989396952 +contig-201_663 9.97629083245522 +contig-201_666 10.2051687763713 +contig-201_669 8.97142857142857 +contig-201_67 9.84032069483882 +contig-201_670 9.08730158730159 +contig-201_674 8.93833067517278 +contig-201_680 10.6991434689507 +contig-201_687 10.972027972028 +contig-201_690 9.27008086253369 +contig-201_691 9.97510822510823 +contig-201_697 10.0720917531404 +contig-201_702 10.0455293472298 +contig-201_706 8.91964777105118 +contig-201_710 9.75 +contig-201_711 15.5618101545254 +contig-201_716 9.8811771238201 +contig-201_719 10.2357541899441 +contig-201_72 10.4967454607742 +contig-201_725 9.4 +contig-201_727 9.79469825155104 +contig-201_736 9.44348823866896 +contig-201_738 9.84858952216465 +contig-201_74 9.94477894374677 +contig-201_745 9.10208816705337 +contig-201_746 9.72083575159605 +contig-201_747 9.67483946293053 +contig-201_752 9.58264462809917 +contig-201_753 10.1712935617247 +contig-201_765 8.93169562612343 +contig-201_77 10.2923103932584 +contig-201_773 8.85060240963855 +contig-201_774 11.6118143459916 +contig-201_787 9.33599019006744 +contig-201_789 9.64211172498465 +contig-201_790 9.90411800860479 +contig-201_798 9.92861576660459 +contig-201_804 10.6950532247965 +contig-201_805 11.7849529780564 +contig-201_807 11.802135678392 +contig-201_817 9.96246819338422 +contig-201_818 10.8475765306122 +contig-201_826 9.08600770218228 +contig-201_827 12.1618497109827 +contig-201_829 9.87588424437299 +contig-201_832 8.06511927788524 +contig-201_838 9.21558441558442 +contig-201_840 10.4745762711864 +contig-201_844 9.71363339856491 +contig-201_845 10.2992796332678 +contig-201_846 9.80353634577603 +contig-201_847 9.34407894736842 +contig-201_853 9.33928571428571 +contig-201_86 9.74968530839777 +contig-201_863 9.66554734721289 +contig-201_864 8.81384408602151 +contig-201_872 9.4 +contig-201_886 10.356993736952 +contig-201_893 7.87114845938375 +contig-201_898 8.86984352773827 +contig-201_90 9.8601347659807 +contig-201_904 9.52525252525253 +contig-201_905 8.37237888647867 +contig-201_908 13.8620188816267 +contig-201_91 9.92617572001458 +contig-201_922 11.311755952381 +contig-201_926 9.23916292974589 +contig-201_930 8.78931527464259 +contig-201_933 9.6968085106383 +contig-201_934 10.820395738204 +contig-201_935 11.3783371472159 +contig-201_940 10.9442292796282 +contig-201_944 8.78811571540266 +contig-201_947 9.56141732283464 +contig-201_950 8.69261318506751 +contig-201_954 9.07791164658635 +contig-201_955 10.15 +contig-201_956 10.0177419354839 +contig-201_96 10.1921860465116 +contig-201_962 8.56532456861134 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.log Thu Jun 28 08:49:29 2018 -0400 |
| [ |
| @@ -0,0 +1,61 @@ +MaxBin 2.2.4 +Input contig: Bin_Sample3_contigs.fasta +out header: out +Located reads file [interleavedPE_unmapped_Sample3_total.fasta] +Running Bowtie2 on reads file [interleavedPE_unmapped_Sample3_total.fasta]...this may take a while... +Searching against 107 marker genes to find starting seed contigs for [Bin_Sample3_contigs.fasta]... +Try harder to dig out marker genes from contigs. +Done data collection. Running MaxBin... +Command: /home/berntm/miniconda3/envs/__maxbin2@2.2.4/opt/MaxBin-2.2.4/src/MaxBin -fasta out.contig.tmp -abund out.contig.tmp.reads.abund1 -seed out.seed -out out -min_contig_length 1000 +Minimum contig length set to 1000. +Reading seed list... +Looking for seeds in sequences. + contig-201_2 [11.293216] + contig-201_100 [10.048304] +Get 2 seeds. + +Start EM process. +Iteration 1 +Iteration 2 +Iteration 3 +Iteration 4 +Iteration 5 +Iteration 6 +Iteration 7 +Iteration 8 +Iteration 9 +Iteration 10 +Iteration 11 +Iteration 12 +Iteration 13 +Iteration 14 + +EM finishes successfully. + +Classifying sequences based on the EM result. +Minimum probability for binning: 0.50 +Ignoring 0 bins without any sequences. +Number of unclassified sequences: 0 (0.00%) +Elapsed time: 0 days 00:00:00 + +Deleting intermediate files. + + +========== Job finished ========== +Yielded 2 bins for contig (scaffold) file Bin_Sample3_contigs.fasta + +Here are the output files for this run. +Please refer to the README file for further details. + +Summary file: out.summary +Marker counts: out.marker +Marker genes for each bin: out.marker_of_each_gene.tar.gz +Bin files: out.001.fasta - out.002.fasta +Unbinned sequences: out.noclass + +Store abundance information of reads file [interleavedPE_unmapped_Sample3_total.fasta] in [out.abund1]. + + +========== Elapsed Time ========== +0 hours 0 minutes and 14 seconds. + |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.marker --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.marker Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ + Total marker Unique marker PGK Ribosomal_L23 Ribosomal_L5 Ribosomal_L3 Ribosomal_L6 Ribosomal_S17 Ribosomal_S9 Ribosomal_S8 Ribosomal_S11 Ribosomal_S13 Ribosomal_L10 Ribosomal_L4 tRNA-synt_1d GrpE Methyltransf_5 TIGR00001 TIGR00002 TIGR00009 TIGR00012 TIGR00019 TIGR00029 TIGR00043 TIGR00059 TIGR00060 TIGR00061 TIGR00062 TIGR00064 TIGR00082 TIGR00086 TIGR00092 TIGR00115 TIGR00116 TIGR00152 TIGR00158 TIGR00165 TIGR00166 TIGR00168 TIGR00234 TIGR00337 TIGR00344 TIGR00362 TIGR00389 TIGR00392 TIGR00396 TIGR00409 TIGR00414 TIGR00418 TIGR00420 TIGR00422 TIGR00435 TIGR00436 TIGR00442 TIGR00459 TIGR00460 TIGR00468 TIGR00472 TIGR00487 TIGR00496 TIGR00575 TIGR00631 TIGR00663 TIGR00755 TIGR00810 TIGR00855 TIGR00922 TIGR00952 TIGR00959 TIGR00963 TIGR00964 TIGR00967 TIGR00981 TIGR01009 TIGR01011 TIGR01017 TIGR01021 TIGR01024 TIGR01029 TIGR01030 TIGR01031 TIGR01032 TIGR01044 TIGR01049 TIGR01050 TIGR01059 TIGR01063 TIGR01066 TIGR01067 TIGR01071 TIGR01079 TIGR01164 TIGR01169 TIGR01171 TIGR01391 TIGR01393 TIGR01632 TIGR01953 TIGR02012 TIGR02013 TIGR02027 TIGR02191 TIGR02350 TIGR02387 TIGR02397 TIGR02432 TIGR02729 TIGR03263 TIGR03594 +out.001.fasta 4 4 1 1 1 1 +out.002.fasta 0 0 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.marker_of_each_bin.tar.gz |
| b |
| Binary file test-data/1/out.marker_of_each_bin.tar.gz has changed |
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| diff -r 000000000000 -r 35aa0df55a62 test-data/1/out.summary --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/1/out.summary Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ +Bin name Abundance Completeness Genome size GC content +out.001.fasta 10.63 3.7% 556944 47.1 +out.002.fasta 10.28 0.0% 147242 40.9 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.001.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.001.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,7730 @@\n+>contig-201_18\n+ACGACGGCAATTTTTACGCAAGCTTTACCGCTACAAAAGCCGGGGTTTATCAATTGACGGCAACCCTCGA\n+AAATGGCGATTCGATGCAACAAACAGTGACCTATGTGCCGAACGTCGCGAATGCTGAAATCACGCTGGCA\n+GCCTCGAAGGATCCGGTGATTGCCGACAATAACGATCTCACGACACTAACAGCAACAGTCGCTGATACAG\n+AGGGCAATGCGATAGCCAACACTGAGGTAACATTTACTCTGCCGGAAGATGTGAAGGCGAACTTCACGCT\n+GAGCGATGGCGGTAAAGTGATTACTGATGCTGAAGGCAAAGCGAAAGTCACGCTGAAAGGTACAAAAGCA\n+GGCGCTCATACTGTTACAGCATCGATGACTGGCGGTAAGAGTGAGCAGTTGGTGGTGAACTTTATTGCGG\n+ATACGCTCACTGCGCAGGTTAATCTTAACGTTACCGAGGACAATTTTATCGCTAATAACGTCGGGATGAC\n+CAGGCTGCAGGCAACAGTGACTGATGGAAACGGCAACCCGTTAGCCAATGAGGCGGTGACATTCACGCTA\n+CCGGCAGATGTGAGCGCAAGCTTTACTCTCGGACAAGGCGGTTCCGCCATTACTGATATCAACGGCAAGG\n+CTGAAGTTACACTGAGCGGTACAAAATCCGGCACCTACCCCGTGACAGTTAGCGTGAACAATTATGGTGT\n+CAGTGATACGAAACAGGTGACTTTGATTGCCGATGCTGGTACCGCAAAACTAGCCTCCTTAACCTCTGTA\n+TACTCATTCGTCGTCAGCACGACCGAGGGCGCAACCATGACGGCAAGCGTCACTGACGCTAACGGCAACC\n+CGGTAGAAGGCATAAAAGTTAATTTCCGCGGAACCTCCGTCACGCTAAGCAGCACCAGCGTTGAAACGGA\n+TGATCGGGGTTTCGCTGAAATTCTTGTGACAAGCACCGAGGTCGGACTGAAAACAGTTTCAGCCTCTCTG\n+GCAGATAAACCTACTGAAGTCATCTCGCGATTACTGAATGCCAGTGCAGATGTTAATTCTGCGACGATTA\n+CCAGTCTGGAGATACCGGAAGGTCAGGTAATGGTCGCACAAGACGTAGCAGTTAAAGCTCACGTTAACGA\n+CCAGTTTGGCAACCCGGTTGCGCATCAACCCGTGACATTCAGTGCAGAGCCATCCTCGCAAATGATCATC\n+AGCCAGAATACGGTCTCTACTAATACGCAGGGTGTAGCCGAGGTCACCATGACGCCCGAAAGAAACGGTT\n+CGTATATGGTGAAAGCATCCCTGCCGAATGGAGCCTCACTTGAGAAACAACTGGAGGCTATTGATGAAAA\n+ACTGACACTCACGGCGTCCAGTCCGCTTATCGGTGTCTATGCCCCTACAGGCGCTACTCTGACGGCAACG\n+CTAACCTCTGCAAATGGCACTCCAGTGGAGGGTCAGGTCATCAACTTTAGCGTAACGCCAGAAGGGGCGA\n+CGTTAAGTGGCGGAAAAGTGAGAACTAACTCTTCAGGTCAGGCTCCAGTCGTTTTGACCAGCAATAAAGT\n+CGGTACATATACGGTGACTGCATCTTTCCATAACGGCGTAACAATACAGACACAGACAACCGTGAAAGTC\n+ACTGGCAACTCAAGCACCGCCCATGTTGCTAGCTTTATCGCTGATCCATCGACTATCGCCGCCACCAACA\n+CTGATTTAAGTACCTTAAAGGCAACGGTTGAGGATGGCAGTGGTAACCTGATCGAAGGTCTCACTGTGTA\n+CTTCGCCTTAAAAAGCGGCTCTGCCACATTAACGTCATTAACAGCGGTGACCGATCAAAACGGAATCGCG\n+ACAACAAGCGTGAAAGGAGCGATGACAGGTAGCGTCACGGTAAGCGCAGTCACGACCGCTGGTGGAATGC\n+AAACAGTAGATATAACGCTGGTGGCTGGCCCGGCAGACACCTCGCAGTCCGTCCTTAAGAGCAATCGGTC\n+ATCACTGAAAGGGGACTATACCGATAGTGCTGAATTACGTCTTGTTCTGCACGATATATCAGGCAATCCG\n+ATCAAAGTTTCTGAAGGGATGGAATTTGTGCAATCAGGTACTAACGTGCCCTATATAAAAATTAGCGCAA\n+TTGATTACAGTCTAAATATCAACGGTGATTACAAAGCCACTGTTACAGGAGGCGGAGAGGGTATCGCAAC\n+GCTGATCCCTGTATTGAATGGTGTTCATCAAGCTGGTCTGAGTACCACAATACAATTCACTCGCGCAGAA\n+GACAAAATAATGAGCGGTACAGTATCAGTCAATGGTACTGACCTACCGACAACTACATTCCCTTCGCAGG\n+GGTTCACCGGGGCGTATTATCAGTTGAATAATGACAACTTTGCCCCAGGAAAAACGGCGGCTGATTATGA\n+GTTTTCAAGCTCTGCCTCCTGGGTCGATGTTGATGCTACCGGTAAAGTGACATTTAAAAATGTCGGCAGC\n+AATTCGGAAAGGATTACGGCGACGCCAAAATCAGGAGGCCCTAGCTATGTATACGAAATCCGTGTGAAGA\n+GTTGGTGGGTGAACGCCGGCGAGGCTTTCATGATATACAGCCTTGCTGAAAATTTTTGCAGCAGCAATGG\n+CTACACGCTCCCCAGAGCAAACTATTTAAACCACTGTAGTTCCCGAGGCATCGGGTCACTGTACAGTGAA\n+TGGGGAGATATGGGGCATTACACGACTGACGCTGGTTTTCAATCAAATATGTATTGGTCATCTAGTCCCG\n+CAAACTCAAGCGAACAATACGTAGTTTCCCTGGCAACAGGTGATCAAAGCGTATTTGAAAAGCTTGGGTT\n+TGCTTATGCGACATGTTATAAAAACCTGTGATTTTCCGTTATAATTTCTTAAAGAGTGTTCCATTCGGGG\n+CACTCTTTTTTACATTCCCTCTACAGAACTAGCCCTTCTCTCACAGAAAATGAATAAATAAAAATGCGGC\n+ACCGCCAGAATCGCGTTCGATGTGACTATGATCATTTTCGGTGAGTACTGCTTTGATCTAAAGGCTGGTT\n+TTCTGTGATGATTGACCAGCCTCAGAGTATTGATGACACCACCGTTCATAACAGATCGGCATTACTATGC\n+ATAAGTACTGTCTCATATTCTCGCCAAAACACTTTTTAATGCCTTTGCGAATTCATCCAGACTTATATTG\n+TCAATTTTTTGCCCAACGACGACTGACTCCGAGACATCGGCCATTGCGGGCCATCGCGTTTTGTAATCAG\n+CATAAATTGCAACAACAGGGGTATTATAGGCACTTGCCATATGTAATATTGAGGTGTCAGGAGTTATTGC\n+GATATAAGCATCTTTTATGATTGCTGCTGAACGTTTAATCGAGGGTGGTAAGGATAAACGGTAGACATTA\n+TTATAACAATCCACTAATGCCCTGGCTTTATCTTCACCTTTGGGTCCATGAACGATCACTATTGGTATAT\n+CTGTTTCACTTTAAATTTTTGCTATTAGATTTTCTGCAATCGATAATGAAAATGTACGTTCCTGCGAGCT\n+ACCTTCTAAATTGAACGCAATGTAAGATCCTAACGATCGCATTTCCTCGCGCACCTCATCGAGTACATCC\n+TCACTTAGTGGCAATTCATATATTGGCCTGACTGCTGGAAAACCCGCCTCACGCATCATAAATGCCCATG\n+TCATAGGTACGGGAGCCCGGAGTTTCTGATCCATACTGGACGCGTTCTTGCACAAAGGGGAGAAGCAATT\n+CATGGTTATACCAACAACCTGAAAATTCGTTTTTGCTTTCAACTGACTGATAAATAACATCGTTTTCAGG\n+TTCTTTTTACGCATCCCCTCAATGCAAAGATCCGGCGTACCGTATTGCTGTGTTATGTTCTTTGCTAAAT\n+CTT'..b'TGGCATTGATAG\n+CTATCTGCTTCGCATGGAGCCTGAGCTAGTTTGCGATTCTGACGATCTGGATGCCCTGATGGATGCCGAT\n+GCGCTGGTCATTACGCTTC\n+>contig-201_947\n+CTGATGACGGCCTATGCGGAAGTGGAAACCGCCGTCGAAGCGCTACGCTGCGGAGCCTTCGACTATGTTA\n+TTAAACCGTTTGATCTCGATGAGTTGAATTTAATCGTTCAGCGCGCTTTACAACTCCAGTCAATGAAAAA\n+AGAGATCCGTCATCTGCACCAGGCACTGAGCACCAGCTGGCAATGGGGGCACATTCTCACCAACAGCCCG\n+GCGATGATGGACATCTGCAAAGACACCGCCAAAATTGCCCTTTCTCAGGCCAGCGTCTTGATTAGCGGTG\n+AAAGCGGCACCGGGAAAGAGTTGATTGCCAGAGCGATTCACTACAATTCGCGGCGGGCAAAGGGGCCGTT\n+CATTAAAGTCAACTGCGCGGCGCTGCCGGAATCGTTGCTCGAAAGTGAACTGTTTGGTCATGAAAAAGGT\n+GCATTTACTGGTGCACAAACCTTGCGTCAGGGATTATTTGAACGAGCCAACGAAGGTACTCTGCTCCTCG\n+ACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGA\n+ACGGATTGGCGGCCATCAGACCATAAAAGTTGATATCCGCATCATTGCTGCCACCAACCGCGACTTGCAG\n+GCAATGGTAAAAGAAGGCACCTTCCGTGAAGATCTCTTTTATCGCCTTAACGTTATTCATTTAATACTGC\n+CGCCTCTGCGCGATCGCCGGGAAGATATTTCCCTGTTAGCTAATCACTTTTTGCAAAAATTCAGTAGTGA\n+GAATCAGCGCGATATTATCGACATCGATCCGATGGCAATGTCACTGCTTACCGCCTGGTCATGGCCGGGA\n+AATATTCGAGAGCTTTCCAACGTTATTGAACGCGCCGTCGTGATGAATTCAGGCCCGATCATTTTTTCTG\n+AGGATCTTCCGCCACAGATTCGTCAGCCAGTCTGTAATGCTGGCGAGGTAAAAACAGCCCCTGTCGGTGA\n+GCGTAATTTAAAAGAGGAAATTAAACGCGTCGAAAAACGCATCATTATGGAAGTGCTGGAACAACAAGAA\n+GGAAACCGAACCCGCACTGCTTTAATGCTGGGCATCAGTCGCCGTGCATTGATGTATAAACTCCAGGAAT\n+ACGGTATCGATCCGGCGGATGTATAACACCAAAACTTGCTATGCAGAAATTTGCACAGTGCGCAATTTTC\n+TGCATAGCCGCTCATTCTCCTTATAAATCCCCATCCAATTTATCCCTTCATATTCAATTAGTTAAATAAC\n+TAAATCCAAT\n+>contig-201_954\n+AATATTGCCAGTAGATTATTATCTAATCAAACATACTTTCCTATAATTCACAATTATAATTCAGGTGAAT\n+AAAAAAAGACCATGAAATATATAAATTGTGTATATAATATAAATTACAAATTAAAACCACATTCTCATTA\n+TAAATAATTATATGATGAAAAAACGGTATGAATTAATACTCAAATAAATAAAGCAGAGCTTAAACATAAC\n+TCTGCTTTATAATTAAAGGGACAAAATAATTTTACATCTGTTACTGTTTCGGTCGCAGATTCTCATCAAA\n+TACCAGGCGTTTCCTGCCAGGTTCAATTTCCCGCAATGGCTCGACTTGATGTAACGTCTGCTTACAGCGT\n+GTCACCAGCACCTGGTACTCATGCGTACCCTGCTTTTTCCATGCCAACTCCTGCTCACTGAGTTCACGAA\n+TCGCTTTCGCCGGGCTGCCGACAATCAGGTAATTAGCTGGCATTTCTGCTTTGGCTTTCACAAATGCGGA\n+TGCACCAACAATGCTGTTCTCGCCAATCACCGCACCGTCCATCACTACCGCGTTCATTCCCACTAATGCA\n+TTGCGGCGGATAATGCAGCCGTGAAGGATAGCGCTATGACCAATATGTCCATCTTCTCCTACAACAGTAT\n+CCTGCTCGGGAAAACCGTGCATAACGCAATTATCCTGAATGTTCGCGCCATCTTTCACCACGATACGACC\n+AAAATCGCCACGCAGGCTGGCATTTGGCCCAACGTAAACGCCCTTGCCGAGAATAACATCGCCGATCAAT\n+ACCGCTGTCGGATGGACAAAACTCTCTTCTGGCACAACCGGAGTCAGACCGTCTATCTGATAAATTGGCA\n+TAACGCCTCCTGTTCAATATTCAAGCCGCCAAAACGTTGAAAATACAGGCTTCCCGGCGCAGGCAGTTCA\n+CCGACCGAGGTTTCACCTTTTTCACTAACGAACGCTAAAGCAGCAGGCGCTACGCGCTGATAAATGTTGA\n+TACACAGCTGACGCGCCGTATGCCCTGCCCAGTGTGCCGGAAGCAACTCCTCCGGCAACAATGGGTCTTT\n+AAGGACGACACGGCGATAAAAATGGATCAGTAAAAGCTGAATATGAAATGCCCGCTCCGGGGTTAACTCG\n+TCTGCCGCCTCTTTTAAAAGCGGCACCAGCGGGCGGAATGACTGAATAAAGGTTTCGTACATGGCATTTT\n+GTTCAGTTAAATGCCAGCACTCTTCTACTCTGGCACGCAGTGCTGCGCGAGAAAG\n+>contig-201_962\n+CCGGCTCGCGTTTGCCAAGATCCAACTCATTGAAGGCATAACCATGACGCTCAAGCAGTTGTGCCTCTTT\n+GATGGTGAAATCACCATGACGAGAGAATCCACGTGGATAATGTTTATTGTCGAAATATCGATTAGTCGTC\n+GTAAAGCTTTCCGCCATCCTGCACGCTCCTAATTCTTTGACCGAGCTAGTTATGGCGCGGAGTATTAGTT\n+ACGCTTGACAGAGTGTAAAACAAAACATTTAAATCATAACGACAAATAATTTTGCGGAGAGCACTGTGGA\n+TACGGAATTGTTAAAAACTTTCCTGGAAGTTAGCCGAACGCGTCACTTTGGTCGAGCGGCTGAATCGCTC\n+TATCTGACCCAGTCAGCAGTGAGCTTTCGAATCAGACAACTGGAAAATCAACTGGGTGTGAACCTTTTCA\n+CCCGCCACAGAAACAATATCCGTTTAACCGCTGCCGGTGAAAAACTACTGCCTTATGCAGAAACGCTCAT\n+GAGCACCTGGCAGGCCGCCCGTAAGGAGGTGGCGCATACCTCACGACATAACGAGTTTTCTATCGGTGCC\n+AGCGCCTCGTTGTGGGAATGTATGCTTAATCAGTGGCTGGGACGCTTGTATCAAAATCAGGATGCCCATA\n+CAGGCTTACAGTTCGAAGCGCGAATTGCCCAACGGCAGTCTCTGGTAAAACAGCTGCATGAACGCCAGCT\n+TGATCTTCTTATTACCACTGAAGCGCCCAAAATGGACGAATTTAGTAGTCAGTTGCTGGGATATTTCACT\n+TTAGCGCTTTATACCAGTGCCCCTTCAAAACTAAAGGGAGATCTTAATTATCTGCGACTTGAGTGGGGGC\n+CAGATTTTCAACAGCATGAGGCAGGTTTGATCGGTGCTGACGAAGTGCCCATTCTGACAACCAGTTCTGC\n+TGAACTGGCACAGCAACAGATTGCGATGCTTAATGGTTGCACCTGGCTACCCGTCAGCTGGGCGCGTAAA\n+AAAGGCGGCCTGCATACCGTTGTCGATAGCACAACACTTTCACGGCCGCTTTATGCCATATGGCTGCAAA\n+ATAGCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGA\n+ATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAG\n+CTTTCGCTAAGGATGATTTCTGGCAGG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.001.marker.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.001.marker.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,8 @@ +>out.001.TIGR00092 +MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKPQRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVNPADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRALDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAVEADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGATAPQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFLFNV +>out.001.TIGR00418 +MPVITLPDGSQRHYDHAVSPMDVALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSIITAKDEEGLEIIRHSCAHLLGHAIKQLWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDKPGLYFHEEYVDMCRGPHVPNMRFCHHFKLMKTAGAYWRGDSNNKMLQRIYGTAWADKKALNAYLQRLEEAAKRDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGTVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLKQLEE +>out.001.TIGR00810 +MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLATLFFIISLVLGNINSNKTNKGSEWENLSAPAKTEQTQPAAPAKPTSDIPN +>out.001.TIGR01024 +MSNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERLN |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.002.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.002.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,1746 @@\n+>contig-201_29\n+GAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTAT\n+GATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGT\n+TGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCACTATACTTG\n+GTCAACGCAACGGTATAAATAAACTCATCAAATGGTAGTGTTTCGATTTCAAGTATTGGTATTGTCAATA\n+AATCTTGCGGTAACCCGGTAAATATAATCCGATAATTTTCAAAGTGTGTTTTCACTTCTTGATATATAAC\n+TTTTATTTGCTCAAACGTAAGACGGCATATTTTTTTTGCACCTAATGGATTAATAATGACTATTCTTGTA\n+TCTCCAATAAATTCTTTTATTTTATCTTCAACATCTACTGGTAAATGCAAGTCGTAGTTGGTGGAAAATT\n+TACCCTCACCATAAATATGCTTCAGTATTTCTATTGCTCGTGTACTCATATGTTCTTTTAAACATTCATC\n+GTGGGGATGGTAAAATGAATAGTAACGCTTATACCAATGATCAAAACCCAGAATGTAAGAATCTTTTAAA\n+CTTGATAATATTAAGCTATGCTTAAATGAGGGCATAGTTTCAAAGGGGTCTAATACAATATCGAACTGTA\n+AATCCCGCAGATGCTTACATAGAGTAAGCATTTCAAGAAAACCGGTTGATTCTTTAATACAGAACTCAAA\n+TATATTTTTATTATTAGAGAGAAATTCCCCACCCTTTCTATTTGTGAGAAGAGTTATTTTAACCCCTTTA\n+CTATAAAGTTCACGATAAATCGAACTTAATACAATTAGATCACCAAGTTTATTATTATCATGAATAATAA\n+GGCATGATTTAACTTGTGCTGGATCTGTAATTTGATTATTTATTTTATTACGAAATAAAAAAGAAAGGAA\n+ATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCA\n+TATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCATTTTTTTTCT\n+TGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATA\n+GCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATCATGCATAAAACGAAAAAATGGCA\n+ATATTTTGAATAAATCCCTACTTAATTCCGAGGGCATGGGATTTTTATTCTCATCATAGAAACGAGAACA\n+GCTACCCGTTAAATCAAGACCAGAACAAATAATCCGCGCATACTTAAGTGAATATGCGATTTGAATTGCA\n+GCAAAGGCAATAGTATGGCATGAGCAATAACCAAGACTAATGTCCTTGCAAAATCCAACCAGACGACCTT\n+TTTTAGACAACGGTACAGAGATCAGCAGTTCTTTGTGAATCTGTCTCAAAATATTAAATTTAATCTTCTT\n+TATAAAACCACCTTTTTCCCGACGGTAAAAGGACCGTAATACGAGGCAGTTCTGGAGGATATAAAGTTTA\n+TCTTCTTTGGAAGCGTGTTCATAAACGTCAACGTTTACTATGGTATAACGACTTCTCTGGCTAAATTTAT\n+AAAAATCATCACGACGCTGATGTAAAAATCGGACATCTGTAAGTACATATATAAAAGGAACGATATTATT\n+ACTTAACAGATATTGCGCAGAACCATTGACAGCAATAATATCCTTTGTTCGTAATACTGACAAAGGTGTT\n+TTTTGCGATGTAGGGCCCGAAAGAAAAATAATAACATCATCAGATATTTTATTTTCAATCAGGTTTTCAA\n+CATCTTTTTTGTCAATGTATCTAATATTCTTCATGATAAACCTGTGAAATAAATAACTCCGCTTAAAACT\n+GTCCTGGTGAAGACATGTAATTGTGGGATTTTTTTTAGCGCGCTGGTTTCCCTTTCAAACGCCGCATAAA\n+ATTGCGCATTTTTTTACGATATACTAAAAGATAATAGCCTAGATCTCTAATCTCATTTTTAATACCGTAA\n+TGACGCTCTAAGTCAATACGATCTTTCGCTTTACGCTGCGCTGAAGCACGCTTTCCGGAGAGATCGATAA\n+TTCGAACCTCACCATTTTTTATAATGAAGTTACCACGATGGGGGTCGCCAGAAACCATGCCATGTTGATG\n+TAAGGCATTAATTGATTGCTGAATTTTATTTTTTAGCGCATCATCAATATCGGGCATATCACACAACTCT\n+ATGCCATCAATATACTCGATGATCATGATATAAGTATGGACAAAACGTAAGGTTTTCCGTTCAGCCAATA\n+AATAAAAGTCATTGAGTGTATTTAACCCTTCATTTCGTACTTTTTGGGTTTGCTCAAAAAGGCGTTCGTA\n+ATAATCACCTTTTAACAGAGACTTAAAGAAACGTTCGTTACGCTTAACTTTCGGAGAAAAAACCTTAAGA\n+ATCAATTTACCGTAATCGGTATCAATAAGCATAACTTTTGTATCATCAATAGAACGAAAAACCTTGATGA\n+TATTTATATTATAAGACAAGAAGTCATTTAATACATTGAGGTACTTTGAATTGTTTTCATCGGTAAAAAC\n+AACCAAGTCTTTGATCTTGCTCTTCTGAATCATAATAAACCAGTTAAATGTTATTTACGGTAATATTTTC\n+GGCAAAGATAACAGACTCCTGCTATAATTCCTGAGATATAATGATGTTGCACTAAAAGATGTTTATATCT\n+TTTTTTAAATTCAATAATTGATTTCGCATCTCGTGGAGAGTCATCTTTCCAGGGGGAATTTTCTAAAGCT\n+ATTTTATAGTATTTTACCGATGGATAAATTGCCCATTTGTGCCACGGTTTAGTTGCACCTGTATAATGAA\n+TAAGAAGAGTACTTTCTGTAATCAGCTTTTTATAGTTTTGATGTGTTTTGTCTTTTAATTCACTTTTAAT\n+TGTATAAATTGTATTGTACTCACGAGGCAAAAATAATGTCATCCCTTTCAGTAAGACATTCATAACATCC\n+TGATCAGGGTATTTATAAACATTATCTTTACTCATAAGAATAGACAACGCTTTTTCTGTTAGTTTTGCGT\n+CAGCCCATTTTTTTAAGTCTAAATAAACGACACCGGAATTAAAGTACTGCCCAAGTAATTCAGGATCAGA\n+CAACCTGGATACCGCCTTTTCTTGCATTGGCTCAACATCTTTAACAACAGCAGCAACCGCTCCATTTAAA\n+CCCAGATGTAATAGTTGGCTAATATCGCCTTTACAAACAACATCTGCATCAAGATAAAGCAAACGATCAA\n+GCGTTAAACCCAATAATTGAAATGCAAATAAACGGAAGTACATTGCTCTTGACCAGACCTGTGTACAAGG\n+CAAGCACTGGAGCTTATCAGTGTTAATTCTATATAACGTGATTCTTAATTGGTTTTGCTCTGCAAGCTTT\n+GCAATTTTTTGAAAAAAACCATCATTATAAACATCAGCAATAATATAAAAATCAAGATTAATATGTCGAT\n+TATTTAGGACAATTGATGTGATGGAAACACCTACACCATCAAGATAATTAGCATCGACACCATAGGCAAC\n+ATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATG\n+GCAGGAAATGAGTCCACAATGCTACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCT\n+TTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGC\n+GCT'..b'AGCAC\n+CAGTCCTATTTCCTCTTTTCTCCAGCCTGTTATATTAAGCATACTGATTAACGATTTTTAACGTTATCCG\n+CTAAATAAACATATTTGAAATGCATGCGACCACAGTGAAAAACAAAATCACGCAAAGAGACAACTATAAA\n+GAAATCATGTCTGCAATTGTGGTTGTCTTATTACTGACACTTACGTTGATAGCCATTTTTTCGGCAATTG\n+ATCAGCTGAGTATTTCAGAAATGGGTCGCATTGCAAGAGATCTTACACATTTCATTATCAATAGTTTGCA\n+AGGCTGAAAACAAACAGCAAATTATAAATATGAAATGTTAAAAAAGTATCGATAAAAACTTTATTGTTTT\n+AAGGAGATAAAATGTCGCTCGTTTGTTCTGTTATATTTATTCATCATGCCTTCAACGCTAACATTTTAGA\n+TAAAGATTACGCCTTCTCTGACGGCGAGATCCTGATGGTAGATAACGCTGTTCGTACGCATTTTGAACCT\n+TATGAGCGGCATTTTAAAGAGATCGGATTTACTGAAAATACCATTAAAAAATATCTACAATGCACTAACA\n+TCCAGACAGTGACGGTGCCTGTTCCTGCGAAGTTTTTACGTGCTTCAAATGTACCGACTGGATTGCTTAA\n+TGAAATGATTGCTTATCTCAACTCGGAAGAACGCAATCATCATAATTTTTCAGAACTTTTGCTTTTTTCT\n+TGCCTGTCTATTTTTGCCGCATGCAAAGGTTTCATTACACTATTAACTAACGGTGTGCTATCCGTTTCTG\n+GGAAAGTGAGAAATATTGTCAACATGAAGCCGGCGCACCCATGGAAGCTGAAAGATATTTGTGACTGCCT\n+GTACATCAGTGAAAGCCTGTTGAAGAAAAAACTTAAGCAAGAGCAAACGACATTCTCACAGATTCTTTTA\n+GATGCAAGAATGCAGCACGCAAAAAATTTGATACGCGTAGAAGGTTCAGTCAATAAAATTGCCGAACAAT\n+GTGGTTATGCCAGTACATCTTATTTTATTTATGCGTTCCGCAAACATTTCGGCAACAGTCCGAAGAGAGT\n+TTCTAAGGAGTACCGTTGTCAAAGTCACACGGGTATGAATACGGGCAACACGATGAATGCTTTAGCTATT\n+TGATTATTTGCTAACGAGTAGTCAACCACACACGCTGCGTAAGAATTAAATGGGGCAGCCATTCCCTGCC\n+CCGCGTTGTTTTTAGGCGATATATTTATTGAAATAAATAAGTGACATCCATCACATATTTATGCACTTGC\n+ATAACCTGTTGCATGATTATTTATGATCTCAATTCTGCATTTTGTCAGTAAAATGC\n+>contig-201_940\n+AGCGTTACGTGATCTTTCCCTGCAAATGGAACGCAAAATAAACACCTATTCCATGAGTTATATAATTTTT\n+CACAATGATTAATTTGTTTTCTCAGGAAGAGATTTTATTTCTCTTCACTACGAATTAGTTCATGCTGTAT\n+CTTTATTAAACATTCGTAAGACTCATTTTTGTTCGGGAGATGTGCTGTCATTCGAGCATAAGTTGGTTTC\n+TCATCTTTAAAATATTTTACCATGATTGAATTATCAAGGACTGCCAACAACTGAACTGGATCACTGCTCT\n+TTTTTTGATAGATACCCGCTCTTATATAACTTCTAAACCGATCGCCGAGAAACGCCGTTTTTTCTGCTGT\n+ATTTATCAACTCCTGCAACGTTCCTTTGATGGCATGATTTTCATTAAGGCGTAGTGACCCGACGCGAATT\n+AAGAGTCTCGCCCCGCTTGGTGTGAATTTATTATTTTTACATGTACCCAGTTCTGTTTGCCAATAATACT\n+CACCGATGTCCTCATTCTGATACCATCTCCACATGGCTTTATTATTTAAGACAGGAAACGCGGAAAAAAT\n+AGTACCCTTAGCGAAAATAGTAAAACAATCATGATCTTTAGCTTGTATTTCGCAATCAGCTATAACACCA\n+AAACTAACAAATATCATCAGCAAAAAGAACAAAACTCTTTTCATTTTCTTATTCCTCTCGATGTTCTCTG\n+TTTCATCTTAGCTAAAATTTCACCCAAATCATCTATCCCTGCTGTTGCTGGCCCATCGGGTTTATTAATG\n+TCTGGGAATAAATAGGGTTCTGCACAAGTATATCCTGGTGGTAATTGAGTTGTTGGCCAATTTGTCTGTG\n+GCAGGTAATCACTTGCTGTCTTTGTATCCATCCCTGGATACTGGGAATCATCCTGTGGCGTACAAGTCAG\n+ATTTGGTTTTACCCACTTCCTGCAATACAGTGTGTAGTCGTAAGGGCTTAATGCTCTGAAGAATGTTTTG\n+AAAACATTAGGCGCACTACTGGCCTGGTCAATAGGATATGGCAGTCTTAATTGTTTCGCTATGTCCGGCA\n+ATTTACTTGGATCGGGCGTAGGCGGTTTGTTGGGTCTCGCTCCATATCCGCCATTATTTAAGTGTCCATA\n+TTTTGATGCCAGTCCCATTGAATCTATATACTGAACCGGATTCAGCGGATACTGATAAAAATTCCATCCC\n+CCCTTCAGCCCAATCGGATCCTGAGTGATATACCTCCCCTGCAGCGGGTCATAATAGCGGTGGCGGTTGT\n+AATACAGGCCGGACTCCTCATCATACTGCTG\n+>contig-201_955\n+TGGCCCCCTTTCCAGGTGACCGTGTAATCTGAACTACCCTTTGGTATCTTCAGTGCCTGCCTGCAGGCTG\n+AGGTGTTGCCCTTACAAATGCAACAACGACATGGATTACAACACCCTCATAAACAAAGGGCAATCACCTG\n+ATCTAAGCTCTTACCTATGACAGTGATAGGTTATGCCTTTTACTCGACTTTTGCACTGACTGAAAAGGAC\n+AAATTAATGTTAAAAAAGATACTTTTACTGGCTCTGCTTCCTGCAATCGCCTTCGCAGAGGAACTTCCTG\n+CTCCAGTAAAAGCGATTGAAAAACAGGGCATTACAATCATCAAAACATTCGATGCCCCCGGAGGAATGAA\n+AGGTTATCTCGGAAAGTATCAGGATATGGGCGTCACCATCTACCTGACTCCAGATGGTAAGCACGCTATC\n+TCTGGTTACATGTACAACGAGAAAGGTGAAAACCTGAGTAACACACTTATCGAAAAAGAAATTTACGCAC\n+CAGCCGGACGCGAAATGTGGCAACGGATGGAACAATCCCACTGGCTCCTCGACGGTAAAAAAGATGCGCC\n+GGTCATTGTCTACGTCTTCGCCGATCCGTTCTGCCCATATTGTAAACAGTTCTGGCAGCAGGCGCGCCCG\n+TGGGTAGATTCTGGCAAAGTGCAATTAAGAACATTGTTGGTTGGGGTTATCAAGCCAGAAAGCCCGGCGA\n+CAGCAGCGGCAATTCTTGCCTCCAAAGATCCCGCAAAAACCTGGCAACAATATGAAGCCTCTGGTGGCAA\n+GCTTAAGCTAAACGTGCCTGCAAACGTAAGTACAGAGCAAATGAAAGTGTTAAGTGACAATGAGAAACTG\n+ATGGACGATCTGGGGGCAAATGTCACGCCGGCTATCTATTACATGAGTAAGGAAAATACGCTACAACAGG\n+CCGTGGGGTTGCCCGATCAGAAAACGCTTAATATCATTATGGGGAATAAATAAAAGGTAATTCATGGATG\n+GTTGAACTATATCCCTGCTTTTCAACCATCCTAAAAAAGCATGAATTGCTCGCTCTGCCCTAAGTGGCTG\n+TGCTATTTTAGAAAAACTTAATCCTGAGTTAAGCAAAAAAACATAATCAATAAAAATATATACGCAAAAA\n+ACATTGATTAAGTGAATATATCATGGAAGAAAAATATAACCGGAGTAGTGTATGGCCAATCTCTACGACT\n+TGAAAAAGTTCGACTTAAATCTTCTTGTCATATTTGAGTGTATTTACCAG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.log Thu Jun 28 08:49:29 2018 -0400 |
| [ |
| @@ -0,0 +1,58 @@ +MaxBin 2.2.4 +Input contig: Bin_Sample3_contigs.fasta +out header: out +Located abundance file [abundances.tsv] +Min contig length: 500 +Max iteration: 10 +Probability threshold: 0.95 +Searching against 107 marker genes to find starting seed contigs for [Bin_Sample3_contigs.fasta]... +Try harder to dig out marker genes from contigs. +Done data collection. Running MaxBin... +Command: /home/berntm/miniconda3/envs/__maxbin2@2.2.4/opt/MaxBin-2.2.4/src/MaxBin -fasta out.contig.tmp -abund out.contig.tmp.abund1 -seed out.seed -out out -min_contig_length 500 -max_run 10 -prob_threshold 0.95 +Minimum contig length set to 500. +Reading seed list... +Looking for seeds in sequences. + contig-201_2 [11.293216] + contig-201_100 [10.048304] +Get 2 seeds. + +Start EM process. +Iteration 1 +Iteration 2 +Iteration 3 +Iteration 4 +Iteration 5 +Iteration 6 +Iteration 7 +Iteration 8 +Iteration 9 +Iteration 10 + +EM finishes successfully. + +Classifying sequences based on the EM result. +Minimum probability for binning: 0.95 +Ignoring 0 bins without any sequences. +Number of unclassified sequences: 23 (9.75%) +Elapsed time: 0 days 00:00:01 + +Deleting intermediate files. + + +========== Job finished ========== +Yielded 2 bins for contig (scaffold) file Bin_Sample3_contigs.fasta + +Here are the output files for this run. +Please refer to the README file for further details. + +Summary file: out.summary +Marker counts: out.marker +Marker genes for each bin: out.marker_of_each_gene.tar.gz +Bin files: out.001.fasta - out.002.fasta +Unbinned sequences: out.noclass +Marker plot: out.marker.pdf + + +========== Elapsed Time ========== +0 hours 0 minutes and 3 seconds. + |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.marker --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.marker Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ + Total marker Unique marker PGK Ribosomal_L23 Ribosomal_L5 Ribosomal_L3 Ribosomal_L6 Ribosomal_S17 Ribosomal_S9 Ribosomal_S8 Ribosomal_S11 Ribosomal_S13 Ribosomal_L10 Ribosomal_L4 tRNA-synt_1d GrpE Methyltransf_5 TIGR00001 TIGR00002 TIGR00009 TIGR00012 TIGR00019 TIGR00029 TIGR00043 TIGR00059 TIGR00060 TIGR00061 TIGR00062 TIGR00064 TIGR00082 TIGR00086 TIGR00092 TIGR00115 TIGR00116 TIGR00152 TIGR00158 TIGR00165 TIGR00166 TIGR00168 TIGR00234 TIGR00337 TIGR00344 TIGR00362 TIGR00389 TIGR00392 TIGR00396 TIGR00409 TIGR00414 TIGR00418 TIGR00420 TIGR00422 TIGR00435 TIGR00436 TIGR00442 TIGR00459 TIGR00460 TIGR00468 TIGR00472 TIGR00487 TIGR00496 TIGR00575 TIGR00631 TIGR00663 TIGR00755 TIGR00810 TIGR00855 TIGR00922 TIGR00952 TIGR00959 TIGR00963 TIGR00964 TIGR00967 TIGR00981 TIGR01009 TIGR01011 TIGR01017 TIGR01021 TIGR01024 TIGR01029 TIGR01030 TIGR01031 TIGR01032 TIGR01044 TIGR01049 TIGR01050 TIGR01059 TIGR01063 TIGR01066 TIGR01067 TIGR01071 TIGR01079 TIGR01164 TIGR01169 TIGR01171 TIGR01391 TIGR01393 TIGR01632 TIGR01953 TIGR02012 TIGR02013 TIGR02027 TIGR02191 TIGR02350 TIGR02387 TIGR02397 TIGR02432 TIGR02729 TIGR03263 TIGR03594 +out.001.fasta 4 4 1 1 1 1 +out.002.fasta 0 0 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.marker.pdf |
| b |
| Binary file test-data/2/out.marker.pdf has changed |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.marker_of_each_bin.tar.gz |
| b |
| Binary file test-data/2/out.marker_of_each_bin.tar.gz has changed |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.noclass --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.noclass Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,935 @@\n+>contig-201_2\n+TAACCAGACGGAACGGTATCTGATGGCCACGGGATTGGTGCACCGACTGGATAAAACTCTGCAGGAGGAT\n+GAGCCGAGGTGTAAAGCTGCGCCCACGGCGACCAGTTTGCGTCGGTCGTATCCCGTCGTGAACGAATAAA\n+TGCCGGAGCATGAGCACCGCTTGTACCACTCCAGCCGATGAGTAACTCACCTTCGCCAACGGCTGTCATC\n+CCTTTCAGGTGAATGATATTTCCATACGCTGTTGGATATCCGTTGTTATACACCTCGTATAACTCAAGAC\n+CTGCTGCCCCCTGCGTATTGTCTGTCAGCGCGGTTATATTCACTCAGCAACCCCGGTATCAGTTCATCCA\n+GCGCGGCTGCTTTGTTCATGGCTTTGATGATATCCCGTTTCAGGAAATCAACATGTCGGTTTTCCAGTTC\n+CGGAAAACGCCGCTGCACCGACAGGGGGATCCCGTCGAGAATACTGGCAATTTCACCTGCGATCCGCGAC\n+AGCACGAAAGTACAGAATGCGGTTTCCACCACTTCAGCGGAGTCTCTGGCATTTTTCAGCTCCTGTGCGT\n+CGGCCTGCGCACGCGTAAGTCGATGGCGTTCGTACTCAATAGTCCCTGGCTGGAGATCTGTCTCGCTGGC\n+CTGCCGCAGTTCTTCAACTTCCCGGCGCAGCTTTTCGTTCTCAATTTCAGCATCCCTTTCGGCATACCAT\n+CTTATAACGGCGGCAGAGTCATAAAGCACCTCATTACCCTTGCCACCGCCTCGCAGAACGGGCATTCCCT\n+GTTCCTGCCAGTTCTGAATGGTACGGATACTCGCACCGAAAATGTCAGCCAGCTGCTTTTTGTTGACTTC\n+CATTGCACATTCCACGGACAAAAACAGAGAAAGGAAACGACAGAGGCCAAAAAGCTCGCTTTCAGCACCT\n+GTCGTTTCCTTTCTTTTCAGGGGGTATTTTAAATAAATACATTAAGTTACGACGAAGAAGAACGGAAACA\n+CCTTAAACCGGAAAATTTTCATAAATAGCGAAAACCCGCGAGGTCGCCGCCCCGTAACCTGTCGGATCGC\n+CGGAAAGGACCCACAAAATGATAATAATTATCATCTACATGTCACAACGTGCATCTACGCCATCAAACCA\n+CGTCAAATAATCAATTATGACGCAGGTATCGTATTAATTGATCTGCATCAACTTAACGTAAAAACAACTT\n+CAGACAATACAAATCAGCGACACTGAATACGGGGCAACCTCATGTCAACGAAGAACAGAACCCGCAGAAC\n+AACAACCCGCAACATCCGCTTTCCTAACCAAATGATTGAACAAATTAACATCGCTCTTGAGCAAAAAGGG\n+TCCGGGAATTTCTCAGCCTGGGTCATTGAAGCCTGCCGCCGGAGACTGTGCTCAGAAAAAAGAGTTTCTT\n+CTGAAGCAAACAAAGAAAAGAGTGACATTACTGAATTGCTCAGAAAACAGGTCAGACCAGATTGAAGCAA\n+TTTAGATAATCGTGCAGACTACGCCCCCTCATATCACATGGAAGGTTTATCTATGGATCAGGTAGTCATT\n+TTTAAACAAATATTTGATAAAGTTCGAAACGATTTAAACTATCAATGGTTTTATTCTGAGCTAAAACGTC\n+ACAATGTCTCACATTACATTTACTATTTAGCCACAGAGAATGTTCATATTGTATTAAAAAATGATAATAC\n+AGTGTTATTAAAGGGCCTAAAAAACATTGTGTCTGTCAAATTTTCAAAGGATAGGCATCTTATAGAAACG\n+ACCTCTAATAAGCTGAAATCCAGAGAGATCACATTTCAGGAATACAGAAGAAACCTTGCTAAAGCAGGAG\n+TTTTTCGGTGGGTTACAAATATCCACGAACAAAAAAGATATTACTATACCTTTGATAATTCATTACTATT\n+TACTGAAAGCATCCAGAAAACTACACAGATCTTACCACGCTAAACCATAACGTCCGGCTTCTCTCACTCC\n+TGAGCCGGACTGCATTGGTTTAATAAAAACCATCAACAATTGTGATTTAGATATTCGGAACCATTCAAAT\n+ATAACAAAACCCCGTAAAAACGAGGTTTATGGATAAATTTTATTATTGAATACATCAGATTAAATTAATC\n+TTGACATCATAGCTTTCAAGACCCGTCATTTTTTCCCGTGCGGTAAACTGAATACTGGTAACTTCTTTCC\n+CGGTCTTTTTCTTAAGTTCAATAATTTTTTTTGTTATATATTCAGAAATATCTGCTTCTGCTTTTGTTTT\n+TAAGTTTTCAATATTCATCATTTCCTCTTTTAGTCTGTTATGACTTTCCAGTTACACAGTAAGTCGATTA\n+TATGGTGCAAACGTGTAAAAGATAAGATGAAACATCGCAATAATCAACATACGATAGTCTAAATTTTACA\n+CAAACAGACAAAGAGAATTTTCCTGAATTATCAATGCAATAGCATCAAATCAACTCAAGAGCCTTATTGC\n+TGCTTCCAGAATTTCTTCTGAAGTAACATGTCGATCCGCGGCTACATAAATGACTTTATGATCTCCGGTC\n+AGAGATGGAAACCCTGCGGCCATTACAGTAAGGTGTGTTTTTTCGCCATTTGGATATTCACGCATGATGG\n+TGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATG\n+ATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCTTCATT\n+TTCACTTTTTTAAATCCAACGACAGACGGCTGGCATTTAAGTATTGTGAAATATTATCAAATGTAATCAT\n+CATTGATTTACAAAAGATACATTTTGCCCCGAAAGGATTCATGTCAGAAACATCAAAAGATGATGTTCTA\n+TACTGGGAACCATGACAACACGGGCATCTAAAGTGAATATGGTTTGTAATATTGTCTACCTCAAAGCGCC\n+ACTACATGAACAGCGGCAGGACCTTTAGGTCCGTTCTCAATACCAAATTCAACTTCCTGATTCTCAGTTA\n+ATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGT\n+GATGAAACCAAAACCTTTTTCAGGGTTAAACCATTTCACTAAACCAGTCATTTTGTTAGACATAATTATT\n+ACCTTTTGAAGAAATTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGG\n+AAATCTCAAGAGGTACAAATAATAAAATTATAACAATGACTGCTTCAGATAAATTTGTAACAAACCAGAA\n+CACCATTAACGCATGATTAACCACCCATAGCAAGGATTACTTTTGTAAAGAAAAACACAGCAATGAAAGA\n+ATAGCTTTATTTATTAATAAAACGTGTCATTCTGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGA\n+ATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATA\n+TTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGT\n+AGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCATGTTGGTGAGCAT\n+TCCTTCGGCGGTTTTGGTTGTTTTGCCTCTGACGGCAGCGGCAAGATCTGCGGTATGCTTCGCTGCGTCA\n+AGGCGTATGGCATATTTTTTTGCTTCGGCACGCAACTGGTTAACACTATCAGACAGATAAGCAGCCCTGG\n+CAGAAATTTCAGCAGATTTCTGTTGCGCATCTTTAACAGCCTCATCACGGGCTATAGTTCGCCCCTGTTC\n+AATTA'..b'ATGGTTTCCAGCGGATAAGGTCGCCGGCCATTACCAGCCTTGGGGTAA\n+AACGGCTCGATGACTTCCACCATGTTTTGCCATGGCAGAATCTGCTCCATGCGGGACAAGAAAATCTCTT\n+TTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCAGATGAACCCT\n+GTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGCTAATGTT\n+GCTACTTCCTTCCCTGACTATTGATGATCTGAATGAATTGTCGCGGTAAAATAGCCCCGCCAGGGGTTTC\n+CGGCATGACGACAATTATCTGGAGGAGCCTGATAAAACAATGATCGCTGAACTGTTTACAAATAATGCGC\n+TTAATCTGGTCATTATTTTCGGTAGCTGCGCAGCATTGATTCTGATGAGCTTTTGGTTTCGCCGTGGAAA\n+TCGTAAAAGAAAAGGATTTTTATTCCATGCGGTGCAATTTTTAATCTACACCATAATTATCAGTGCTGTT\n+GGTAGCATTATTAATTATGTTATAGAAAACTATAAACTCAAATTTATCACCCCAGGCGTTATCGATTTTA\n+TCTGTACGTCCCTGATTGCGGTTATTCTGACGATTAAGCTATTTCTGCTGATTAATCAGTTTGAAAAACA\n+GCAGATTAAAAAAGGTCGCGATATCACCAGTGCGCGGATTATGTCGCGTATCATCAAAATCACCATTATT\n+GTGGTGCTTGTTCTGCTTTATGGCGAACATTTCGGCATGAGCCTTTCTGGCTTGCTGACCTTTGGTGGTA\n+TTGGTGGTCTGGCTGTCGGTATGGCCGGTAAAGATATTCTGAGTAACTTCTTTTCCGGGATTATGCTCTA\n+TTTCGACCGTCCTTTCAGTATTGGCGACTGGATCCGTTCACCGGACAGAAATATCGAAGGTACAGTAGCG\n+GAAATTGGCTGGCGAATTACCAAAATTACGACCTTTGATAATCGTCCATTGTACGTACCGAACTCGCTGT\n+TTTCGTCGATCAGCGTAGAAAACCCAGGACGAATGACCAACCGCCGCATTACCACGACCATTGGTTTACG\n+TTATGAGGATGCGGCAAAAGTGGGCGTTATTGTCGAAGCTGTACGTGAGATGCTGAAAAATCACCCGGCC\n+ATCGACCAGCGACAAACCTTACTGGTTTATTTCAACCAGTTTGCTGACTCTTCATTGAATATTATGGTTT\n+ATTGCTTTACCAAAACCACGGTATGGGCTGAATGGCTTGCTGCACAGCAAGACGTTTATTTGAAGATTAT\n+CGATATTGTACAGTCACACGGCGCGGACTTTGCCTTCCCCAGCCAGA\n+>contig-201_950\n+GGATCTTAGATTCTGTGCTTTTAAGCAGAGATTACAGGCTGGTTACGTTACCAGCTGCCGGGCCTTTAGC\n+GCCGCTTTCGATGGTGAAGGACACTTTCTGACCTTCGTCCAGAGATTTGTAACCATCGTTCTGGATAGCA\n+GAGAAGTGTACGAACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGA\n+ACCATTTTACGATACCAGTCATTTTACCGGACATAGTGTATTACCTTTAATAATTAAGTGTGCCTTTCGG\n+CGATATGGCGTGCTTTACAGATTTTGAAGCGTTAAAGGAATGTGCACTACGAGGGGTATCAACGATAACT\n+CTTGAAGGGACTTGCCTTACTACACTGCTTTAATGGTCTGTACGTCAAACCGTTGATGTGCATTAAGCCA\n+CGCATTGGCGGGTGATGCAACAATTATTTTTCATATTTATGATTAATCGGTTGGAAAACGGTCCTGTCAT\n+CAGGACCGTAAACAGCAATAAAGTGGATAAAAGTCTATTCCATCAACTGCTTACTTAATGCCGGGTTGGC\n+TTGAATCAAACGCATCAATTTTAGTTCGGCACTTGAAGGCTTCACGCGTCTGGATTCCCATTCCTTTACC\n+ATGGCGACTGATACGCCCAAAACCCGGGCGAAATCATCGATTTTTAATCCTGTCCCTTTTCGTAACTGCT\n+CAATTTCGGTACAGGACGTTGTTCTGTGCGTCAGGGTAATTTTCTGCGTTTCATCTTTAAAAACAATCTG\n+TTCCAGGCTGCTCAACAGCTCATGCATTGGATCTTTATATTCCATTGAAAACTCCTCAAATCACACTGCG\n+GGATCGTGAATTGCATCGAAGCTCATTAAGAATAGTCGGGAAAAGCAGACACAGCGGGGTGAAGTCAGGG\n+CATGCTCTGGCTATGATTCGATTCAGCCTGTCATTTAGCGTGACTTATAGCCACCTAACGATCTGATAAA\n+TGCCGATATATCTCTTACCACTCCTGTTTTGTAAAGATTTCGAAAATCTAACCTTCTGCGAAGGCGTAAA\n+TCTCTGGCTACAAAAAAGGCAACGGCACTATCATTTTTTAACAATGAAACAACAAATTAACCTTGTTTCA\n+TTTTCTCCATGATTTTACCAGGAAGATTACGTAGAAAGGGTATCCTGCAAGCCTGTCCTGGACTATCCTT\n+GTCACGTCAGACACGCGTGTGTCGTTGTGCGCTTTTTTTGGGTGAAAGGAGTAAGAAAATGGCGACAGG\n+>contig-201_956\n+GTTCGGGATGTTTCACTTCATCAATTAGAGTTAGTGCATCATTAAGACCAAGGTAATTCTGTGTCGAATA\n+GCGATAGGCCGCGATATTCAGTGAAGTACTTGTTTCTTCGAATAACTTGTTCCAGGAAACACGATAACTT\n+TGCCCCTGGTATGTTTTATCATCCGGGATACGAACATTGGAATGAGTCACATCGAAAGAAAATGCACCAA\n+CTGAAGTATTCAGACCAAGACCTAACAAACCAGCGGTATAGTTATTATCGGTTATCTGAATACCGGTATA\n+ACCCGTCAGATAGTTATTCAGGCCGTAGTAGTAGCTTGCTTGAAATAAATTAGGCTCATCCTGAATATCA\n+TCTTTTAAGACCTGACCGCCGCTAATATCCCAACGTCCAACGCCAGGGCGTAACATTTGAACAACGGATG\n+AGAAAGGTTGCGAGAATGTCCGCTTTGAGCCATCGGATTCTTCGATGGTAACAATAAGATCGCTGCCGTA\n+CCCTGACGGACTCAGATCATCAATGACGAAAGCGCCTGGCGGCACCGTCGTTTCATAAATCTTATAGCCA\n+CCTTGCGTAATAGTGACTTTGGCGTTGGTATTGGCAACGCCATGAATGATAGGCGCAAAGCTGGCTAAAG\n+TCGGAGGCAACATGCGGCTGTCACTGTATAAACGAATGCCTCGGATACTGACGGAATCAAAGGTTTCGCC\n+CGTCGTATAAGACTCACCAAGAATGAGTTGAGAACGCAGCGAGGCGATATCACGCTGAACATACCGATTC\n+TTAAAATCATAATTACTGCCAGAATCGGTCATCCAGTTGTAGTTGCCCGAGGCACGCAGTCGCCATGCAC\n+CTAAATTCATCCCACCGTTAAATGCAGCATAAATGCTTTCATTTTTTCGACCAGGGGTTTCACTATGATA\n+TCCGTTGAGGTTGTATGACAACATGGCCGCATTAATGCCGTTTTCCCATAACGATGGATCAACATAGTTT\n+TGGTAATTTTTCATTACCCAGGCTTGAGGAACGTCTATATCCAGACGTTGATCGTTAACGTCATAACGAA\n+CAGAAGCCTGAGGGATAATTTCCGTCAAATTGAGGCAATTGCCGAGCGTTTCATCCCTGGCAAGCAGAAC\n+GGCTTTTTCGTTATTTATATCGGGAGAATTAATATGAAACTGCAATAAATTCTTTAATGTGATACAAGCC\n+TGGGCGTTCTTTTTTCCTTCAATTGCGACAAATGTAATACTTTGGTTAAT\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/2/out.summary --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/2/out.summary Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ +Bin name Abundance Completeness Genome size GC content +out.001.fasta 10.63 3.7% 523255 47.3 +out.002.fasta 10.28 0.0% 117890 40.2 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.001.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.001.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,8225 @@\n+>contig-201_2\n+TAACCAGACGGAACGGTATCTGATGGCCACGGGATTGGTGCACCGACTGGATAAAACTCTGCAGGAGGAT\n+GAGCCGAGGTGTAAAGCTGCGCCCACGGCGACCAGTTTGCGTCGGTCGTATCCCGTCGTGAACGAATAAA\n+TGCCGGAGCATGAGCACCGCTTGTACCACTCCAGCCGATGAGTAACTCACCTTCGCCAACGGCTGTCATC\n+CCTTTCAGGTGAATGATATTTCCATACGCTGTTGGATATCCGTTGTTATACACCTCGTATAACTCAAGAC\n+CTGCTGCCCCCTGCGTATTGTCTGTCAGCGCGGTTATATTCACTCAGCAACCCCGGTATCAGTTCATCCA\n+GCGCGGCTGCTTTGTTCATGGCTTTGATGATATCCCGTTTCAGGAAATCAACATGTCGGTTTTCCAGTTC\n+CGGAAAACGCCGCTGCACCGACAGGGGGATCCCGTCGAGAATACTGGCAATTTCACCTGCGATCCGCGAC\n+AGCACGAAAGTACAGAATGCGGTTTCCACCACTTCAGCGGAGTCTCTGGCATTTTTCAGCTCCTGTGCGT\n+CGGCCTGCGCACGCGTAAGTCGATGGCGTTCGTACTCAATAGTCCCTGGCTGGAGATCTGTCTCGCTGGC\n+CTGCCGCAGTTCTTCAACTTCCCGGCGCAGCTTTTCGTTCTCAATTTCAGCATCCCTTTCGGCATACCAT\n+CTTATAACGGCGGCAGAGTCATAAAGCACCTCATTACCCTTGCCACCGCCTCGCAGAACGGGCATTCCCT\n+GTTCCTGCCAGTTCTGAATGGTACGGATACTCGCACCGAAAATGTCAGCCAGCTGCTTTTTGTTGACTTC\n+CATTGCACATTCCACGGACAAAAACAGAGAAAGGAAACGACAGAGGCCAAAAAGCTCGCTTTCAGCACCT\n+GTCGTTTCCTTTCTTTTCAGGGGGTATTTTAAATAAATACATTAAGTTACGACGAAGAAGAACGGAAACA\n+CCTTAAACCGGAAAATTTTCATAAATAGCGAAAACCCGCGAGGTCGCCGCCCCGTAACCTGTCGGATCGC\n+CGGAAAGGACCCACAAAATGATAATAATTATCATCTACATGTCACAACGTGCATCTACGCCATCAAACCA\n+CGTCAAATAATCAATTATGACGCAGGTATCGTATTAATTGATCTGCATCAACTTAACGTAAAAACAACTT\n+CAGACAATACAAATCAGCGACACTGAATACGGGGCAACCTCATGTCAACGAAGAACAGAACCCGCAGAAC\n+AACAACCCGCAACATCCGCTTTCCTAACCAAATGATTGAACAAATTAACATCGCTCTTGAGCAAAAAGGG\n+TCCGGGAATTTCTCAGCCTGGGTCATTGAAGCCTGCCGCCGGAGACTGTGCTCAGAAAAAAGAGTTTCTT\n+CTGAAGCAAACAAAGAAAAGAGTGACATTACTGAATTGCTCAGAAAACAGGTCAGACCAGATTGAAGCAA\n+TTTAGATAATCGTGCAGACTACGCCCCCTCATATCACATGGAAGGTTTATCTATGGATCAGGTAGTCATT\n+TTTAAACAAATATTTGATAAAGTTCGAAACGATTTAAACTATCAATGGTTTTATTCTGAGCTAAAACGTC\n+ACAATGTCTCACATTACATTTACTATTTAGCCACAGAGAATGTTCATATTGTATTAAAAAATGATAATAC\n+AGTGTTATTAAAGGGCCTAAAAAACATTGTGTCTGTCAAATTTTCAAAGGATAGGCATCTTATAGAAACG\n+ACCTCTAATAAGCTGAAATCCAGAGAGATCACATTTCAGGAATACAGAAGAAACCTTGCTAAAGCAGGAG\n+TTTTTCGGTGGGTTACAAATATCCACGAACAAAAAAGATATTACTATACCTTTGATAATTCATTACTATT\n+TACTGAAAGCATCCAGAAAACTACACAGATCTTACCACGCTAAACCATAACGTCCGGCTTCTCTCACTCC\n+TGAGCCGGACTGCATTGGTTTAATAAAAACCATCAACAATTGTGATTTAGATATTCGGAACCATTCAAAT\n+ATAACAAAACCCCGTAAAAACGAGGTTTATGGATAAATTTTATTATTGAATACATCAGATTAAATTAATC\n+TTGACATCATAGCTTTCAAGACCCGTCATTTTTTCCCGTGCGGTAAACTGAATACTGGTAACTTCTTTCC\n+CGGTCTTTTTCTTAAGTTCAATAATTTTTTTTGTTATATATTCAGAAATATCTGCTTCTGCTTTTGTTTT\n+TAAGTTTTCAATATTCATCATTTCCTCTTTTAGTCTGTTATGACTTTCCAGTTACACAGTAAGTCGATTA\n+TATGGTGCAAACGTGTAAAAGATAAGATGAAACATCGCAATAATCAACATACGATAGTCTAAATTTTACA\n+CAAACAGACAAAGAGAATTTTCCTGAATTATCAATGCAATAGCATCAAATCAACTCAAGAGCCTTATTGC\n+TGCTTCCAGAATTTCTTCTGAAGTAACATGTCGATCCGCGGCTACATAAATGACTTTATGATCTCCGGTC\n+AGAGATGGAAACCCTGCGGCCATTACAGTAAGGTGTGTTTTTTCGCCATTTGGATATTCACGCATGATGG\n+TGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATG\n+ATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCTTCATT\n+TTCACTTTTTTAAATCCAACGACAGACGGCTGGCATTTAAGTATTGTGAAATATTATCAAATGTAATCAT\n+CATTGATTTACAAAAGATACATTTTGCCCCGAAAGGATTCATGTCAGAAACATCAAAAGATGATGTTCTA\n+TACTGGGAACCATGACAACACGGGCATCTAAAGTGAATATGGTTTGTAATATTGTCTACCTCAAAGCGCC\n+ACTACATGAACAGCGGCAGGACCTTTAGGTCCGTTCTCAATACCAAATTCAACTTCCTGATTCTCAGTTA\n+ATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGT\n+GATGAAACCAAAACCTTTTTCAGGGTTAAACCATTTCACTAAACCAGTCATTTTGTTAGACATAATTATT\n+ACCTTTTGAAGAAATTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGG\n+AAATCTCAAGAGGTACAAATAATAAAATTATAACAATGACTGCTTCAGATAAATTTGTAACAAACCAGAA\n+CACCATTAACGCATGATTAACCACCCATAGCAAGGATTACTTTTGTAAAGAAAAACACAGCAATGAAAGA\n+ATAGCTTTATTTATTAATAAAACGTGTCATTCTGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGA\n+ATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATA\n+TTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGT\n+AGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCATGTTGGTGAGCAT\n+TCCTTCGGCGGTTTTGGTTGTTTTGCCTCTGACGGCAGCGGCAAGATCTGCGGTATGCTTCGCTGCGTCA\n+AGGCGTATGGCATATTTTTTTGCTTCGGCACGCAACTGGTTAACACTATCAGACAGATAAGCAGCCCTGG\n+CAGAAATTTCAGCAGATTTCTGTTGCGCATCTTTAACAGCCTCATCACGGGCTATAGTTCGCCCCTGTTC\n+AATT'..b'GATGTATAACACCAAAACTTGCTATGCAGAAATTTGCACAGTGCGCAATTTTC\n+TGCATAGCCGCTCATTCTCCTTATAAATCCCCATCCAATTTATCCCTTCATATTCAATTAGTTAAATAAC\n+TAAATCCAAT\n+>contig-201_954\n+AATATTGCCAGTAGATTATTATCTAATCAAACATACTTTCCTATAATTCACAATTATAATTCAGGTGAAT\n+AAAAAAAGACCATGAAATATATAAATTGTGTATATAATATAAATTACAAATTAAAACCACATTCTCATTA\n+TAAATAATTATATGATGAAAAAACGGTATGAATTAATACTCAAATAAATAAAGCAGAGCTTAAACATAAC\n+TCTGCTTTATAATTAAAGGGACAAAATAATTTTACATCTGTTACTGTTTCGGTCGCAGATTCTCATCAAA\n+TACCAGGCGTTTCCTGCCAGGTTCAATTTCCCGCAATGGCTCGACTTGATGTAACGTCTGCTTACAGCGT\n+GTCACCAGCACCTGGTACTCATGCGTACCCTGCTTTTTCCATGCCAACTCCTGCTCACTGAGTTCACGAA\n+TCGCTTTCGCCGGGCTGCCGACAATCAGGTAATTAGCTGGCATTTCTGCTTTGGCTTTCACAAATGCGGA\n+TGCACCAACAATGCTGTTCTCGCCAATCACCGCACCGTCCATCACTACCGCGTTCATTCCCACTAATGCA\n+TTGCGGCGGATAATGCAGCCGTGAAGGATAGCGCTATGACCAATATGTCCATCTTCTCCTACAACAGTAT\n+CCTGCTCGGGAAAACCGTGCATAACGCAATTATCCTGAATGTTCGCGCCATCTTTCACCACGATACGACC\n+AAAATCGCCACGCAGGCTGGCATTTGGCCCAACGTAAACGCCCTTGCCGAGAATAACATCGCCGATCAAT\n+ACCGCTGTCGGATGGACAAAACTCTCTTCTGGCACAACCGGAGTCAGACCGTCTATCTGATAAATTGGCA\n+TAACGCCTCCTGTTCAATATTCAAGCCGCCAAAACGTTGAAAATACAGGCTTCCCGGCGCAGGCAGTTCA\n+CCGACCGAGGTTTCACCTTTTTCACTAACGAACGCTAAAGCAGCAGGCGCTACGCGCTGATAAATGTTGA\n+TACACAGCTGACGCGCCGTATGCCCTGCCCAGTGTGCCGGAAGCAACTCCTCCGGCAACAATGGGTCTTT\n+AAGGACGACACGGCGATAAAAATGGATCAGTAAAAGCTGAATATGAAATGCCCGCTCCGGGGTTAACTCG\n+TCTGCCGCCTCTTTTAAAAGCGGCACCAGCGGGCGGAATGACTGAATAAAGGTTTCGTACATGGCATTTT\n+GTTCAGTTAAATGCCAGCACTCTTCTACTCTGGCACGCAGTGCTGCGCGAGAAAG\n+>contig-201_956\n+GTTCGGGATGTTTCACTTCATCAATTAGAGTTAGTGCATCATTAAGACCAAGGTAATTCTGTGTCGAATA\n+GCGATAGGCCGCGATATTCAGTGAAGTACTTGTTTCTTCGAATAACTTGTTCCAGGAAACACGATAACTT\n+TGCCCCTGGTATGTTTTATCATCCGGGATACGAACATTGGAATGAGTCACATCGAAAGAAAATGCACCAA\n+CTGAAGTATTCAGACCAAGACCTAACAAACCAGCGGTATAGTTATTATCGGTTATCTGAATACCGGTATA\n+ACCCGTCAGATAGTTATTCAGGCCGTAGTAGTAGCTTGCTTGAAATAAATTAGGCTCATCCTGAATATCA\n+TCTTTTAAGACCTGACCGCCGCTAATATCCCAACGTCCAACGCCAGGGCGTAACATTTGAACAACGGATG\n+AGAAAGGTTGCGAGAATGTCCGCTTTGAGCCATCGGATTCTTCGATGGTAACAATAAGATCGCTGCCGTA\n+CCCTGACGGACTCAGATCATCAATGACGAAAGCGCCTGGCGGCACCGTCGTTTCATAAATCTTATAGCCA\n+CCTTGCGTAATAGTGACTTTGGCGTTGGTATTGGCAACGCCATGAATGATAGGCGCAAAGCTGGCTAAAG\n+TCGGAGGCAACATGCGGCTGTCACTGTATAAACGAATGCCTCGGATACTGACGGAATCAAAGGTTTCGCC\n+CGTCGTATAAGACTCACCAAGAATGAGTTGAGAACGCAGCGAGGCGATATCACGCTGAACATACCGATTC\n+TTAAAATCATAATTACTGCCAGAATCGGTCATCCAGTTGTAGTTGCCCGAGGCACGCAGTCGCCATGCAC\n+CTAAATTCATCCCACCGTTAAATGCAGCATAAATGCTTTCATTTTTTCGACCAGGGGTTTCACTATGATA\n+TCCGTTGAGGTTGTATGACAACATGGCCGCATTAATGCCGTTTTCCCATAACGATGGATCAACATAGTTT\n+TGGTAATTTTTCATTACCCAGGCTTGAGGAACGTCTATATCCAGACGTTGATCGTTAACGTCATAACGAA\n+CAGAAGCCTGAGGGATAATTTCCGTCAAATTGAGGCAATTGCCGAGCGTTTCATCCCTGGCAAGCAGAAC\n+GGCTTTTTCGTTATTTATATCGGGAGAATTAATATGAAACTGCAATAAATTCTTTAATGTGATACAAGCC\n+TGGGCGTTCTTTTTTCCTTCAATTGCGACAAATGTAATACTTTGGTTAAT\n+>contig-201_962\n+CCGGCTCGCGTTTGCCAAGATCCAACTCATTGAAGGCATAACCATGACGCTCAAGCAGTTGTGCCTCTTT\n+GATGGTGAAATCACCATGACGAGAGAATCCACGTGGATAATGTTTATTGTCGAAATATCGATTAGTCGTC\n+GTAAAGCTTTCCGCCATCCTGCACGCTCCTAATTCTTTGACCGAGCTAGTTATGGCGCGGAGTATTAGTT\n+ACGCTTGACAGAGTGTAAAACAAAACATTTAAATCATAACGACAAATAATTTTGCGGAGAGCACTGTGGA\n+TACGGAATTGTTAAAAACTTTCCTGGAAGTTAGCCGAACGCGTCACTTTGGTCGAGCGGCTGAATCGCTC\n+TATCTGACCCAGTCAGCAGTGAGCTTTCGAATCAGACAACTGGAAAATCAACTGGGTGTGAACCTTTTCA\n+CCCGCCACAGAAACAATATCCGTTTAACCGCTGCCGGTGAAAAACTACTGCCTTATGCAGAAACGCTCAT\n+GAGCACCTGGCAGGCCGCCCGTAAGGAGGTGGCGCATACCTCACGACATAACGAGTTTTCTATCGGTGCC\n+AGCGCCTCGTTGTGGGAATGTATGCTTAATCAGTGGCTGGGACGCTTGTATCAAAATCAGGATGCCCATA\n+CAGGCTTACAGTTCGAAGCGCGAATTGCCCAACGGCAGTCTCTGGTAAAACAGCTGCATGAACGCCAGCT\n+TGATCTTCTTATTACCACTGAAGCGCCCAAAATGGACGAATTTAGTAGTCAGTTGCTGGGATATTTCACT\n+TTAGCGCTTTATACCAGTGCCCCTTCAAAACTAAAGGGAGATCTTAATTATCTGCGACTTGAGTGGGGGC\n+CAGATTTTCAACAGCATGAGGCAGGTTTGATCGGTGCTGACGAAGTGCCCATTCTGACAACCAGTTCTGC\n+TGAACTGGCACAGCAACAGATTGCGATGCTTAATGGTTGCACCTGGCTACCCGTCAGCTGGGCGCGTAAA\n+AAAGGCGGCCTGCATACCGTTGTCGATAGCACAACACTTTCACGGCCGCTTTATGCCATATGGCTGCAAA\n+ATAGCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGA\n+ATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAG\n+CTTTCGCTAAGGATGATTTCTGGCAGG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.001.marker.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.001.marker.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,8 @@ +>out.001.TIGR00092 +MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKPQRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVNPADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRALDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAVEADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGATAPQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFLFNV +>out.001.TIGR00418 +MPVITLPDGSQRHYDHAVSPMDVALDIGPGLAKACIAGRVNGELVDACDLIENDAQLSIITAKDEEGLEIIRHSCAHLLGHAIKQLWPHTKMAIGPVIDNGFYYDVDLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEARETFANRGESYKVSILDENIAHDDKPGLYFHEEYVDMCRGPHVPNMRFCHHFKLMKTAGAYWRGDSNNKMLQRIYGTAWADKKALNAYLQRLEEAAKRDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGTVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLKQLEE +>out.001.TIGR00810 +MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLATLFFIISLVLGNINSNKTNKGSEWENLSAPAKTEQTQPAAPAKPTSDIPN +>out.001.TIGR01024 +MSNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERLN |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.002.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.002.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,2186 @@\n+>contig-201_29\n+GAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTAT\n+GATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGT\n+TGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCACTATACTTG\n+GTCAACGCAACGGTATAAATAAACTCATCAAATGGTAGTGTTTCGATTTCAAGTATTGGTATTGTCAATA\n+AATCTTGCGGTAACCCGGTAAATATAATCCGATAATTTTCAAAGTGTGTTTTCACTTCTTGATATATAAC\n+TTTTATTTGCTCAAACGTAAGACGGCATATTTTTTTTGCACCTAATGGATTAATAATGACTATTCTTGTA\n+TCTCCAATAAATTCTTTTATTTTATCTTCAACATCTACTGGTAAATGCAAGTCGTAGTTGGTGGAAAATT\n+TACCCTCACCATAAATATGCTTCAGTATTTCTATTGCTCGTGTACTCATATGTTCTTTTAAACATTCATC\n+GTGGGGATGGTAAAATGAATAGTAACGCTTATACCAATGATCAAAACCCAGAATGTAAGAATCTTTTAAA\n+CTTGATAATATTAAGCTATGCTTAAATGAGGGCATAGTTTCAAAGGGGTCTAATACAATATCGAACTGTA\n+AATCCCGCAGATGCTTACATAGAGTAAGCATTTCAAGAAAACCGGTTGATTCTTTAATACAGAACTCAAA\n+TATATTTTTATTATTAGAGAGAAATTCCCCACCCTTTCTATTTGTGAGAAGAGTTATTTTAACCCCTTTA\n+CTATAAAGTTCACGATAAATCGAACTTAATACAATTAGATCACCAAGTTTATTATTATCATGAATAATAA\n+GGCATGATTTAACTTGTGCTGGATCTGTAATTTGATTATTTATTTTATTACGAAATAAAAAAGAAAGGAA\n+ATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCA\n+TATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCATTTTTTTTCT\n+TGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATA\n+GCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATCATGCATAAAACGAAAAAATGGCA\n+ATATTTTGAATAAATCCCTACTTAATTCCGAGGGCATGGGATTTTTATTCTCATCATAGAAACGAGAACA\n+GCTACCCGTTAAATCAAGACCAGAACAAATAATCCGCGCATACTTAAGTGAATATGCGATTTGAATTGCA\n+GCAAAGGCAATAGTATGGCATGAGCAATAACCAAGACTAATGTCCTTGCAAAATCCAACCAGACGACCTT\n+TTTTAGACAACGGTACAGAGATCAGCAGTTCTTTGTGAATCTGTCTCAAAATATTAAATTTAATCTTCTT\n+TATAAAACCACCTTTTTCCCGACGGTAAAAGGACCGTAATACGAGGCAGTTCTGGAGGATATAAAGTTTA\n+TCTTCTTTGGAAGCGTGTTCATAAACGTCAACGTTTACTATGGTATAACGACTTCTCTGGCTAAATTTAT\n+AAAAATCATCACGACGCTGATGTAAAAATCGGACATCTGTAAGTACATATATAAAAGGAACGATATTATT\n+ACTTAACAGATATTGCGCAGAACCATTGACAGCAATAATATCCTTTGTTCGTAATACTGACAAAGGTGTT\n+TTTTGCGATGTAGGGCCCGAAAGAAAAATAATAACATCATCAGATATTTTATTTTCAATCAGGTTTTCAA\n+CATCTTTTTTGTCAATGTATCTAATATTCTTCATGATAAACCTGTGAAATAAATAACTCCGCTTAAAACT\n+GTCCTGGTGAAGACATGTAATTGTGGGATTTTTTTTAGCGCGCTGGTTTCCCTTTCAAACGCCGCATAAA\n+ATTGCGCATTTTTTTACGATATACTAAAAGATAATAGCCTAGATCTCTAATCTCATTTTTAATACCGTAA\n+TGACGCTCTAAGTCAATACGATCTTTCGCTTTACGCTGCGCTGAAGCACGCTTTCCGGAGAGATCGATAA\n+TTCGAACCTCACCATTTTTTATAATGAAGTTACCACGATGGGGGTCGCCAGAAACCATGCCATGTTGATG\n+TAAGGCATTAATTGATTGCTGAATTTTATTTTTTAGCGCATCATCAATATCGGGCATATCACACAACTCT\n+ATGCCATCAATATACTCGATGATCATGATATAAGTATGGACAAAACGTAAGGTTTTCCGTTCAGCCAATA\n+AATAAAAGTCATTGAGTGTATTTAACCCTTCATTTCGTACTTTTTGGGTTTGCTCAAAAAGGCGTTCGTA\n+ATAATCACCTTTTAACAGAGACTTAAAGAAACGTTCGTTACGCTTAACTTTCGGAGAAAAAACCTTAAGA\n+ATCAATTTACCGTAATCGGTATCAATAAGCATAACTTTTGTATCATCAATAGAACGAAAAACCTTGATGA\n+TATTTATATTATAAGACAAGAAGTCATTTAATACATTGAGGTACTTTGAATTGTTTTCATCGGTAAAAAC\n+AACCAAGTCTTTGATCTTGCTCTTCTGAATCATAATAAACCAGTTAAATGTTATTTACGGTAATATTTTC\n+GGCAAAGATAACAGACTCCTGCTATAATTCCTGAGATATAATGATGTTGCACTAAAAGATGTTTATATCT\n+TTTTTTAAATTCAATAATTGATTTCGCATCTCGTGGAGAGTCATCTTTCCAGGGGGAATTTTCTAAAGCT\n+ATTTTATAGTATTTTACCGATGGATAAATTGCCCATTTGTGCCACGGTTTAGTTGCACCTGTATAATGAA\n+TAAGAAGAGTACTTTCTGTAATCAGCTTTTTATAGTTTTGATGTGTTTTGTCTTTTAATTCACTTTTAAT\n+TGTATAAATTGTATTGTACTCACGAGGCAAAAATAATGTCATCCCTTTCAGTAAGACATTCATAACATCC\n+TGATCAGGGTATTTATAAACATTATCTTTACTCATAAGAATAGACAACGCTTTTTCTGTTAGTTTTGCGT\n+CAGCCCATTTTTTTAAGTCTAAATAAACGACACCGGAATTAAAGTACTGCCCAAGTAATTCAGGATCAGA\n+CAACCTGGATACCGCCTTTTCTTGCATTGGCTCAACATCTTTAACAACAGCAGCAACCGCTCCATTTAAA\n+CCCAGATGTAATAGTTGGCTAATATCGCCTTTACAAACAACATCTGCATCAAGATAAAGCAAACGATCAA\n+GCGTTAAACCCAATAATTGAAATGCAAATAAACGGAAGTACATTGCTCTTGACCAGACCTGTGTACAAGG\n+CAAGCACTGGAGCTTATCAGTGTTAATTCTATATAACGTGATTCTTAATTGGTTTTGCTCTGCAAGCTTT\n+GCAATTTTTTGAAAAAAACCATCATTATAAACATCAGCAATAATATAAAAATCAAGATTAATATGTCGAT\n+TATTTAGGACAATTGATGTGATGGAAACACCTACACCATCAAGATAATTAGCATCGACACCATAGGCAAC\n+ATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATG\n+GCAGGAAATGAGTCCACAATGCTACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCT\n+TTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGC\n+GCT'..b'TGCATGATTATTTATGATCTCAATTCTGCATTTTGTCAGTAAAATGC\n+>contig-201_940\n+AGCGTTACGTGATCTTTCCCTGCAAATGGAACGCAAAATAAACACCTATTCCATGAGTTATATAATTTTT\n+CACAATGATTAATTTGTTTTCTCAGGAAGAGATTTTATTTCTCTTCACTACGAATTAGTTCATGCTGTAT\n+CTTTATTAAACATTCGTAAGACTCATTTTTGTTCGGGAGATGTGCTGTCATTCGAGCATAAGTTGGTTTC\n+TCATCTTTAAAATATTTTACCATGATTGAATTATCAAGGACTGCCAACAACTGAACTGGATCACTGCTCT\n+TTTTTTGATAGATACCCGCTCTTATATAACTTCTAAACCGATCGCCGAGAAACGCCGTTTTTTCTGCTGT\n+ATTTATCAACTCCTGCAACGTTCCTTTGATGGCATGATTTTCATTAAGGCGTAGTGACCCGACGCGAATT\n+AAGAGTCTCGCCCCGCTTGGTGTGAATTTATTATTTTTACATGTACCCAGTTCTGTTTGCCAATAATACT\n+CACCGATGTCCTCATTCTGATACCATCTCCACATGGCTTTATTATTTAAGACAGGAAACGCGGAAAAAAT\n+AGTACCCTTAGCGAAAATAGTAAAACAATCATGATCTTTAGCTTGTATTTCGCAATCAGCTATAACACCA\n+AAACTAACAAATATCATCAGCAAAAAGAACAAAACTCTTTTCATTTTCTTATTCCTCTCGATGTTCTCTG\n+TTTCATCTTAGCTAAAATTTCACCCAAATCATCTATCCCTGCTGTTGCTGGCCCATCGGGTTTATTAATG\n+TCTGGGAATAAATAGGGTTCTGCACAAGTATATCCTGGTGGTAATTGAGTTGTTGGCCAATTTGTCTGTG\n+GCAGGTAATCACTTGCTGTCTTTGTATCCATCCCTGGATACTGGGAATCATCCTGTGGCGTACAAGTCAG\n+ATTTGGTTTTACCCACTTCCTGCAATACAGTGTGTAGTCGTAAGGGCTTAATGCTCTGAAGAATGTTTTG\n+AAAACATTAGGCGCACTACTGGCCTGGTCAATAGGATATGGCAGTCTTAATTGTTTCGCTATGTCCGGCA\n+ATTTACTTGGATCGGGCGTAGGCGGTTTGTTGGGTCTCGCTCCATATCCGCCATTATTTAAGTGTCCATA\n+TTTTGATGCCAGTCCCATTGAATCTATATACTGAACCGGATTCAGCGGATACTGATAAAAATTCCATCCC\n+CCCTTCAGCCCAATCGGATCCTGAGTGATATACCTCCCCTGCAGCGGGTCATAATAGCGGTGGCGGTTGT\n+AATACAGGCCGGACTCCTCATCATACTGCTG\n+>contig-201_950\n+GGATCTTAGATTCTGTGCTTTTAAGCAGAGATTACAGGCTGGTTACGTTACCAGCTGCCGGGCCTTTAGC\n+GCCGCTTTCGATGGTGAAGGACACTTTCTGACCTTCGTCCAGAGATTTGTAACCATCGTTCTGGATAGCA\n+GAGAAGTGTACGAACACATCTTTAGAGCCATCGTCAGGAGTGATGAAGCCGAAGCCTTTGTCAGCGTTGA\n+ACCATTTTACGATACCAGTCATTTTACCGGACATAGTGTATTACCTTTAATAATTAAGTGTGCCTTTCGG\n+CGATATGGCGTGCTTTACAGATTTTGAAGCGTTAAAGGAATGTGCACTACGAGGGGTATCAACGATAACT\n+CTTGAAGGGACTTGCCTTACTACACTGCTTTAATGGTCTGTACGTCAAACCGTTGATGTGCATTAAGCCA\n+CGCATTGGCGGGTGATGCAACAATTATTTTTCATATTTATGATTAATCGGTTGGAAAACGGTCCTGTCAT\n+CAGGACCGTAAACAGCAATAAAGTGGATAAAAGTCTATTCCATCAACTGCTTACTTAATGCCGGGTTGGC\n+TTGAATCAAACGCATCAATTTTAGTTCGGCACTTGAAGGCTTCACGCGTCTGGATTCCCATTCCTTTACC\n+ATGGCGACTGATACGCCCAAAACCCGGGCGAAATCATCGATTTTTAATCCTGTCCCTTTTCGTAACTGCT\n+CAATTTCGGTACAGGACGTTGTTCTGTGCGTCAGGGTAATTTTCTGCGTTTCATCTTTAAAAACAATCTG\n+TTCCAGGCTGCTCAACAGCTCATGCATTGGATCTTTATATTCCATTGAAAACTCCTCAAATCACACTGCG\n+GGATCGTGAATTGCATCGAAGCTCATTAAGAATAGTCGGGAAAAGCAGACACAGCGGGGTGAAGTCAGGG\n+CATGCTCTGGCTATGATTCGATTCAGCCTGTCATTTAGCGTGACTTATAGCCACCTAACGATCTGATAAA\n+TGCCGATATATCTCTTACCACTCCTGTTTTGTAAAGATTTCGAAAATCTAACCTTCTGCGAAGGCGTAAA\n+TCTCTGGCTACAAAAAAGGCAACGGCACTATCATTTTTTAACAATGAAACAACAAATTAACCTTGTTTCA\n+TTTTCTCCATGATTTTACCAGGAAGATTACGTAGAAAGGGTATCCTGCAAGCCTGTCCTGGACTATCCTT\n+GTCACGTCAGACACGCGTGTGTCGTTGTGCGCTTTTTTTGGGTGAAAGGAGTAAGAAAATGGCGACAGG\n+>contig-201_955\n+TGGCCCCCTTTCCAGGTGACCGTGTAATCTGAACTACCCTTTGGTATCTTCAGTGCCTGCCTGCAGGCTG\n+AGGTGTTGCCCTTACAAATGCAACAACGACATGGATTACAACACCCTCATAAACAAAGGGCAATCACCTG\n+ATCTAAGCTCTTACCTATGACAGTGATAGGTTATGCCTTTTACTCGACTTTTGCACTGACTGAAAAGGAC\n+AAATTAATGTTAAAAAAGATACTTTTACTGGCTCTGCTTCCTGCAATCGCCTTCGCAGAGGAACTTCCTG\n+CTCCAGTAAAAGCGATTGAAAAACAGGGCATTACAATCATCAAAACATTCGATGCCCCCGGAGGAATGAA\n+AGGTTATCTCGGAAAGTATCAGGATATGGGCGTCACCATCTACCTGACTCCAGATGGTAAGCACGCTATC\n+TCTGGTTACATGTACAACGAGAAAGGTGAAAACCTGAGTAACACACTTATCGAAAAAGAAATTTACGCAC\n+CAGCCGGACGCGAAATGTGGCAACGGATGGAACAATCCCACTGGCTCCTCGACGGTAAAAAAGATGCGCC\n+GGTCATTGTCTACGTCTTCGCCGATCCGTTCTGCCCATATTGTAAACAGTTCTGGCAGCAGGCGCGCCCG\n+TGGGTAGATTCTGGCAAAGTGCAATTAAGAACATTGTTGGTTGGGGTTATCAAGCCAGAAAGCCCGGCGA\n+CAGCAGCGGCAATTCTTGCCTCCAAAGATCCCGCAAAAACCTGGCAACAATATGAAGCCTCTGGTGGCAA\n+GCTTAAGCTAAACGTGCCTGCAAACGTAAGTACAGAGCAAATGAAAGTGTTAAGTGACAATGAGAAACTG\n+ATGGACGATCTGGGGGCAAATGTCACGCCGGCTATCTATTACATGAGTAAGGAAAATACGCTACAACAGG\n+CCGTGGGGTTGCCCGATCAGAAAACGCTTAATATCATTATGGGGAATAAATAAAAGGTAATTCATGGATG\n+GTTGAACTATATCCCTGCTTTTCAACCATCCTAAAAAAGCATGAATTGCTCGCTCTGCCCTAAGTGGCTG\n+TGCTATTTTAGAAAAACTTAATCCTGAGTTAAGCAAAAAAACATAATCAATAAAAATATATACGCAAAAA\n+ACATTGATTAAGTGAATATATCATGGAAGAAAAATATAACCGGAGTAGTGTATGGCCAATCTCTACGACT\n+TGAAAAAGTTCGACTTAAATCTTCTTGTCATATTTGAGTGTATTTACCAG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.abund1 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.abund1 Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,236 @@ +contig-201_100 10.0483036227717 +contig-201_103 10.4792113995706 +contig-201_109 10.5951955529085 +contig-201_114 10.1189427312775 +contig-201_119 11.1817996742671 +contig-201_122 9.84835390946502 +contig-201_123 10.0651769087523 +contig-201_125 10.7371808179365 +contig-201_126 10.1927310488058 +contig-201_132 9.99578770008425 +contig-201_140 11.8097592433362 +contig-201_143 9.2919455841071 +contig-201_151 10.6901439162669 +contig-201_156 16.047619047619 +contig-201_162 10.0604567845947 +contig-201_163 10.6779775280899 +contig-201_165 10.2735870299482 +contig-201_170 10.6238677536232 +contig-201_171 9.66833257610177 +contig-201_177 9.95110192837465 +contig-201_18 9.66596565019278 +contig-201_188 10.5986903648269 +contig-201_19 9.77999062792877 +contig-201_193 9.41183431952663 +contig-201_2 11.2932163046712 +contig-201_205 10.8216295571324 +contig-201_219 10.9125751503006 +contig-201_221 9.079456877043 +contig-201_223 9.71570121951219 +contig-201_225 10.4176635276152 +contig-201_229 10.7303457106274 +contig-201_230 9.82517303255575 +contig-201_234 10.2354155911203 +contig-201_239 10.5213430504945 +contig-201_242 10.924464192368 +contig-201_245 10.0052673163023 +contig-201_249 10.086876155268 +contig-201_250 9.36224219989424 +contig-201_252 10.6196660482375 +contig-201_253 28.5196286472149 +contig-201_258 9.87939833467634 +contig-201_260 10.638418079096 +contig-201_262 9.12540453074434 +contig-201_266 9.86262241566921 +contig-201_269 10.088517402028 +contig-201_27 10.21198336366 +contig-201_272 8.72764786795048 +contig-201_282 25.3983739837398 +contig-201_285 10.9570621468927 +contig-201_286 10.087620124364 +contig-201_29 10.4003450106157 +contig-201_292 10.0156784492588 +contig-201_295 9.90841654778887 +contig-201_30 15.7308001070377 +contig-201_303 10.1399766218586 +contig-201_305 10.6149341142021 +contig-201_311 9.75299043062201 +contig-201_313 9.08580858085809 +contig-201_315 16.765681544029 +contig-201_321 10.4130829800121 +contig-201_330 8.33675373134328 +contig-201_332 9.38154613466334 +contig-201_333 10.9499687304565 +contig-201_339 9.52913385826772 +contig-201_343 9.55541441727533 +contig-201_351 9.25497113534317 +contig-201_352 12.2714101738571 +contig-201_357 10.5730081300813 +contig-201_359 9.8930081300813 +contig-201_366 10.5828665568369 +contig-201_368 10.1939755047997 +contig-201_371 12.8882215548882 +contig-201_376 10.102157788267 +contig-201_377 9.71317567567568 +contig-201_382 9.04791238877481 +contig-201_39 10.4600701754386 +contig-201_390 9.93353994490358 +contig-201_394 10.1849030470914 +contig-201_398 10.178596247394 +contig-201_401 9.71203638908328 +contig-201_402 9.81140657802659 +contig-201_404 10.6093366093366 +contig-201_406 10.6410978184377 +contig-201_408 10.5934530095037 +contig-201_411 9.83786647827623 +contig-201_412 9.8696113074205 +contig-201_417 10.2807829181495 +contig-201_423 10.6444444444444 +contig-201_429 10.2130371449381 +contig-201_431 10.3230316409124 +contig-201_434 9.97744082840237 +contig-201_44 16.7263474770642 +contig-201_447 9.71740768651093 +contig-201_448 9.72209653092006 +contig-201_449 9.26442851754055 +contig-201_459 8.52840259245139 +contig-201_464 11.4007766990291 +contig-201_465 8.2289156626506 +contig-201_471 11.0184893784422 +contig-201_475 9.54829770387965 +contig-201_477 10.3786138613861 +contig-201_48 10.7450922509225 +contig-201_480 25.2854864433812 +contig-201_483 9.03528468323977 +contig-201_484 10.0991569650743 +contig-201_495 9.98851988519885 +contig-201_504 9.30788381742739 +contig-201_507 10.3704781704782 +contig-201_508 11.3304203079484 +contig-201_515 10.3013008812421 +contig-201_516 10.1732548359966 +contig-201_519 10.1124210526316 +contig-201_528 9.29434447300771 +contig-201_534 8.86960313999128 +contig-201_539 9.87609841827768 +contig-201_540 9.43227792436236 +contig-201_548 11.7796081923419 +contig-201_55 10.8483426668685 +contig-201_557 9.3613369467028 +contig-201_558 8.55515370705244 +contig-201_559 10.5521305530372 +contig-201_560 9.5265306122449 +contig-201_561 9.86000911992704 +contig-201_563 9.20054819552307 +contig-201_566 11.7594123048669 +contig-201_567 10.4967860422406 +contig-201_569 9.78903730999539 +contig-201_571 10.623730378578 +contig-201_573 10.4485634847081 +contig-201_575 8.82311977715877 +contig-201_577 11.9446788560713 +contig-201_582 10.9886739027843 +contig-201_584 9.35541883577851 +contig-201_585 10.3745265151515 +contig-201_589 10.0463671128107 +contig-201_591 10.6379722620756 +contig-201_596 9.9985549132948 +contig-201_60 10.2119669000637 +contig-201_608 9.88295288975231 +contig-201_609 9.4914924647545 +contig-201_615 10.1020009760859 +contig-201_617 8.84799608993157 +contig-201_618 11.3785504407444 +contig-201_620 9.93851451057551 +contig-201_621 10.2567634038367 +contig-201_63 10.9189624617367 +contig-201_631 10.2543815723585 +contig-201_635 8.51132360342224 +contig-201_636 11.7353830645161 +contig-201_64 9.8240246074146 +contig-201_649 9.53666146645866 +contig-201_653 9.32603025560772 +contig-201_654 9.60574412532637 +contig-201_657 10.648167539267 +contig-201_658 10.2545835515977 +contig-201_659 9.54645669291339 +contig-201_66 10.8223989396952 +contig-201_663 9.97629083245522 +contig-201_666 10.2051687763713 +contig-201_669 8.97142857142857 +contig-201_67 9.84032069483882 +contig-201_670 9.08730158730159 +contig-201_674 8.93833067517278 +contig-201_680 10.6991434689507 +contig-201_687 10.972027972028 +contig-201_690 9.27008086253369 +contig-201_691 9.97510822510823 +contig-201_697 10.0720917531404 +contig-201_702 10.0455293472298 +contig-201_706 8.91964777105118 +contig-201_710 9.75 +contig-201_711 15.5618101545254 +contig-201_716 9.8811771238201 +contig-201_719 10.2357541899441 +contig-201_72 10.4967454607742 +contig-201_725 9.4 +contig-201_727 9.79469825155104 +contig-201_736 9.44348823866896 +contig-201_738 9.84858952216465 +contig-201_74 9.94477894374677 +contig-201_745 9.10208816705337 +contig-201_746 9.72083575159605 +contig-201_747 9.67483946293053 +contig-201_752 9.58264462809917 +contig-201_753 10.1712935617247 +contig-201_765 8.93169562612343 +contig-201_77 10.2923103932584 +contig-201_773 8.85060240963855 +contig-201_774 11.6118143459916 +contig-201_787 9.33599019006744 +contig-201_789 9.64211172498465 +contig-201_790 9.90411800860479 +contig-201_798 9.92861576660459 +contig-201_804 10.6950532247965 +contig-201_805 11.7849529780564 +contig-201_807 11.802135678392 +contig-201_817 9.96246819338422 +contig-201_818 10.8475765306122 +contig-201_826 9.08600770218228 +contig-201_827 12.1618497109827 +contig-201_829 9.87588424437299 +contig-201_832 8.06511927788524 +contig-201_838 9.21558441558442 +contig-201_840 10.4745762711864 +contig-201_844 9.71363339856491 +contig-201_845 10.2992796332678 +contig-201_846 9.80353634577603 +contig-201_847 9.34407894736842 +contig-201_853 9.33928571428571 +contig-201_86 9.74968530839777 +contig-201_863 9.66554734721289 +contig-201_864 8.81384408602151 +contig-201_872 9.4 +contig-201_886 10.356993736952 +contig-201_893 7.87114845938375 +contig-201_898 8.86984352773827 +contig-201_90 9.8601347659807 +contig-201_904 9.52525252525253 +contig-201_905 8.37237888647867 +contig-201_908 13.8620188816267 +contig-201_91 9.92617572001458 +contig-201_922 11.311755952381 +contig-201_926 9.23916292974589 +contig-201_930 8.78931527464259 +contig-201_933 9.6968085106383 +contig-201_934 10.820395738204 +contig-201_935 11.3783371472159 +contig-201_940 10.9442292796282 +contig-201_944 8.78811571540266 +contig-201_947 9.56141732283464 +contig-201_950 8.69261318506751 +contig-201_954 9.07791164658635 +contig-201_955 10.15 +contig-201_956 10.0177419354839 +contig-201_96 10.1921860465116 +contig-201_962 8.56532456861134 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.idba.out --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.idba.out Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,53 @@ +number of threads 1 +reads 21484 +long reads 0 +extra reads 0 +read_length 93 +kmer 60 +kmers 189823 188895 +merge bubble 2 +contigs: 292 n50: 586 max: 2560 mean: 547 total length: 159906 n80: 365 +aligned 14823 reads +confirmed bases: 135234 correct reads: 11116 bases: 300 +kmer 20 +kmers 228328 228212 +merge bubble 14 +contigs: 233 n50: 3245 max: 7554 mean: 965 total length: 224992 n80: 896 +aligned 19152 reads +confirmed bases: 181101 correct reads: 12296 bases: 35 +distance mean 1000 sd 0 +seed contigs 146 local contigs 466 +kmer 40 +kmers 227514 227453 +merge bubble 6 +contigs: 153 n50: 3744 max: 10866 mean: 1506 total length: 230550 n80: 1749 +aligned 19655 reads +confirmed bases: 186149 correct reads: 12597 bases: 5 +distance mean 999.98 sd 0.1398 +seed contigs 119 local contigs 306 +kmer 60 +kmers 225678 225589 +merge bubble 3 +contigs: 121 n50: 3826 max: 10866 mean: 1897 total length: 229604 n80: 1976 +aligned 19732 reads +confirmed bases: 186576 correct reads: 12645 bases: 0 +distance mean 999.98 sd 0.138491 +seed contigs 114 local contigs 242 +kmer 80 +kmers 222596 222502 +merge bubble 2 +contigs: 109 n50: 3826 max: 10866 mean: 2099 total length: 228800 n80: 2256 +aligned 19712 reads +confirmed bases: 186604 correct reads: 12655 bases: 0 +distance mean 999.981 sd 0.138243 +seed contigs 108 local contigs 218 +kmer 100 +kmers 219702 219610 +merge bubble 0 +contigs: 106 n50: 3826 max: 10866 mean: 2152 total length: 228179 n80: 2034 +reads 21484 +aligned 19623 reads +distance mean 999.975 sd 0.155413 +expected coverage 0.0899218 +edgs 60 +contigs: 64 n50: 4891 max: 11700 mean: 3610 total length: 231059 n80: 3499 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.log Thu Jun 28 08:49:29 2018 -0400 |
| [ |
| @@ -0,0 +1,72 @@ +MaxBin 2.2.4 +Input contig: /tmp/tmpES_iZn/files/000/dataset_1.dat +out header: out +Reassembly: 1 +Located reads file [/tmp/tmpES_iZn/files/000/dataset_2.dat] +Running Bowtie2 on reads file [/tmp/tmpES_iZn/files/000/dataset_2.dat]...this may take a while... +Searching against 107 marker genes to find starting seed contigs for [/tmp/tmpES_iZn/files/000/dataset_1.dat]... +Try harder to dig out marker genes from contigs. +Done data collection. Running MaxBin... +Command: /home/berntm/miniconda3/envs/__maxbin2@2.2.4/opt/MaxBin-2.2.4/src/MaxBin -fasta out.contig.tmp -abund out.contig.tmp.reads.abund1 -seed out.seed -out out -min_contig_length 1000 +Minimum contig length set to 1000. +Reading seed list... +Looking for seeds in sequences. + contig-201_2 [11.293216] + contig-201_100 [10.048304] +Get 2 seeds. + +Start EM process. +Iteration 1 +Iteration 2 +Iteration 3 +Iteration 4 +Iteration 5 +Iteration 6 +Iteration 7 +Iteration 8 +Iteration 9 +Iteration 10 +Iteration 11 +Iteration 12 +Iteration 13 +Iteration 14 + +EM finishes successfully. + +Classifying sequences based on the EM result. +Minimum probability for binning: 0.50 +Ignoring 0 bins without any sequences. +Number of unclassified sequences: 0 (0.00%) +Elapsed time: 0 days 00:00:00 + +Performing reassembly. Reads file found. +Separating reads according to the bins... +Reassembling bin 001 +Command: idba_ud -r out.reads.001 -o out.tmp --pre_correction --num_threads 1 1>out.idba.out 2>out.idba.err +Placing reassembled contigs into out.reassem +cp out.tmp/scaffold.fa out.reassem/out.001.fasta +Reassembling bin 002 +Command: idba_ud -r out.reads.002 -o out.tmp --pre_correction --num_threads 1 1>out.idba.out 2>out.idba.err +Placing reassembled contigs into out.reassem +cp out.tmp/scaffold.fa out.reassem/out.002.fasta +Deleting intermediate files. + + +========== Job finished ========== +Yielded 2 bins for contig (scaffold) file /tmp/tmpES_iZn/files/000/dataset_1.dat + +Here are the output files for this run. +Please refer to the README file for further details. + +Summary file: out.summary +Marker counts: out.marker +Marker genes for each bin: out.marker_of_each_gene.tar.gz +Bin files: out.001.fasta - out.002.fasta +Unbinned sequences: out.noclass + +Store abundance information of reads file [/tmp/tmpES_iZn/files/000/dataset_2.dat] in [out.abund1]. + + +========== Elapsed Time ========== +0 hours 2 minutes and 34 seconds. + |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.marker --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.marker Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ + Total marker Unique marker PGK Ribosomal_L23 Ribosomal_L5 Ribosomal_L3 Ribosomal_L6 Ribosomal_S17 Ribosomal_S9 Ribosomal_S8 Ribosomal_S11 Ribosomal_S13 Ribosomal_L10 Ribosomal_L4 tRNA-synt_1d GrpE Methyltransf_5 TIGR00001 TIGR00002 TIGR00009 TIGR00012 TIGR00019 TIGR00029 TIGR00043 TIGR00059 TIGR00060 TIGR00061 TIGR00062 TIGR00064 TIGR00082 TIGR00086 TIGR00092 TIGR00115 TIGR00116 TIGR00152 TIGR00158 TIGR00165 TIGR00166 TIGR00168 TIGR00234 TIGR00337 TIGR00344 TIGR00362 TIGR00389 TIGR00392 TIGR00396 TIGR00409 TIGR00414 TIGR00418 TIGR00420 TIGR00422 TIGR00435 TIGR00436 TIGR00442 TIGR00459 TIGR00460 TIGR00468 TIGR00472 TIGR00487 TIGR00496 TIGR00575 TIGR00631 TIGR00663 TIGR00755 TIGR00810 TIGR00855 TIGR00922 TIGR00952 TIGR00959 TIGR00963 TIGR00964 TIGR00967 TIGR00981 TIGR01009 TIGR01011 TIGR01017 TIGR01021 TIGR01024 TIGR01029 TIGR01030 TIGR01031 TIGR01032 TIGR01044 TIGR01049 TIGR01050 TIGR01059 TIGR01063 TIGR01066 TIGR01067 TIGR01071 TIGR01079 TIGR01164 TIGR01169 TIGR01171 TIGR01391 TIGR01393 TIGR01632 TIGR01953 TIGR02012 TIGR02013 TIGR02027 TIGR02191 TIGR02350 TIGR02387 TIGR02397 TIGR02432 TIGR02729 TIGR03263 TIGR03594 +out.001.fasta 4 4 1 1 1 1 +out.002.fasta 0 0 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.marker_of_each_bin.tar.gz |
| b |
| Binary file test-data/3/out.marker_of_each_bin.tar.gz has changed |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/N50.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/N50.txt Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ +Bin N50 before reassem N50 after reassem N50 improvement +out.001.fasta 3649 5336 46.23% +out.002.fasta 2878 4891 69.94% |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/out.001.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/out.001.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,530 @@\n+>scaffold_0\n+CAAGCAACAGCGCATTCTGGCGCATGATCCGGTAAACACGTTTGGCATTGATCGCAGGCATACCATCAAGTTCTGCCTGTCTGCGAAGCAGCGCCCATAGGCCAGTTCGTCATCCAGTGTTTTCCATGTCTGCTTGTATTCGCGATGAATGGCAGCAATGACCGGGCTGATTTTTCCTGTTGAATTTTCAGTGTACTGTTGATTGGCTCTGGCGCGGGCGAGATCAACAACAGACGTGTATTTTCCGGTTTCCTTGCGTTCACCTTCGCGACGTTTTTTCCAGATGCGCATCTCTGCCTGAATTTCGGGCCATTTAGCACCAGGAATACATTTATGCTTAACCCACCCAATGGCGTGCAACTTAAGCTCCGGATACATGGCGTTAACTTCTGGCATTTTCATCAACGCTTCAACGATATGTCCGTCGAATGTTGCCATGTCTTCCTGCAACAATTCCTGTGCGCTAATAACCATATCAACGGTGATGTTTTCACATGTGTCGAACTTAACCATGACAGCGTTCTGTACTTCAGGGGCCAGCTTGTCAAAAGTGACGTTCATCGGATCGGATTCAGTCTCAACCGGGACAAAAGAAGCAGACTCCTCATCCCAGCGGTTTTCCTGCATATATTCAGCATCCCATGAATCGAGGGCAGGGCGGGGTATGCCAGGTTTATCCTCGCAGACAATAAATTTATAAGCGCAGTCCTGAGCAGCCGGATAATGTTCCAGGAATTGCCAGTGAAATTTTGCTCGAGCACGGCGTTCGTCGCCAGCTTCAATGGCTGTGGCTACAGCCACAGCGCCTTCTTCCCTTGTTGCCAGTTCGTCAGGAATAGCGGCGCAAATAAAGACTTTACTCATTTGTTTTAACCTCATGACAGATTTAAGGATGAACAAATCCCTGCCATTGCTGGCATATAAGAATGAAACCGGATATTTATTACGGAACTGTTTTAAAGACCTGCCGGGATTTCGATATTATCCTGGTGAATAACTTTATCGACCGGGTAACAGTTACCGGGAATTTTCTGTTCGGTTGCTGCAGTCATACACTCCTGCATTGTCCTGTGAACACTGACTGCAATATCAACTGGCTCTCCGGAAACAAGAAAAACTGTCAGAACAAGCACAAATGCTGAATTCATTGTGCACATCCTTTTGGCATCAGACGTAAACGAGCCAGCATTGAAACAATGCATATTTTATTTAATAGCTCCCGTTCTTGTTTTCTCTTGTTAATGGCATCTTCAGTAAATACTGGGTTACTGATAGTGACACCAATTTCAAAACAACCTTCAGACGTATTAACGTTTGGTAATAACGTTTTCATTATCGCGTCCTCAACAATGAATTTTGTGATGCAGTGCCTGGTGCCTCCAGGTGACGTTAACCAGTTAACAATTAACGCCGGATACAGAGAATCCACCCATAACACTGTTTTTGGTTTTAACTGTTCCGCGTGCGCTCAGCCGCATTCACCACATCACAAAATTCACTTTAAAAAGGGCGGCAGAGCAGTCACGGAGTAAAACTGATACCGCCAAACGTCACCAGAAAATTGATAACAGAGGGCGTTGCAGCGGGGTTGTCACTTAAGCGTATGGTCAACCTGACAACCCGGTGTCCTCAACGGGGAAGGAATAACCCCGCCATACTTACCGCCGCGCCATTTCGCGGGTTGCCACAACCGGAAGCGCACGGTCGACGAAAATTTAACGACAGGCTATCTATGAACCAGCTACCTCGCCATGCGCTTTCGCGTTATGGTCTGACTTTTCAGGGAAATATCCTTTCAGTAAACTGTCAGTTCCGGATGCGCACCCGTGTCCGGCGCACGCACTCCACCTCACCCGTGGAGAACTCCTTAATTACTAACCTTAGCTTTGTTGATTAGCTACTAACGCGGGTATGTAATCATTCTGGCAATGCTTAATGCCGCTGCTTTTTCCAGATTGGTGATATCCTGCTCCAGAGCGGACAGATTTTCAGCCTGCTTAGCCCTGGCTTCATTAGCCCATTTCAGATCCTGCGCTGCATTAATTTTCTGGCGCATCCACTCATAAAGTTCATCATCGGTATAGTCTGGCGCGATGATGACGGGTTCTCGTTTCTGCATACTGATTCCTCGCGGTGCTGTTTCGCTTATCAGCCGTTAGATTTTGCCGAACTGGAAAGCGCCTGTTTAAACTCACTGAAGCTGAGAGCTTCTTCGCCTTCGGCAAGGCCTTCGAAGTATTCTTCGTAAGCCTTTTCCATGATTGTGTCGAAATCCATATCACTCACCTGAGTTTCTTTCCAGCCAGCGACGGGCACCATTTTCGGTTTTAAACGTTTTGCTTTTGGTATACGTCATTGCGGTGAACGTGCCGTCCTGGTTTGGAAACACGCCGTACACCAGAGATTCGTTGTTGCCAAGATCGATAGTATCCATGCTGACCTCATTTCCCCTTAACGCTGGGGTAGCGGAACTGTTTGCTGAGAACACCGTGCGGTGTGTTGATGCAAACAAGATTAGCCATGACTAACATATCGGTCAAGTGATTTTGTATGCTATAGCTAACATAATTGATGTGGTAAAAGATAACTCATTGATGATGTTATCTTTTATTTGTCCGCTGACGGGCTTTTAGTAATTCTTCAAAGAGTTTATTGAAGTTTTTTACTCGAGCTCGCATTTCGGCGAGCTGGGTATCCTGTTCTGATTCTGGCAGTGCATTAAACAGCTCAAGGAGCTCTAGTTCTTTGGGGGATAAGGCAACTGGCTTCTCAACAGGTGGTGTTGGTTGCTTGTCTTCATCGCCAAATAGAATCCATGTTGGTGAGCATTGCAATACTTTACTGAGGGCAAAAAGGTTCTTCCCTGTAGGTTCACTATCACCCCGTTCCCATTGTGATACAGACACATGGGAGATTTTCAGGGCTTTAGCAAGAGACCTTTGGGTGTGTTTGAGGTTTTTCCGACGATACCTGATGCGTTCGCCGATAGTTAAATTTTTTGTTTCCATAGTTAGCTAATGCTAAATCGTATTGACTATGTTTTTGTTAACATCTATCTTGTTAGTTATGACTAACAATAAAGGTGTTTTAAATGCTTAAAACTGACGCTCTTTTGTATTTCGGTTCAAAAACAAAACTTGCACAAGCAGCAGGTATTCGTTTGGCTTCGCTTTATAGCTGGAAAGGGGATTTAGTTCCCGAAGGTCGCGCGATGCGTCTACAGGAGGCATCTGGCGGGGAGCTTCAGTATGATCCCAAAGTTTATGATGAATATCGTAAGACGAAGCGGGCGGGGCGGTTGAACAATGAAAATCACTCCTGAACAGGCTCGTGAGGCTCTGGATGCCTGGATATGTCGACCAGGAATGACACAGGAGCAGGCGACGATATTAATCACTGAAGCATTCTGGGCTTTGAAAGAGCGCCCGAACATCGATGTTCAGCGTGTCACATATGAAGGTGGCGCGATTGATCAGCGAGCGCTTGGCGTTAATCGAGTGAAGATATTTGAACGCTGGAAGGCTATCGACACCAGGGATAAGCGTGAAAAGTTCACGGCGCTAGTGCCTGCAATTATGGAGGCTACCACTGGATGATGAAAAGAGTGTCCATGAACGAGTGGATAATGCCCGTATTGATTTACGCTCAAAATACTATGTTAAACCTAAAGCTGACCATCCCTGGCTTACGCGCCGAACGCAAAGTCATCAGCAAGTTAAGCCCCCGAAGTTACCTAAAAAGAAGCCTGATCCCGATAAAAAAGATTGAAACCAAGATCGATTCGGTTGAGTGCATATCCATTCATAGGGTAGATTCTTAAGTCGCGTTTCTGGTGTTCATTTTCGGGTGGTTTGTTACTTGTTTTACCGGGGATATGCCAGAAACGCGCTGAGTCAGTCTGGGCGGTGCGCGTAATGAGGCGTTATGGTAAATAGCCTATGCTAATGTCCGCTAAGAGCAAGAAGCG'..b'GGGACTTGTTCGCACCTTCCTTAGTACTTCCCCCAATAATTGGCTGGTGTTTATGCAAAATGGTCAAGAAGTGGTAATTGATAGCGGTAAAAGCGTTAGCCTCACACTGACAATGGCTCCAGCTTTTAAGGATGAAGGGGAACTAACCGACATGACAGATATTACAGGCAATCTGACGGTCCTGGTGGAGGCAAAATGAACAATGTAAAATTACTGATTGCCGGAAGTGCCTTTTTTGCCATGTCAGCGCAAGCCGCTGATAGAGTATCAATTGACGT\n+>scaffold_249\n+CTCATTTCATTGACGTGGGTTGCGGATGCTTCTACGCCCATATAACTCAAAATGAAGGCAACAAATACTACCAGGGTGCCCACTTTAGAGAAGTCAGGGAAGAAGGTCTTCGAATCCATTTCGATAGCAACGGGGGCACCGGAGTGCAGATAAATAGCCGCTAATGCGATCAAAATAAATGCAGGTAACAGGATACCGGCGAAGAAGCCAACTTTAGCAATTCGCGCCGTGTATTTCGTGCCACCAAACTGCGTTAATGCCAGCGCCCAAAGAATGATGAGTGCTGCAATAGTTTTGGTAATGGGGTCTTCATTCAGCGCTGGCCATTTCAGGA\n+>scaffold_250\n+ATTTTTACCTATCACGTCAGCTATTGTTGATCCAAATGTCTTAGTCATTCGACACATCAAGTAACAATGTCTCATTGCATCGGCGGCCCCATTATGAGCTCCGCCAACAATAGCATCCATATCATAACCGAACTGGTAAGCACTGTTAGTAATGCTGTTTGCAGCAATCAATCCAGGTACACCAGATACGGCATAAATTAGTCCACCTGATGTCATATTCTCAATCGCATCTAACCCCATTGGGTCTATCACTTGTATGGGATTCAACGGATACTGATACATATTCCATCCACCTCTCAACCCAATCGGGTCCGGGGTGATATACCGCCCCTG\n+>scaffold_251\n+CCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAACCGTGTTGATACATCAACTGCACCTGATATTGAGTGGCCTACGAACCCTGTCAGGGAGTAATCATTGGGATTATGCCGCAGCACGTCTTAAGCAAGAACATGCTGCGGTTGGATGCTATTTTTTTCCTGAAGCGGAAAACATTACTACAGTACCTTGAACCTTGGTTTTAACATTCTCGAAATGCTCTGAGAGTATATGTGTTAAGCCTTCT\n+>scaffold_252\n+GCAAAGACGCTACGGAGTCAATCATTAATGCTCTGGCTGTTTCAGATCCTCTAGTTGTTCCGCTGTCATTTACACGCAACTTTGGTAAAGAACCAGCATTGTTTGCAGGGTTAGACCATGCAACCGGGGATGCGATAATCCCAATTGATGTTGACCTGCAAGACCCGATTGAGGTTATTCCTCATCTTATTGAAAAATGGCAAGCAGGTGCTGATATGGTTCTTGCTAAAAGATCTGACCGCTCAACTGATGGACGCCTGAAGCGAAAAACGGCTGAGTGGTTCTATAAGCTCCACAATAAAATAAGCAATCCTAAAATTGAAGAGAATGT\n+>scaffold_253\n+GAGGCGAAGGAGAAAATCCTTGTTGCGGTGGGGAATATTTCCGGTATTGCCAGTGTCGATGATCAGGTGAAAACGGCGACACCAGCCACTGCCAGCCAGTTTTATACCGTTAAGTCTGGCGACACTCTGAGTGCCATTTCCAAACAGGTCTACGGTAACGCTAATCTGTACAATAAAATCTTCGAAGCGAATAAACCGATGCTAAAAAGCCCGGATAAAATTTATCCGGGGCAAGTGTTGCGTATTCCGGAAGAGTAGTTAATTGCCAGCCATCGCCTGCTGGATAATGGGAATTGGCGTCAGTAAATGCTGGCGC\n+>scaffold_254\n+CTTGTTCTGTTTATCCTCGCCAAGCTTGCCGCTGATCATCGACATCGCTATTGTCACCACCAGGATACCCCCGGCGATACGGAACGAATCAATTGATATACCAAAAAGTTGTAGAATCGTGTCGCCGAGAAAAAGCGAGATCCACAAGATAATGGCCACAGACAGGTTGGCTGTAAGGTTAGTTTTGTTTCGCGCTGCCGCTGTCTGATAACTGGTCATGCTGATAAAGACGGGAATAATCCCTACCGGGTTGACCAGCGCAAATAACCCGATGAAAAATTTGAAGTAAACGGGAAAATCAAAAAAGGTCTGAA\n+>scaffold_255\n+TTGATACCGGTGTTTGCGCCGCATCAGTACGTAAGTTTAACCAACTGGCAACTGAGATCGACAACACCGTTGTGCTGTGTATCTCTGCCGATCTGCCGTTCGCCCAGTCTCGTTTCTGCGGCGCAGAAGGTCTGAACAACGTTATCACCCTCTCCACTTTCCGTAACGCTGAATTTCTGCAAGCTTACGGTGTGGCAATTGCTGATGGCCCACTGAAAGGTCTGGCAGCGCGTGCCGTTGTGGTTATTGACGAAAATGACAATGTGATTTTCAGCCAGCTGGTGGATGAAATCACCACCGAGCCGGATTACG\n+>scaffold_256\n+GGCTGGCCACCATTCTCGATACAAAACTCTGCTGAATAGCAGCGATTTTCCCAGCGTGGTGCGTCTTTTGCATTTTACTGGTTCTGAGTTATCAATTATCTGTTCACTAATGACTACTCTAAAAAGTTGTATCAATTTAAGTGATATAGGGAGTCCGGAGATTCACCCTTTTTGGTGATGAAGTTAACAATACCGCCAATTGCCTGTGAACCGTACAGTACGGAATATGGACCTTTCACTACCTCAACACGCTCCAGCGCAGACTCATCTATCAACAGTCCCACACCATAATTATCTCCGGCGCGCTG\n+>scaffold_257\n+ACCAAGAACAAAGAGCAGCAACGCGATCCGGAGATGCATCAGACCAAGAAAGGCAATCAGTGGCACTTTGGCATGAAGGCCCACATTGGTGTCGATGCCAAGAGTGGCCTGACCCACAGCCTGGTCACCACCGCGGCCAACGAGCATGACCTCAATCA\n+>scaffold_258\n+TTAGGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCA\n+>scaffold_259\n+GTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACC\n+>scaffold_260\n+TAAGGAAGGTGCGAACAAGTCCCTGATATGAGATCATGTTTGTCATCTGGAGCCATAGAACAGGGTTCATCATGAGTCATCAACTTACCTTCGCCGACAGTG\n+>scaffold_261\n+TAAGGAAGGTGCGAATAAGCGGGGAAATTCTTCTCGGCTGACTCAGTCATTTCATTTCTTCATGTTTGAGCCGATTTTTTCTCCCGTAAATGCCTTGAATCA\n+>scaffold_262\n+GGGTTTTTTACTGGTTGATACTGTTTTTGTCATGTGAGTCACCTCTGACTGAGAGTTTACTCACTTAGCCGCGTGTCCACTATTGCTGGGTAAGATCAGA\n+>scaffold_263\n+CGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAA\n+>scaffold_264\n+TCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAA\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/out.002.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/out.002.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,128 @@\n+>scaffold_0\n+GCGACATGATGATGTCGCAAAGTCTCTATCGCACGCTCCAGGCGCGCTATCCCCAGGCGATAATCGATGTGATGGCACCGGCATGGTGCCGTCCATTATTATCGCGGATGCCGGAAGTTAACGAAGCTATTCCTATGCCTCTCGGTCACGGAGCGCTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCGCACAGCACAAGATCTGCCGCAGCCATTGTTATGGCCGCAGTGCAGGTGAGCGAAGGTGAAAAATCATATACCTGTAATCAATTTTCGCTTTCATCAGAACGTCCGATGATTGGTTTTTGCCCGGGTGCGGAGTTTGGTCCGGCAAAACGCTGGCCACACTACCACTATGCGGAGCTGGCAAAGCAGCTGATTGATGAAGGTTATCAGGTGGTTCTGTTTGGCTCGGCGAAAGATCATGAAGCGGGCAATGAGATTCTTGCCGCTTTGAATACCGAGCAGCAGGCATGGTGTCGGAACCTGGCGGGGGAAACACAGCTTGATCAAGCGGTTATCCTGATTGCAGCCTGTAAAGCCATTGTCACTAACGATTCTGGCCTGATGCATGTTGCGGCGGCGCTCAATCGTCCGCTGGTTGCCCTGTATGGTNNNNNAGCCCGGACTTCACACCGCCGCTATCCCATAAAGCGCGCGTGATCCGTTTGATTACCGGCTATCACAAAGTGCGTAAAGGTGACGCTGCGGAGGGTTATCACCAGAGCTTAATCGACATTACTCCCCAGCGCGTACTGGAAGAACTCAACGCGCTATTGTTACAAGAGGAAGCCTGACGGATGCGGGTTTTGATCGTTAAAACATCGTCGATGGGCGATGTTCTCCATACGTTGCCCGCACTCACTGATGCCCAGCAGGCAATCCCAGGGATTAAGTTTGACTGGGTGGTGGAAGAAGGGTTCGCACAGATTCCTTCCTGGCACGCTGCCGTTGAGCGAGTTATTCCTGTGGCAATACGTCGCTGGCGTAAAGCCTGGTTCTCGGCCCCCATAAAAGCGGAACGCAAAGCGTTTCGTGAAGCGCTACAAGCAGAGAACTATGACGCAGTTATCGACGCTCAGGGGCTGGTAAAAAGCGCGGCGCTGGTGACGCGTCTGGCGCATGGCGTAAAGCATGGCATGGACTGGCAAACCGCTCGCGAACCTTTAGCCAGCCTGTTTTACAATCGTAAGCATCATATTGCAAAACAGCAGCACGCCGTAGAACGCACCCGCGAACTGTTTGCCAAAAGTTTGGGCTATAGCAAACCGCAAACCCAGGGCGATTATGCTATCGCACAGCATTTTCTGACGAACCTGCCTACAGATGCTGGCGAATATGCCGTATTTCTTCATGCGACGACCCGTGATGATAAACACTGGCCGGAAGAACACTGGCGAGAATTGATTGGTTTACTGGCTGATTCAGGAATACGGATTAAACTTCCGTGGGGCGCGCCGCATGAGGAAGAACGGGCGAAACGACTGGCGGAAGGATTTGCTTATGTTGAAGTATTGCCGAAGATGAGTCTGGAAGGCGTTGCCCGCGTGCTGGCCGGGGCTAAATTTGTAGTGTCGGTGGATACGGGGTTAAGCCATTTAACGGCGGCACTGGATAGACCCAATATCACGGTTTATGGACCAACCGATCCGGGATTAATTGGTGGGTATGGGAAGAATCAGATGGTATGTAGGGCTCCAAGAGAAAATTTAATTAACCTCAACAGTCAAGCAGTTTTGGAAAAGTTATCATCATTATAAAGGTAAAACATGCTAACATCCTTTAAACTTCATTCATTGAAACCTTACACTCTGAAATCATCAATGATTTTAGAGATAATAACTTATATATTATGTTTTTTTTCAATGATAATTGCATTCGTCGATAATACTTTCAGCATAAAAATATATAATATCACTGCTATAGTTTGCTTATTGTCACTAATTTTACGTGGCAGACAAGAAAATTATAATATAAAAAACCTTATTCTTCCCCTTTCTATATTTTTAATAGGCTTGCTTGATTTAATTTGGTATTCTGCGTTTAAAGTAGATAATTCGCCATTTCGTGCTACTTACCATAGTTATTTAAATACTGCCAAAATATTTATATTTGGTTCTTTTATTGTTTTCTTGACACTAACTAGCCAGCTAAAATCAAAAAAAGAGAGTGTATTATACACTTTGTATTCTCTGTCATTTCTAATTGCTGGATATGCAATGTATATTAATAGCATTCATGAAAATGACCGCATTTCTTTTGGTGTAGGAACGGCAACAGGAGCAGCATATTCAACAATGCTAATAGGGATAGTTAGTGGCGTTGCGATTCTTTATACTAAGAAAAATCATCCTTTTTTATTTTTATTAAATAGTTGCGCGGTACTTTATGTTCTGGCGCTAACACAAACCAGAGCAACCCTACTCCTGTTCCCTATAATTTGTGTTGCTGCATTAATAGCTTATTATAATAAATCACCCAAGAAATTCACTTCCTCTATTGTTCTACTAATTGCTATATTAGCTAGCATTGTTATTATATTTAATAAACCAATACAGAATCGCTATAATGAAGCATTAAATGACTTAAACAGTTATACCAATGCTAATAGTGTTACTTCCCTAGGTGCAAGACTGGCAATGTACGAAATTGGTTTAAATATATTCATAAAGTCACCTTTTTCATTTAGATCAGCAGAGTCACGCGCTGAAAGTATGAATTTGTTAGTTGCAGAACACAATAGGCTAAGAGGGGCATTGGAGTTTTCTAACGTACATCTACATAATGAGATAATTGAAGCAGGGTCACTGAAAGGTCTGATGGGAATTTTTTCCACACTTTTCCTCTATTTTTCACTATTTTATATAGCATATAAAAAACGAGCTTTGGGTTTGTTGATATTAACGCTTGGCATTGTGGGGATTGGACTCAGTGATGTGATCATATGGGCACGCAGCATTCCAATTATCATTATATCCGCTATAGTCCTCTTACTCGTCATTAATAATCGTAACAATACAATTAATTAAGAATAAACAAGTTTAAGAAGTGAGTTAAAACTCACTTCTTATCTATACAACTTAATCTCTTTACTGAATTAGTTAAAGTTTCAGTATCGATATCTTTTACCGTATATGTTGGGGATACTATTTGTATAGATTTATGATGATTCGGGGACCAAATTAAATGCGAGGGATATTCCGGAGTACGTGAATTAGGGTAAAATGCAAGCGTTGGTTTATGATAAGCCGCAGCGATATGAACAAGAGCTGTATCAACAGAAATGACAAAATCACTATACTTGGTCAACGCAACGGTATAAATAAACTCATCAAATGGTAGTGTTTCGATTTCAAGTATTGGTATTGTCAATAAATCTTGCGGTAACCCGGTAAATATAATCCGATAATTTTCAAAGTGTGTTTTCACTTCTTGATATATAACTTTTATTTGCTCAAACGTAAGACGGCATATTTTTTTTGCACCTAATGGATTAATAATGACTATTCTTGTATCTCCAATAAATTCTTTTATTTTATCTTCAACATCTACTGGTAAATGCAAGTCGTAGTTGGTGGAAAATTTACCCTCACCATAAATATGCTTCAGTATTTCTATTGCTCGTGTACTCATATGTTCTTTTAAACATTCATCGTGGGGATGGTAAAATGAATAGTAACGCTTATACCAATGATCAAAACCCAGAATGTAAGAATCTTTTAAACTTGATAATATTAAGCTATGCTTAAATGA'..b'CGATACTTCACAACCTGCATAATATCTGCACAATAATTTTTCTCGAACTCCTTTACCTGAATACATTCGTCACTGGAAATCAGATAAGGACCGACATCGTACAAATAAGAGGGGGAAACCGAGTCGGCGTAAGCTGTGCGCAAACCAACCAACAGCTGTTCCTCCGTGGGATTTAGCGTGTTGATAAGATCAATTGCCACGCTACGCCGATATTCAGCAATATTTGCCACCGCAAAAGCAGTATCAATAACGGACTGTTTCAGGCTATACACCCGTTCCTTTACCATTTGAGTGTAGATCCCGCAGGCAACTGCTGAAATCATGATAAAAATCAGCAGACTGACTGTAAGTACGAACTTATTGATTCTGGACATACGTAAACTACTCTTTT\n+>scaffold_53\n+ATCGATGGTTGCTGTCAACTGACTATGGTGTAACGATTCGCGTCGTCCCCACAGCGTCATTGTCAACGACGTACCAACTGATCCTGACAAGGTACGAAAAAAATTACTCATACTCGAGGCATTGGCAAATTTATTATCTGGCAAGCCTGAAAACGAAATCGTTGTTAAGGGTAAAAAGAAACAGGCAACGGCGAATCCCTGAAAAAACTGCGGCAAAATGATGCCTGTAAAATCAATCGTTGGCATAAATGTCACAGAACGCCAGTAATAGCAAACCGCATACATCAAAAAACTAAATGTCACTAACAACCGCATGTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGT\n+>scaffold_54\n+CGGTACCATTACGACAGTCAGCACCGGCTGGTGCACTACACGCGGACACAATATGCAGAGCCGCTGGTCGAAAGCCGCTATCTTTACGACCCGCTGGGCCGCAGGGTGGCAAAACGGGTGTGGCGACGTGAACGGGACCTGACGGGCTGGATGTCGCTGTCACGGAAACGCAAGTGACCTGGTACGGCTGGGACGGCGACCGCCTGACCACGATACAGAACGACAGAACCCGCATCCAGACGATTTATCAGCCGGGGAGCTTCACGCCACTCATCAGGGTTGAAACCGCCACCGGTGAGCTGGCGAAAACGCAGCGCCGCAGCCTGGCGGATACCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACC\n+>scaffold_55\n+TCTTTTACTAATTTTCCACTTTTATCCCAGGCGGAGAATGGCATGGGTTTCTGGTACAGATACCCCTGAGCCTGAACACATCCTAATTTGATTAATTCGCGCGCAACGTCTTCGCTCTCTACGCCTTCCGCAATCACCGGGATCCGGTTATAGCGTGCCAGGTCGAAAATAATGCGCACAATTTTTCCCGCAGTACCGAAAATATCGCCGGTGAATTGCGAGTCCACCTTTATGCTGTCTGGATTAATTTCATAAAAACGTTTCAGGTTTGACAAACCGGTGCCAAAGTCATCAATCGATATCCGTACCCCTTGTTTACGCAGTTGTTCAATATTGAGATAAAAATGTTCATTAATTCGCTCGATCACGGTTTCAGTGAT\n+>scaffold_56\n+ACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCTGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCA\n+>scaffold_57\n+CGGATGGGTTCTTCTTTAAAATAAACCCCCATGTGATTCAATATTGCAATAACGTTCATAGTCATATCTCCAGGTAAAAAAGGCCCCTCCCAACACATGGGACAAAATGAAAGGAGGAGCCTCGGAAAATACTTTTAATTAATGTGCGTTAGACGCGGTGTGGTTATCCATTGAGTGGCTCTGGCGCTCGTGCATTTTGCGAGCGTAGAACATCAGGATAATCAGGCTGACGATGAAGGTACCTGCCAGCTCGAAGGAGCTTGCGCCCATCAGCGCGATGAAGCAGAACACGCAACCCAGTACAGAGCAGATCAGGCTGACAAAGTTGCGGATGTT\n+>scaffold_58\n+AACCACTGTTGATGGAAAAGATTCCACGGGTACCAAAATCGCGGGCAATATCGGCATTGTAAATCTGGATGGTAGCCTGACTGTTACAGGCGGTGCGCATGGTGTTGAGAACATTGGTGACAACGGCACGGTTAACAACAAAGGAGATATTGTTGTTTCCGATACTGGATCGATTGGCGTGCTCATCAACGGTGAGGGGGCAACAGTATCCAATACGGGTGATGTTAACGTTAGCAATGAAGCGACAGGGTTCAGCATCACAACCAACAGTGGGAAGGTTTCGCTGGCAGGCAGTATGCAGGTTGGCGATTTCTCGACCGGGGTAGATC\n+>scaffold_59\n+TGTTTGACTGCGGTGAAGGCACCCAGCATCAGCTACTGCATACCGCCTTTAACCCTGGAAAACTGGACAAGATTTTTATCAGTCACCTTCATGGCGATCATCTTTTTGGTTTACCCGGCTTGCTGTGCAGTCGTTCTATGTCAGGCATTATCCAACCCTTAACGATTTATGGTCCGCAAGGTATCCGTGAATTTGTGGAAACCGCGCTGCGGATTAGCGGCTCATGGACCGATTATCCGCTGGAAATTGTCGAAATTGGCGCTGGCGAAATTCTCGATGATGGCCTGCGCAAAGTAACCGCTTATCCGCTGGAACACCCACTG\n+>scaffold_60\n+CTGAGCATTATCTTGCGTTACCGGACTTTTATCGCCAGAAGCGCGATATTCTGGTGAATGCTTTAAATGAAAGCCGGCTGGAGATTTTACCGTGTGAAGGTACATACTTTTTGCTGGTGGATTACAGCGCGGTTTCTACCCTGGATGATGTTGAGTTTTGCCAGTGGCTGACGCAGGAGCACGGCGTAGCGGCGATTCCGCTGTCGGTGTTTTGCGCCGATCCCTTCCCACATAAACTGATTCGTCTCTGTTTTGCCAAGAAGGAATCGACGTTGCTGGCAGCAGCTGAACGCCTGCGCCAGCTTTAGCTATTTAACCG\n+>scaffold_61\n+CTTTTTGTACTAAATAATTCGCATTTTATGTTTAAAAATTGAGATATTCCTTATTACCTGAAGCTGTTTTTTATTGCTTATACATGATCAAATACTTCTTACATAATTAAGGAGAACAAAATGGAACTTAAAAAATTGATGGAACATATTTCTATTATCCCCGATTACAGACAA\n+>scaffold_62\n+ATGCAGATGCGTCAGCGTGATGTTGCTGCGCTCGATGCAAAATACACGAAGGAGTTAGCTGATGCGAAAGCTGAAAATGATGCTCTGCGTGATGATGTTGCCGCTGGTCGTCGTCGGTTGCACATCAAAGCAGTCTGTCAGTCAGTGCGTGAAGCCACCAC\n+>scaffold_63\n+CCCTTCAGCAGTCCGGCGGCGAAGACGGTGGCAGTGTGGTGTTCCCGCCGGTGCTGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGAC\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/out.reads.001 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/out.reads.001 Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,163200 @@\n+>reads1_1/1\n+TTAATCATGTTTACAGTAATGTAACCTTCCCGTAAAATGCCCACACACTTTAAACGCCACCAGATCCCGTG\n+>reads1_1/2\n+CTTCCATACCTTCGTGTGCGCTGTGCTCACCTTCTGGCTGGGTCATGTCCATGCTCTTACCGTGAGCCATAAACTTG\n+>reads1_28/1\n+GGACGATAAAGAACTCTCTGCCTTTGGGGATAAAGCCCGCCGTCTGAACCTTGATATTCATATTGAAACCAG\n+>reads1_28/2\n+AATGGAAATATTCCTGCATCGGGATATAAAACGCATCTTTCAGCGACGGTAATTTATAAATTGTACCGCCACACAGTGTTAATAGACTAAATAACGCCCATTT\n+>reads1_102/1\n+CGGTGATGAACATACCTGCTATGAAGCGGTTTCTCATCTGCGTCTGAAGCTCGGCAATACCCGTAACCGCATTGACACTGCCGAGCAGTTTATTGATAAGGTTGCTTC\n+>reads1_102/2\n+AATTTTCGTGAGGAAACGCCGTAAGGTCATCAATCATTTTTTGAAGTATTGGTGAGTCCTGACCGTCACCCCATTGAAGAATTTTTGCG\n+>reads1_104/1\n+TCAAAAAAAAGTTGCAGGATGAAAATACCTGTTTCAGTAAAATATTACTCGCCTCCAGG\n+>reads1_104/2\n+TTGGTTGTTCCGTTAGGCGTCGTTGGCGCATTACTGGCCACCGATCTGCGCGGCTTAAGTAATGACGTCTACTTCCAGGTTGG\n+>reads1_213/1\n+GTTGCTCTACGGAGCGCCGGGCAGGCGCAGGTTCTCCAAACCGAAGTTCAAACATTTTACGTACGACCTTCAGACGCAAATCTTCATCCAGAGCAAGTTTGCCTGATAGAGCAG\n+>reads1_213/2\n+GCCAGGGCCTGGAGCAGGGATCTTTACCAACTTCACCAGGGATTATGGCATTTATTTCCAAACAGACCGGATGCTGCTCGTGATTT\n+>reads1_235/1\n+TTTTCCGGGAATCCGGCCGCTTTCAGCGCATCCATAGATCCCGTAGTACGGCGGCGGGCGGTATCCAGTTCGTTGGCGGTAATCG\n+>reads1_235/2\n+ACAGTGATAATTAATGACGAAATGAATGACGTGCATTTTCCACATCTTTGAGTTGCGGTTATTACACCATTTCAAAAACTCAACGCCAGGTAAT\n+>reads1_317/1\n+CCAGACTGATGATGAAGAATAACGTTGCCAGCAGCGCCGTCATGCGGGTCATGAAGTTACCAGAACCACTTGAACCAAACAGCGTAGCGGAAGCGCCTGCTCCGAAGGAGGCTCC\n+>reads1_317/2\n+CGATGGCGATCAGATCATGTATATCATCGCGCGTGAAGGTCTTCGTCAGGGCCAGCTGCGTGGTGGCGCTGTGGGTACATTGATGAGCAACATGGGGCTTGA\n+>reads1_325/1\n+AGTCGCTTCCGCGTAGGTGTCGATGATCTTTTCTGCGCCAATTTCGTAAGCGTCCTGATACAGCGC\n+>reads1_325/2\n+GTTTGCCGATGTGGCCATCAGCCAACACTATGACGAACTGGTTGCCGATGAACGCATTCGCAAAAAATACCTCAACGCCCGTGATTTCTTCCAGCGACTG\n+>reads1_341/1\n+TTTTCAAAAATCGCCCGCCGATTCGGTAGCCCGGTTAACGAGTCGGTATACGATTGCGCAATCAGCGCAGCATTGGCTTC\n+>reads1_341/2\n+ACCAGCCGGATGGTCACGCCGCCACAATGCCCATTCATCAATCGTTTCACCGCCCGGTAATTTGCAATTGTTGCTGACCCCTTGCGCTGTCTC\n+>reads1_381/1\n+AGGTTCGGAAATTAATTTAATTGCGTGCAGAGAAAATAGCAATGCGCTATTGATAAAAATATGACCATGCTCGCAGTTATTAACTTTGTGT\n+>reads1_381/2\n+TACCTGGGCGAATTGATTGAGTTCAGCAACACGGACGATCTGTTCACCAAGCCAGCGAAGAAACAAACAGAAGACTACATCACCGGTCGTTACGGTTG\n+>reads1_405/1\n+AATCACAAAAACGCGAAACCTTTCGCCAAATGACTGGCACAGGTAGCAATAGTTTTACAATCCCGGCAATGATGATC\n+>reads1_405/2\n+AAGCGTAATATTTGGCGTCACCAGCTGCGCCATATCTTTATCGCCAGTGCTGATCAGCACCGGACGCCCGGCTTTTTCGGCTTCGCGCGCCAGAGTACCGATAACGTCGTC\n+>reads1_426/1\n+TTCGTCGACTTCCAGCAACAAGGTGAAAGAGGACTGACGAACGCGCCTGATGAAGACCCGGACGATTTAAGCACGGGATATTACGGTTCAGCGTACCGGTCACCGGAGAACTGGA\n+>reads1_426/2\n+CGCTACGAAATTGGTTAATCGTGTTCACAGCAAAATTGTGATTGAGGATGAAGAACTGCTGTGTGTCGGATCTTTTAACTGGTTC\n+>reads1_581/1\n+GCAGTGGCTCGGGATCTGCATCGCGGCAGGAATGCTCGCGGCATGTACAAGCGATGATGGTCAGCAACAGAC\n+>reads1_581/2\n+GGCGAATGGGCCAAGCTGGATCCGCCAGACCGCGCCATTTTGAGTTACGCGACCG\n+>reads1_615/1\n+TTCACATCTATAACTGGGATGAGTGGTCGCAAAAAACCATCCCGGTGCCGATGGTCGTGGGCCATGAATATGTCGGTGAAGTGGTAGGTATTGGTCAGGAAGTGAAAGGCTTCAAGATCGGCGATCGC\n+>reads1_615/2\n+TCAGCACAATTACGAACTCTTTATTACACTGACAGGATTTTACATATTTAACAGATTATCCTCAG\n+>reads1_628/1\n+GCCAGAAGGGGAAAAACTAAAAAAGGGATCAGCGCCAGCAACAGGATTCCCGTTTTTTTCTTATTGTTGTCAAGGATGTTGTCTTTTCCATAACAAAAGAGCGCCA\n+>reads1_628/2\n+CCGCTTTGCCATGAAATCCTGGCGAAAAAATTATTACCTGTTGTTCGTTATTACAGCTATATCGAAATTACCCGTCGTGCACATCAGACATTGT\n+>reads1_647/1\n+CTGCGGCGTCAGCTCGACAAGCGATTTCCTGACGCTGCCAGGACTTGTCGGA\n+>reads1_647/2\n+TGTGAGAACGTTCACGTGAAAACGCGCAAAGCTGAACAAATAAAAAATTATGTGAGCCGAGTGGAATAAAAGCGCTCAACGTTTGTGAAAGT\n+>reads1_690/1\n+TGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACG\n+>reads1_690/2\n+GCAAAATAGTGATTCAGAATGGGCGTCATCAGGCGTTTCCCTTAGTGGTTTTCTCAACTTATAACCTGGAATAGACGCCGCACCGGCTATTTTGTGCGATCGCGGACATGCATCACGTTCGCAAATC\n+>reads1_711/1\n+GATTTCCCAGTTGTCTGGTTTCTTCGCTTTCGCACGTTCACCGGCCAGCAGAGCGTCATCCATCA\n+>reads1_711/2\n+CCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACG\n+>reads1_726/1\n+AGATATTGCAGCGGCTGGCGATCTTCTTCCTGTGCCAGTAATAACAACGTTTGCAGGCAGCGATAATAGTTGGCGCGTTCCGGACTAAA\n+>reads1_726/2\n+CACGCGTTCAGGGATTGTCTGAAGTTTTCGAACGCTACGTGAAAAACCGCATTATTGCTGAAAGCATCAGCCTGCCAGAGAT'..b'GGGTTTGAG\n+>reads1_999620/1\n+AGATCTTGTTTTTGTTGATAACAAGATAATGAACCTTCGTAAAATAACTTATTTGCAATCTAAGCTAGAAATTTTTGGTTCTTCTATTATGGATATA\n+>reads1_999620/2\n+AATGATTCGGAGTCAGCGGGGGAAGGTGTCGGTGCGGATGCCTGACCTGTGGATATAGCGGTTAAAACC\n+>reads1_999635/1\n+AAGATTATATATTAGCCATTTTGATGAGTAATTTAGATTATTGGTGAACAGAGCGGCGCTCTCTGCTCGCTAATTC\n+>reads1_999635/2\n+ACGCGACTGGCGATGCCAGTCGCGAAAAGAAGAGTCAGGCTTTTACCTGCTGGTAACGGCTGACTTTAAACAGTCGGCGGCAATAATCGAGG\n+>reads1_999669/1\n+AAACTACGCGCCAGTTATGTACACACTCAGGACAAAAAAACGTGACGATTAAATTGATTGTCGGCCTGGCGAACCCCGGTGCTGAATACGCCG\n+>reads1_999669/2\n+CAGACCTTCGCCTTTCGATGCGCCTTTTACCAGACCGGCGATATCGACAAATTCCATGGTCGTGGGAAGCG\n+>reads1_999690/1\n+AACTAAACTGCCTGAAAGAGCGTAGTTCAGTTGTTGTTGACTGCCGTTATCGCTGTAGTTGTAGCCCACTCGGGCATCCGCAAACGCCCCTTTGTAATCCATGCTGGGCTACCATTAGCC\n+>reads1_999690/2\n+GCGTCAGGGGCGAATCAAATACGCGGTGACACTGGCGAAATACAGAACCAATAGTAATGAACAGCAGGAGAGCAAATTTGCCCAGGCCACGTTGCAGTGGGCGGACCGTGGGG\n+>reads1_999703/1\n+TTATTGTTAGTCCCAGGTATAGCTGTGAAAACACCAAT\n+>reads1_999703/2\n+AGACACTGTTTTTCCAGTGCTTTTAAGCCTTCGTGATCGTTCGCACGCAGCAATTCAGTACGCTCTTCCATCACTTTGTAAGGTGCCCATGACTTCGGATA\n+>reads1_999708/1\n+TCCCACTGACGTATCATTTGGTCCACCCGAAACAGGTTGGCCAGGGTGAATAACATCGCCAGTTGGTTATCGTTTTTCAGCAGCCCCTTGTATCTGGCTTTCACGAAGCCGAACTGCCGCTTGATGA\n+>reads1_999708/2\n+TATTCATCCGGAGCGCATCCCAGAGGGACATCATGAGCCATCAACTCACCTTCGCCGATAGTGAATTC\n+>reads1_999712/1\n+GCCGCATGAGATTCATCACCGTTAGGGCGATACTGTTCTTCCGTTTGTTCTTTACTGGCGAAGTCCAGCTGCGCCGTAACCTGGGCGTGAATATTACCGTTACCAACAATAGCGA\n+>reads1_999712/2\n+CGGGTTTATTGGCGGATAGAAAAAAACGAAAGCACAAATAATGGGAGCG\n+>reads1_999753/1\n+GAAGCTAATTAATTGTGGTGCAGCATCTCGCATTTTGCTTAAAATATCAGGATCGAGCGTTCCTTCATTC\n+>reads1_999753/2\n+ACTGGGTTTAAACGCATACCTGTAGTTCAGAAATTATGAGCGATTTTTGATAGTGACCAGATGGCAAAAGAATTATAAGGAGGACACGGTACGACAAAAAAGGTAGATGAAT\n+>reads1_999756/1\n+TTTGCTATATCTGATAATCAATTTCCTCTTCACTGCTTTCCATCACCTGCCGCTTGATATCCTCAACTGACAGTCCTGCATTACAAAGTTCCAGAAAGCGCCAGACATAGT\n+>reads1_999756/2\n+TAGACTTTAACAATAACGGGAAATCTGAACTGCCCGGAGTTTACCGTGAATTTCCAACAACTAAAGATAATCCGCGAGGCTGCAC\n+>reads1_999846/1\n+TCATGTCCGTGGGAAACGATTATTATATATACCATTTCAATGTTCTTCAGTAATAAAATTAACTAGTTCATCAAACCCAACTAATACATTTTCAT\n+>reads1_999846/2\n+ATGGGTTAAATTCATTGAGTTTCCTGAGGTTAAAGGGTCGTGGCTAAAACGTTTGCACTTTGAATATGTAGTTTGTAAAAAACTTTCAAAAGAGCTGAATGCTACG\n+>reads1_999897/1\n+TGGCTGTTGAGCTGCAAATCCTCAGGGATGAATTACTCTCAGGCCACTACCAGCCCTTGCCCGCCAGACGGGTTTACATCCCTAAAAGCAACGGCAAACTGCGACCAC\n+>reads1_999897/2\n+TACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTA\n+>reads1_999925/1\n+CGCCTGGGCAATAACCAATGCGTCGAGATACATCACCTCATCTTCAAAAGTGGCGTAGCCTTCACTGTCGCAGGTGGTAGCGCGAATGAAGGCAATATCTGGCGCAATCGCTTTGTAATAGAG\n+>reads1_999925/2\n+CTGACGTTGCTTGCCGCGACCCTGGAGATGCAGGAGCAGTATGCCGATCGTCCAATTATCACGATGTCGATGGCAAAAACTGGCGTAATTTCTCGTCTGGCTGGTGAAGTATTTGGCTCGGCGGCAACTT\n+>reads1_999960/1\n+CGTGCCAAAATTGAACGCGTCCCTTTTATTGACACCTTCGATTTACGTTACAA\n+>reads1_999960/2\n+TATAAGGTAGTAATGCAAAATAAAATTAACGTCAGCAATAAACTGAAAATAAAAAAGCTTTGAGCTTTT\n+>reads1_999970/1\n+CCTGCCCGAATGGTCCACCACTTTCATTATTACCCTGATATTGCAAAGCAAAGTTCAAGCCATCGACCTAACCAAAGAAGCCATTGTTACGGTAGGTTGCAACACCA\n+>reads1_999970/2\n+ATTAATTCATTTAATCAATATATTAGCACTGATTACAATTATACCTTTTTATTATTCTGT\n+>reads1_999975/1\n+AAAAGAATTATAAGGAGGACACGGTACGACAAAAAAGGTAGATGAATCATGTTGAAGATAATACCCGGTGCAACTGGATACTTTAATAAAA\n+>reads1_999975/2\n+ATTAATTTAGAAGTGTCTGTAAGTATTTTAATCTCTTCCTTTGAGGTTGGGTCAAACGACTTCGCGAAGCTAATTAATTGTGGTGCAGCATCTCG\n+>reads1_999978/1\n+TCCGTTGCAGTCGCTTTTTTCTGACTCAACCGTCGGTTATGCCTGTGCGGCACTTATGTTCTCCATTGGCGGCTTTATTTTTATGATGCTGTGCTACAGAGGCGTCAAAG\n+>reads1_999978/2\n+GAGGCAGAGGTCAGAGAAGATAATAAAATTATTGCATTAATCTTTTTCATAATAAGTCCATTTTTT\n+>reads1_999982/1\n+AGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCGGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGA\n+>reads1_999982/2\n+TCGTCCGTTCGTACCTGAACTGGTGGATGGTAAACCCTGGCAGTCGTATGAAACAGCGCAAATTGCGGTTGATCTGCGCTTCT\n+>reads1_999999/1\n+CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAG\n+>reads1_999999/2\n+CAGCTTTCATCGCCTCAGCGCGACGTGTTAGCTGCGGACGTACCGCTTTCCGCCACAGCAGCCACGCCACCAGCAGTACCAGCAACCAGCGACCGGCA\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/out.reads.002 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/out.reads.002 Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,42968 @@\n+>reads1_79/1\n+AACCTTTAATCTGATTGCGAAGGCTAACTCAGGGGTAGCGGTATTCGCTGCGGGGTTGACTCTGGCTGCACATAAATTCGAGTTCAGTGCCGAAATTGCTTATAACACCTTCCTGAAGCTGA\n+>reads1_79/2\n+TCGCGGCCATAAAGTGCACTCACTATTCCGCTGAATAAATAGACACCGCCGCATAGATCCGCAAGAGATGTACCAACGCGCACTGGCGGAGCATCAGGATAT\n+>reads1_168/1\n+GTAACACGAGCCTCCATGATTGCTTCCAGATATTCCTCTGCATCCTCTTCTCGATCCGCAACCTTATCGGCCAGATATTCGACATAGGTACGTGAAACATCCGGGCTGAAAATTCGGTG\n+>reads1_168/2\n+TGATTGGCCTTCTTTATGATTTTAAGGATTATGCTTCTAAAATGGCGGAGAACATGGCGAGGCTTGCTGCCTTACTTCATTTTCAGCGGTGATGGAGGCGATATATCTGTTACCGGG\n+>reads1_173/1\n+TGCCATTTTTTCGTTTTATGCATGATAATGTAAAAGATATTAATATTTATAATTTATCAGATGATACAGCTATTTCTT\n+>reads1_173/2\n+AAGTATTGGTATTGTCAATAAATCTTGCGGTAACCCGGTAAATATAATCCGATAATT\n+>reads1_245/1\n+ATATAATGATGTTGCACTAAAAGATGTTTATATCTTTTTTTAAATTCAATAATTGATTTCGCATCTCGTGGAGAGTCATCTTTCCAGGGGGAATTTT\n+>reads1_245/2\n+ACTGGGAAACTATAAAGTAATGATATAAGGGTAGCATTGTGGACTCATTTCCTGCCATAGAGATAGATAAAGTTAAAGCC\n+>reads1_270/1\n+ATAGCCTTTAAAATCATATTCCCAGTGACCAAAACCAATCATTTGATCATTGATTTGCGTTTCTCCTTTAAAGCCGAGACGGGCAT\n+>reads1_270/2\n+GGCGTCTGTTGGGTGTTAGGCGGTGACAATGGGTTACATTATGATGAAATCATCAATAATATCACCACCAGCCCATTGAGTTATTTCCTGGCGTTCATTGGTGCG\n+>reads1_305/1\n+TTGCGGCGAGGCATCATTCGTAACAGAGTATTATCTTTCTGAATGTAGTGATGAAAGAGTGCTGCGCCAGC\n+>reads1_305/2\n+CATCTCATTTTCACATTTTTATGGGTAATGATTCACAGCAATCTTTATTAAATGAAATGGAAAACTGGCCAACGTATTATCCATATCAGTTGAGTAGCGAA\n+>reads1_313/1\n+AGTGTATTTAACCCTTCATTTCGTACTTTTTGGGTTTGCTCAAAAAGGCGTTCGTAATAATCACCTTTTAACAGAGACTTAAAGAAACGTTCGTTACGCTTAACTTTCGGAGAAAAAAC\n+>reads1_313/2\n+CGTTTATTTGCATTTCAATTATTGGGTTTAACGCTTGATCGTTTGCTTTATCTTGATGCAGATG\n+>reads1_345/1\n+CGCATTGAAATTACCTGAGTAAATAACGCATTCATGTCTTCAGGTTTTTATATAGCGTCTGGAGACACGGATATTTATGCAATGT\n+>reads1_345/2\n+TAGGGTGGTTCTATGTTATATATAGATAAGGCAACAATTTTGAAGTTTGATCTGGAGATGCTTAAAAAACATCGCAGAGCAATCC\n+>reads1_387/1\n+AATTCTCTTTGCCATTCTGTTTAATGGTCAGAAAACCAACTGGTTGATTGTACCTGGATTATTATTAGCCCTCGTCGGCGTCTGTTGGGTGTTAGGCGGTGACAATG\n+>reads1_387/2\n+AGACGGGCATAAGTTTTATCACCATCGTCACGCTTATCATCAGTAAAATAACGTAGAGCGGTAACCTTGCCATAAAGGTCGAGTTTATTACCATCCTTG\n+>reads1_465/1\n+CAGACACGTTAAAAGGGGGATCGATAGTGCTTCCTGCCAGGGAAGGGCAGTTTGATGTGCTGATTCTTGTACTTTCCAGGGCCACTTAATCATCGTTTTGCTCGCAAACTCGTCACTTGAACAAA\n+>reads1_465/2\n+CAAACAGCGAAATTAAAGCACTGATAAAAAATATTCACGAAACCTGGGCAAATATAGGCTACTTTTTAATCGCAGCTCACGCTGGCGCAGCACTCTTTCATCAC\n+>reads1_567/1\n+AACACCTAACCAGATGAAAAATTTGCTCAAAATGTTTAAATTAACTTATGTAACAGTCACGCATTATATTAAATAACATTTGACTGGGTTGAACATAACGCCG\n+>reads1_567/2\n+AACGTATTAACGGTAATCCAGCGTTACGTTAACGATAGCGTCTGCTTCCCCTGGGGTGATTTCTGATGGAACTACGGTTGATACGTAGTAAGCGATGAGGTCAACATTGACAATACCA\n+>reads1_603/1\n+GACATCAATGACAGCGTCTCTGTCAGCACTATCTGTGAATACTGCTGTCGCTCCAGTCTCTTGTGCCAGGCGTTTAGCGGCA\n+>reads1_603/2\n+ATTAAAACAACGTTTCATTTCTATCGTTATACGAAAAGATAATCAATTCCGCTAGCCTTAACGCGTGAATTATTGTCTTATCACAACTTATCGGCAGGCGCTTTCCCGCC\n+>reads1_620/1\n+GTGAGTACAATACAATTTATACAATTAAAAGTGAATTAAAAGACAAAACACATCAAAACTATAAAAAGCTGATTACAGAAGTACTCTTCTTATTCATTATACAGGTGCAACTA\n+>reads1_620/2\n+GCGCATTTTTTTACGATATACTAAAAGATAATAGCCTAGATCTCTAATCTCATTTTTAATACCGTAATGACGCTCTAAGTCAATACGATC\n+>reads1_750/1\n+AGATTGCGTAGCGAAGTGCTGAGTGTGGCGAAGGATGAAACAGGCTTCACGCTTGATCTGAACGGCATGACTGTCGGTTGCGAAAAGCTGGTCATCGCGACTG\n+>reads1_750/2\n+TTCATAAAGATCTGGCCACTGAGTGAGTTTTCAATCACCTTTCCATCCACCTTATATTAAGCATGGAGGGTT\n+>reads1_792/1\n+AGATAGTTTGCATCATTCTAAATCTAAGTTTGTATTCATTATTCAGTTTTTCTTTGATAACATTATCTGGTTGATTCTTCAAAATTTCTTTATTAGATTCCTT\n+>reads1_792/2\n+TCTCAGGAGTTAAATAACTCGCAGGAATTAAATAGTCCACAGGAGTTAAATGATCCGCAGGAGTTAAATAATTCTCAGGACTTAAA\n+>reads1_828/1\n+TTAACCAGCTCAGTATGAGCCGCCAGTAAGTGATAATATATGATAAGTGCAAATCGTCCGATAATTAACCTCG\n+>reads1_828/2\n+GGAATTATCTATCGTCCGTCGATTACTCGATATCCCTTTCAATCAACAATGAATCATCCCCTTCCGGAGCAGACATTGGGCTGTATTGCCACGGATTATGGTAGCTCTCC\n+>reads1_840/1\n+AAAAGCACCACAAAAGCATAAAAAAACCACACAGTAAAACCGAAATATGAAACAATAACAGATAATTAAACCAAAAACAGATAGCGCATTGTGATAATCATTCAATACTAAACAAA\n+>reads1_840/2\n+GTTAGGTGTGACGTAATAACCTGCATTGACTGCAACAGAATAGTAATTTTGGTCTTTGACCTTACTGC\n+>reads1_1032/1\n+CGTTCCACGGCTTCACGCTCATCAAAACGTAACGGGTGAACGGTAGAAAATCCGTTCTTCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTC\n+>reads1_1032/'..b'CCCGCCAATTGTTCAAGACCATCAATCGCTGGCTGGCCGAA\n+>reads1_997903/1\n+ATATTAACTATATTATCAACAAGACCAGACACTTATAGAATTAGTGATGATTTATTCACTAAAAA\n+>reads1_997903/2\n+ACTCGTAAAGCTAAGTCTGAATAGTAATGCTCTTGAGTCAATAAATTTTCCTCAAGGCA\n+>reads1_997947/1\n+GTCTTACTGCTGTCGCCGCCGGAGAACAGGTTGTTCCTGCCTCTGAACTTGCTGCCGCCATGAAGCAGATTAAAGAACTCCAGCGCCTGCTCGGCAAG\n+>reads1_997947/2\n+CCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACC\n+>reads1_998014/1\n+TCCTTTTTATTATCATGAATGGTATTCCAGGTATTACTTTCCATGCTTGCCCACCATCCATTTTGCCATCCCTCACTGACTTTGA\n+>reads1_998014/2\n+GAAAACACCAACATCAACAAGCCTCTCCAGATCGACTTCAGAAGTGACCAGTTACAAGCCACAAACCAGGAAACATATTTCATGATGAGAATTATGCTCAGCCTGATGGCGGGTA\n+>reads1_998053/1\n+ATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCCAGTCCTGATCGACCATATGCCACCTCGGCTGCCGAGAGTT\n+>reads1_998053/2\n+AGCACGTCGTACTTTATCTCTGTTTTTAAGGCGTTTTACGGCCTGACACCGTTGAATTATCTCGCCAAAC\n+>reads1_998166/1\n+TGTCTCCGGGTGTCGCGTGCGCAGTTGCACGTCATTCTCAGACGAACCGATGACTGGATGGATGGCCGCCGCAGTCGTCACACTGATGATACGGATGTGCTTCTCCGTATA\n+>reads1_998166/2\n+GTGCTTAGTGAATATTTGCCGACGGGTAATTGGCCATCAGTTTCAAATTGGGAAAGGTTAACGTT\n+>reads1_998680/1\n+TCTGCCGTGACTCTTTTCACTCATTGCGTAACTGTCATGCTCTGGATTATTTAATTCTTTCAGCGGAAATTTTTCCTCAAAGGC\n+>reads1_998680/2\n+TGTCAGATATTCTACTGTTGACTATTTGTGCCGTTATTTCTGGTGCAGAAGGTTGGGAAGATATAGAGGATTTCGGGGAAACACATCTCGATTTTTTGAAGCAATATGGTGATTTTGAAAATGGTA\n+>reads1_998756/1\n+CAGACTCTTATTAAGCAATTACTCGTAATGAAATCGGCTGAGGAAGATGCTTTCCGACGCGATTTAATTGACAGCATAATTCGTGATTTTAGCAATAG\n+>reads1_998756/2\n+TAAGTTAGGCGGGATATCAGGCGTCAAGAATGGAGAGCGAGAACTCTCCATTCTTGAC\n+>reads1_998842/1\n+ATCAAGGATTTCACCAATTAAGCCGAGGAGTGATTGTCCGGTGGCGTAGGCAAGTGAAATCGCCTCCA\n+>reads1_998842/2\n+CAGCGCTGCATTTCACAAGGTTAAGGAAGGTGAACTTGATGCTCTGGTCGCGACACAGCTAAATTCGCGTTACATGATCGATCA\n+>reads1_999026/1\n+TCCGCTTCAGGAAAAAAATAGCATCCAACCGCAGCATGTTCTTGCTTAAGACGTGCTGCGGCATAATCCCAATGATTACTCCCTGACAGGGTTCGTAGG\n+>reads1_999026/2\n+TGTACTTTCGTGCTGTCGCGGATCGCAGGTGAAATTGCCAGTATTCTCGACGGGATCCCCCTGTCGGTGCAGCGGCGTTTTCCGGAACTGGAAAACCGA\n+>reads1_999075/1\n+CGTCGGCTTCCGACGTAAAGACGGCATATTTTACAATTTTTGTCAGCAAGCTAAAGAGCAGCC\n+>reads1_999075/2\n+TTAACTTTTCATGCTTAATTAATATGGCTAATGTGCTTTTTATAATTCGGTTAGCCAGCGTGTCTTCATTAAGCATA\n+>reads1_999313/1\n+CCTGGCGATTGGTATTACCGCTGTATCTTATCTTTCCACCTTCTTCCCAGTATTAAATGATCCTGTTCCGGCGGGTATCGCCTGTATTGCTATCGTCTGGGTATTTACCTTTGTAATATGCT\n+>reads1_999313/2\n+GCGCTCGTGCATTTTGCGAGCGTAGAACATCAGGATAATCAGGCTGACGATGAAGGTACCTGCCAG\n+>reads1_999336/1\n+AAGGAATTAATTAAGCAGGCCGGGGAAAATCCCCTTAATACCAGTAACGATAAATTCAATCCCCAATGCCATCAGCAATAGCCCCATAAT\n+>reads1_999336/2\n+TTACTAAAAGAGTTTAAACATTAGAGTTATTATCTCTAATGCGTCACTTCCAGGTGGCGTAAGCAAGATTACTCACTTCTGG\n+>reads1_999457/1\n+GACCCTGCGAAGCGGAGTTGACGCGCGCATTGCTTTTTACCGTATTGTCTAACTTTCTTGAGCAATCGCGGTTTATTGCCCTACTGATGTATATCTTACGCAGCAGCGTCCGCGACAGCGTCTGCCGCATTATTC\n+>reads1_999457/2\n+AAAGAGCTGATCGCAATAGGGGTTGTCAGGACTATTCCCAGAAGTTTCGCCCGCATAAAAGTTCTCCATTCAATCGTTTTAATGATTGAATATGTATTTTTTATATCTAACTTAATGAG\n+>reads1_999514/1\n+TGATGCTGCCACTCTTTCAAGATCGCAGGACAGGAAAGTGAAAATCAGTGAGATCATTAAACATACATCAGTAATGTAAAAACTATACGCCTCTTGATTTAATTCAGGAGGCCTTTTATGTATGA\n+>reads1_999514/2\n+TGACCCATCTTGTCATTGTGGAAAGGCCAACATCCATAGCTTTCGCGGCATCTGCCACCGTGTATTTCTGGTCAACAACCAGTTGAGCGGATTCGCGTT\n+>reads1_999657/1\n+TGGTCAATGATGGCCCCGTGACATTCTGGTTGCAGGTATGAGCCAGCTTCCAGGGTTGTCACGGGAAACAAGAGAGAGTATCGCTATG\n+>reads1_999657/2\n+ATACGGGCCAAATGGCTTCGCGGGCAGAACGATATACGTGCCTTCAAACACTGCACCCGGCGTCTCGTCGCCAAAG\n+>reads1_999781/1\n+AGGAGTATTTGATCATGTATAAGCTATGAAAAACAGCTTTAGGTAATAAGGAATATCTCAATTTTTAAACATAAA\n+>reads1_999781/2\n+GAGATGGTATCAGAATGAGGACATCGGTGAGTATTATTGGCAAACAGAACTGGGTACATGTAAAAATAATAAATTCACACCAAGCGGGGCGAGACTCTTAAT\n+>reads1_999804/1\n+CCCGTCGGCGCAATCCCCGCGTCTGCTGGAACTCAC\n+>reads1_999804/2\n+GGATAGACATCAATCAGTTGCATGGCGGTCGACATGCCGATGATGCCGCCGCCAATAATCACAAAATCATACATCCGCTCAATTCCTTTGCGCTTACTGATGCGTCTGGTAGT\n+>reads1_999905/1\n+ACGCTGAAGGACGATGGGTGGTTACCATCAAATCCACTTCCTGGGATTCCAGCATTTCTGCCATATAGGCATTACGTTTAACGCGGACATCCAGCGCTAATTTC\n+>reads1_999905/2\n+ATGCTAATTAATTATTATTTAATATTCAAAAAGGTTTTGATGTGCTTATTAATAATAGAAGATTACTTTGCCTA\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.reassem/out.reads.noclass --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.reassem/out.reads.noclass Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,780728 @@\n+>reads1_10/1\n+GAGGTTATTGCTCGTATCGCAGCTAAACACAATGCGACTCCGGCACAAGTGATTCTGGCGTGGGCTATGGGGGAAGGTTACTCAGTAATTCCTTCTTCTACTAAACGTAAAA\n+>reads1_10/2\n+TTAATCGGACCACGCGACAACTTAGCCTGACGGAAGAAGGCGAGCGTTATTTTCGTCGCGTACAGTCAATTTTGCAGGAGATGGCAGCGGCAGAATCAGAAATTATGGAGACGCGTAAT\n+>reads1_11/1\n+ACCACACAGAGGTGTTGATTTCGCCATGCCGCAGGGTACGCCAGTGCTTTCAGTGGGTGACGGTGAAGTGGTGGTTGCCAAACGCAGTGGCGCAGCAGGTTAT\n+>reads1_11/2\n+CCTGATTATGGAACATCGCTGCCATTTTCTGCCCTTGCGAGGCCATCAGCATGGCAGGAATATCGACGGCCCAACCGTGCGGCACCAGA\n+>reads1_12/1\n+CTTCATCCACTCTTTTGTCAGCAGTCCTCGATCGGTGTAGTCAGCGTTCAGGTATGCTTCGAAAAAAGCAGTTATCAGTCCCAGGTTTGAATTACCAGGATTAGGGAAAA\n+>reads1_12/2\n+AAGGAAAGCGCATTGGCTACGTAATTAAAACAGAAAATAAAGAAACCCCATTCACTGTGGTTGATATCGATGGTCCATCAGGCAACGTAAAAAC\n+>reads1_21/1\n+TGGCAACACCATTGCCCGCCAGCCAGTTTCCGCCAGCGACTTTGCCCTGCAATTTACGCCCGGAAAACGCTATCGGGTCATTGACGTCATCCATAA\n+>reads1_21/2\n+ATCTATCTGGCTTCTCTCTTTGCGTTGGGTTTCCTGGTCTTTGGCC\n+>reads1_27/1\n+CCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCT\n+>reads1_27/2\n+CGGTGCGTGCACAATAGTAGAAAGATTTGGTACGACCTTCGATTTTCAGCGAATGCACGCCCATTTTGGTCAGGGTTCTACATGGGCGATGGCGCGCAGACTTTC\n+>reads1_32/1\n+TGTGCCATGCGCATCCCGTCACGCGTACGCGCCATGGTTAATTCAGCGTTCACCGCATTACGCTCACGTCGGCATATTTCTTGTCGAGCAAAGGTTCAGCAATAGCATCGGCCA\n+>reads1_32/2\n+GTCCGCGCCATTGCTGGTGTTACCTGAAAGTGGCGGCGCGTGGCTAAAAACCTGTTATGACGCGCAAAACGATGCCATGCTGGATGACG\n+>reads1_35/1\n+GGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGAT\n+>reads1_35/2\n+TACCGGTACGCTGTCAATGAAATGGGCGAGCGTCAGTGAGGGAAATGGCGGCTTTATTTTAATGCTGGTGATGATTTCTCTGTCGTAT\n+>reads1_37/1\n+TATGTATTGAGCGCGAACGGTGAGCGTAGCCCGGTCAACGATCATCCGTTCTGTCTTTTCAATCCGCAGGAAGATGCGCAGATT\n+>reads1_37/2\n+GTTCTGCCTGCTCTTGTGGGAACTGCTCGCGCTCAATCTGCTGTTCCAGGACGTAGAACAGATGGACCGGGTTTGCTGC\n+>reads1_42/1\n+AAAAGGGGACGATTCTAACGACGGTTAGCTTAATTGTCAGTCATCCGTATCAGAAAAGTTTTTACGCGTTTTTACCTGCGCCATGCTTTCCAGAATACGGTGATAGTTTTCGAAACGGGTTTCCGCGATTTTCCCTT\n+>reads1_42/2\n+CTACGACGACAATCTGTTTGGCGAGCCTGATGAAGGTATCGTCATCAGCCGCTTTGGTATGCACGCTGATGTGGAATCCGCCGATGGCGACGTTCACCGCTGCAATATTCGC\n+>reads1_46/1\n+TCGTCTGGATGAGCTATGCCAGGACGCGGCGGGCGTGAACTTTAACGGCTTCGCCTCGCGCCTGCGGGAAAAAGGGCCGCACTGGAGCGCCGAAGT\n+>reads1_46/2\n+CGCCATCGCGCAGGTTGTCGCACAGCTTCCACAGCTTCGCGACCAGATCGTTATTGTTCATTGTGAGTTCCGTAAATTAAGCAGCGGCCCAAATT\n+>reads1_51/1\n+CAGAAGTACTCTAAGGAGCGAATCATGGCAGCGAAAATCCGTCGTGATGACGAAGTTATCGTGTTAACCGGTAAAGATAAAGGTAAACGCGGTAAAGTTA\n+>reads1_51/2\n+GATGATCGCTTTCAGTTCAGCGCGTTTCGCGAAGTATTTATCAGCTAAAGCTACGCGTTTTACTTCGCGTGCTTTCATTGATTGCTTAGCCATTTA\n+>reads1_52/1\n+CTGCGGCAAAATCGCCCTGCTTCGCCTGTTTCAGTGCCGCATACGCCAGGCTGCGCGCTTGTCCGGAGTTGATGATCAGCCCCATCACCACTTCTTCCAGCTCTTCAGCT\n+>reads1_52/2\n+CTTCTCGGCATTAATTCCCGGCTTTATTATTCTTTCCGTGATGGGGATTATTGCCTGGGCGTTGAATACCTGGGGCACCAACTTCCATCAGATCATTATGGATACCATCTCAACCCCACTGGCATCGTTGG\n+>reads1_57/1\n+TAAAGAGTGCCAGTTTACGACAGGTTTAGCCGTTGTTATTACCACGACGTATAACGAAACGCGTATTCAGCCAAATACCAAATGTCCTGAAAAGAGCTAATAATCAGGAGGAGT\n+>reads1_57/2\n+CAAAGTCAGCCAGGCGTTCACTGTGTTCCTGCCGGTACGTTCCGTTGGCGTAATGGGCGATGGTCGTAAGTATGACTGGGTTGTCTCTCTG\n+>reads1_65/1\n+CGCTGCCATTTTCTGCCCTTGCGAGGCCATCAGCATGGCAGGAATATCGACGGCCCAACCGTGCGGCACCAGAAAGATAACTTTCTCGTTATTACGCCGCATCTCTT\n+>reads1_65/2\n+TGACCGGTCGCGTTGCACCACACAGAGGTGTTGATTTCGCCATGCCGCAGGGTACGCCAGTGCTTTCAGTGGGTGAC\n+>reads1_67/1\n+CAAAGGCGGCTGGCGTGAAATTTATCGCTTATACCAGCCTGCTACATGCAGATACCTCCCCGCTCGGCCTCGCCGATGAGCACATCGAGACGGAGAA\n+>reads1_67/2\n+CAGGGTGCCGATAATCATCGTGGAAACAGGCGCGCCAGTACGTTGAATGGCACTGGCAAGGCAGAAGTAATAGATGAGGTTGCCCATCATAGTGAGCATCAAGGCGGTAAGCCAGTCGCGAC\n+>reads1_70/1\n+GGCGCGCCGCGCTTCGGTGTTAAAACGCACGCTGTCGCCAGTGAGTGAGGCGTGGCGCTCCACTTCATAATCCAGGTTCGGTTCAATAT\n+>reads1_70/2\n+CGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCGAAGAGGTCTACGCCTGCCTGC\n+>reads1_77/1\n+GCGCTTTGATCCCGGCTGCCCATACCATCAGATCAGCCTCAATATATTCGCCATCTTTAG\n+>reads1_77/2\n+TTTCAGCAACAAAACTTGATTAACATCAATTTTGGTATGACCAATGCACCATTCATGTTATTCTCAATAGCGAAGAA\n+>reads1_86/1\n+AGGATAGGCCAGCGCGACGACCGCCGGTTGCAGCAGATCGTTTAGCACTTCGCTACCTTTAAAGTAGCTGTCGTAAGAGATGCCAGTCAGCATTAAAAAAGGAATGATCACA\n+>reads1_86/2\n+GAAAGACTTTTACCGGCAGCAGTTGATCCACCACGCG'..b'GCTACCCGTAAGTCGATGGGGCAGATTCAGGGCGCTCTGGTCGGTATCGCGATGGTA\n+>reads1_999885/1\n+TAGTTATATGAGAGACTAAAAAGCCGCCTGAATGGGCAGCAAAAAGAAGAAGCAGGGGAAATTCAGTCTATTGTAGCGAGGATTTATTAATT\n+>reads1_999885/2\n+TTTAAACGAATGTTTACCTATTATCTGAATGCCTGTGCAGGTGCTTTCCGCGCCCGTGATATTCAGCTCTGGCAGGTCGTGTTCTCACGCGGTGTTGAAAACGGCCTTCGAGTGGCTCGCT\n+>reads1_999901/1\n+GGCGTCCAGCCTGCCAGAGTATTACAAAGAGCGTCTGCTCGCCGCCAGCCATCATTTGATCAGCAGTGATGGCGTGATTGTCATTAAGGCACA\n+>reads1_999901/2\n+CTGCAATCCTGGTTGGGGTAAAATTTCCCTGCCGTATCGGGTGCCAATACTTTAGTCGGCGCACCGGTATCCG\n+>reads1_999903/1\n+TGGCACGGAATTTAAAGCCTGGCTTGAAGAAGAGATGGGCATTAAGAAGTAACATCCGTATCGGTGTTATC\n+>reads1_999903/2\n+CAAGTAATAGCCCTCTGTTGACCTCCAGGAGATAGTGCAATACTAAGTCCATGCTCTTATTGCGACTGTTCTACTTTTCATCATTCGCTTAATAGGGAATTCTCGTAAAC\n+>reads1_999913/1\n+ACTCACTGGCGACAGCGTGCGTTTTAACACCGAAGCGCGGCGCGCCTGGTTGGCTTTTGCGACCTCTCCCCAGGCAACATGGCGCGGTAACTTTCGCGAACTTTCTGC\n+>reads1_999913/2\n+GTGGCACGATCGCAAGGCCACCCAGACCGAAGAAAAAGAGCGCATCGCCCGCAAAGTGGCGGAGCAAATCCCCAATGGCTCGACGCTGTTTATCGATATCGGCACCACGCCGGAAGCG\n+>reads1_999914/1\n+AGTGACGAGTCCCTGACAAGATGTATCTATTCTTTGCGCTGCATTTTTGAAAAAATTGGCTATGATCGTTGCATAGAA\n+>reads1_999914/2\n+GTAGTGATTTGTCTATACAAATCCTTGCCTCTTCAATTTTTTCATTATGAAAGTGGACTAGTGCCCTATAGTAGTAGAGAGAGGCTATATCAGTTGAGTGTACTTAGCCTGTTCAAATAAGATATGAGATACT\n+>reads1_999915/1\n+TCGGTTCAGGGACAGGAATTTGCAAATAAATAAGTGTCGTCATATTTCCCTCTGGTCATTGGGTGGACTCTTAAAGGGTAGACGCTGATAAATAAC\n+>reads1_999915/2\n+CCGATCAACTGGTCGCCATGCGTGTATATATGGACGGGCGGTTAATTGTTTCGACCCGACAACGCAAAGTGCTGGCGCTGGACGATGTG\n+>reads1_999917/1\n+GTCTGTGCCATTGGTGCGGTGATCGGTTTGATCAACGGTCTGATTATCGCTTATCTCAACGTGACGCCGTTCATTACCACGCCGGCACGATGATCATCGTCTATG\n+>reads1_999917/2\n+ACGTCTGCCCGGTGGGTTGTATTGAGCTCGGGGAAGTGAAGTTTAAGAAAGGCGAGAAAGA\n+>reads1_999921/1\n+CATGCACCGCAACCAGACTTTTAACCGCAGTTGCGCCCACCATCGCAAAGTGATTTATCAGCCCACTGGCCAGCAACAATACAAAGAGTAA\n+>reads1_999921/2\n+GATGTCCTTCACTCGACGCAAATTTGTTCTGGGGATGGGAACAGTAATCTTTTTTACTGGTTCTGCGTCTTCTCTGTTAGCGAACACGAGG\n+>reads1_999926/1\n+ATCGAACAATACTTTGCCCTGCGCATCGGTCATATAGACATGATATTCATTGCGCACTTTGTTAATGCCACCGATATTGGCGCGAAACGGG\n+>reads1_999926/2\n+AAACGGTCTGGTTAGTGGAAGATGAGCAAGGGATAGCCGACACGCTGGTCTACATGTTGCAGCAGGAAGGTTTTGCCGTCGAGGT\n+>reads1_999937/1\n+GCGGGTCCGCGCGGCGGCCTGATCCTGGCGAAAGGTGGTAGCGAAGAGCTGTACAAAAAACTGAACTCTGCCGTTTTCCCTGGTGGT\n+>reads1_999937/2\n+TGAGTCTGTATAACTTCCTCAACATCCTCAATATTAATCAGATTTGGTTGTACGGTCGCAGTTGTGCCTTTGGTGAGAACTGGCTTAATACTATTATTCGCCAGAC\n+>reads1_999947/1\n+CGCCTTTAAAATCGCTTTTCCCCGTGCCCCACAGGTCGCGCAGCACCTGAACATATTCGGTGAGATAGTCGTAACGACGGGAGAAATAGTCATCGC\n+>reads1_999947/2\n+GAATCTGCCGCAGCACGGCAATATACAGCGCCTCTTTTGACGGAAAGTAATACAGCAGATTGGTTTTTGAAACACCCGCCAACTCTGCGAT\n+>reads1_999955/1\n+ATAGGATTAAGCGCGGCGCTGGAATGGCTGGCAGATTACGATATCAACCAGGCCGAAAGCTGGAGCCGTAGCTTAGCAAC\n+>reads1_999955/2\n+GCCACGGCAGAAGGGCCGAAGCGGATGGATTGTGCATCTGGATTTGGCGCGGCAACGATGGTGACCGCCACCT\n+>reads1_999956/1\n+TTTCTGGCTTAGCGCGCTCTTTCATCGTCATCGAGTTGATGATGGCTTCCATACGCACCAGCACTTTATCGTCCATCTGTGACT\n+>reads1_999956/2\n+GTTGGTCATGAAGTTAATAAGAGCCTGACGCCGGGGCAGGAGTTCGTCA\n+>reads1_999962/1\n+CCCTTATCCATCTTCAGAATGAGTATTATTGCGGATTTTCTTAACCCGTACTATAC\n+>reads1_999962/2\n+ATACCGCGTCGTCCATTAAGCGTACTCATATGGAACTTG\n+>reads1_999983/1\n+CCATATCGATAGTCACGTTTTCCTGCGCGTAGGTATCGGTATAGGTTAATTTTTC\n+>reads1_999983/2\n+GCCGCCAGACGCTGGATGCGCAGGTCATTAGCGGCGAAGGGGAAGATAATGTGCTGACGTTATCATTACCAGCCTCAGCCAGCGCACCTTATGCCGTTGAACGCATGGCGGCGCTTTTGCAACAAA\n+>reads1_999984/1\n+GGCTCACGCAGCTTGCGGGCAAAGGCAGTTTTTTTCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAG\n+>reads1_999984/2\n+TGGCGCGGTGATTGCGATGCATGATTCGTTTACCGCTCTCGGTGGCATGGTGCCGATGTGGCTGATGCAAATTGGTGAAGTGGTGTTCGGCGGTGTCGGTTCTGGTCTTTACGGC\n+>reads1_999985/1\n+GCCGTTGATTATTCACTACAACAACGGCGGCGCGGTTCGTCTGGGCGATGTGGCGACGGTGACCGACTCAGTGCAGGATGTGCGCAACGCCGGGATGACCAACGCCAAACC\n+>reads1_999985/2\n+CATCGCCTGAAACGAAATACTCTGATCCGCCTGAATCCCGCCCATCAACACGCCAGTGTCCTGCTCCGGGAAGAAGGTT\n+>reads1_999987/1\n+GAACATAAAACTGGTTCATTAAGTTTCCTTGCTTGCTGGCTGTGTGAGAACTCCAGCATACCACCGAGCCTGAAG\n+>reads1_999987/2\n+GTCATCCTGGATCGCTTGATAGCGATCTAACCAGGTTGACGTTGTGATAGCCTTTCCTTTGCTGGTTGCGATCCTGTCACTGATAGCCAGAATCTGCCGGGTTCTTTGTT\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/3/out.summary --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/3/out.summary Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,3 @@ +Bin name Abundance Completeness Genome size GC content +out.001.fasta 10.63 3.7% 556944 47.1 +out.002.fasta 10.28 0.0% 147242 40.9 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/Bin_Sample3_contigs.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/Bin_Sample3_contigs.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,10411 @@\n+>contig-201_2\n+TAACCAGACGGAACGGTATCTGATGGCCACGGGATTGGTGCACCGACTGGATAAAACTCTGCAGGAGGAT\n+GAGCCGAGGTGTAAAGCTGCGCCCACGGCGACCAGTTTGCGTCGGTCGTATCCCGTCGTGAACGAATAAA\n+TGCCGGAGCATGAGCACCGCTTGTACCACTCCAGCCGATGAGTAACTCACCTTCGCCAACGGCTGTCATC\n+CCTTTCAGGTGAATGATATTTCCATACGCTGTTGGATATCCGTTGTTATACACCTCGTATAACTCAAGAC\n+CTGCTGCCCCCTGCGTATTGTCTGTCAGCGCGGTTATATTCACTCAGCAACCCCGGTATCAGTTCATCCA\n+GCGCGGCTGCTTTGTTCATGGCTTTGATGATATCCCGTTTCAGGAAATCAACATGTCGGTTTTCCAGTTC\n+CGGAAAACGCCGCTGCACCGACAGGGGGATCCCGTCGAGAATACTGGCAATTTCACCTGCGATCCGCGAC\n+AGCACGAAAGTACAGAATGCGGTTTCCACCACTTCAGCGGAGTCTCTGGCATTTTTCAGCTCCTGTGCGT\n+CGGCCTGCGCACGCGTAAGTCGATGGCGTTCGTACTCAATAGTCCCTGGCTGGAGATCTGTCTCGCTGGC\n+CTGCCGCAGTTCTTCAACTTCCCGGCGCAGCTTTTCGTTCTCAATTTCAGCATCCCTTTCGGCATACCAT\n+CTTATAACGGCGGCAGAGTCATAAAGCACCTCATTACCCTTGCCACCGCCTCGCAGAACGGGCATTCCCT\n+GTTCCTGCCAGTTCTGAATGGTACGGATACTCGCACCGAAAATGTCAGCCAGCTGCTTTTTGTTGACTTC\n+CATTGCACATTCCACGGACAAAAACAGAGAAAGGAAACGACAGAGGCCAAAAAGCTCGCTTTCAGCACCT\n+GTCGTTTCCTTTCTTTTCAGGGGGTATTTTAAATAAATACATTAAGTTACGACGAAGAAGAACGGAAACA\n+CCTTAAACCGGAAAATTTTCATAAATAGCGAAAACCCGCGAGGTCGCCGCCCCGTAACCTGTCGGATCGC\n+CGGAAAGGACCCACAAAATGATAATAATTATCATCTACATGTCACAACGTGCATCTACGCCATCAAACCA\n+CGTCAAATAATCAATTATGACGCAGGTATCGTATTAATTGATCTGCATCAACTTAACGTAAAAACAACTT\n+CAGACAATACAAATCAGCGACACTGAATACGGGGCAACCTCATGTCAACGAAGAACAGAACCCGCAGAAC\n+AACAACCCGCAACATCCGCTTTCCTAACCAAATGATTGAACAAATTAACATCGCTCTTGAGCAAAAAGGG\n+TCCGGGAATTTCTCAGCCTGGGTCATTGAAGCCTGCCGCCGGAGACTGTGCTCAGAAAAAAGAGTTTCTT\n+CTGAAGCAAACAAAGAAAAGAGTGACATTACTGAATTGCTCAGAAAACAGGTCAGACCAGATTGAAGCAA\n+TTTAGATAATCGTGCAGACTACGCCCCCTCATATCACATGGAAGGTTTATCTATGGATCAGGTAGTCATT\n+TTTAAACAAATATTTGATAAAGTTCGAAACGATTTAAACTATCAATGGTTTTATTCTGAGCTAAAACGTC\n+ACAATGTCTCACATTACATTTACTATTTAGCCACAGAGAATGTTCATATTGTATTAAAAAATGATAATAC\n+AGTGTTATTAAAGGGCCTAAAAAACATTGTGTCTGTCAAATTTTCAAAGGATAGGCATCTTATAGAAACG\n+ACCTCTAATAAGCTGAAATCCAGAGAGATCACATTTCAGGAATACAGAAGAAACCTTGCTAAAGCAGGAG\n+TTTTTCGGTGGGTTACAAATATCCACGAACAAAAAAGATATTACTATACCTTTGATAATTCATTACTATT\n+TACTGAAAGCATCCAGAAAACTACACAGATCTTACCACGCTAAACCATAACGTCCGGCTTCTCTCACTCC\n+TGAGCCGGACTGCATTGGTTTAATAAAAACCATCAACAATTGTGATTTAGATATTCGGAACCATTCAAAT\n+ATAACAAAACCCCGTAAAAACGAGGTTTATGGATAAATTTTATTATTGAATACATCAGATTAAATTAATC\n+TTGACATCATAGCTTTCAAGACCCGTCATTTTTTCCCGTGCGGTAAACTGAATACTGGTAACTTCTTTCC\n+CGGTCTTTTTCTTAAGTTCAATAATTTTTTTTGTTATATATTCAGAAATATCTGCTTCTGCTTTTGTTTT\n+TAAGTTTTCAATATTCATCATTTCCTCTTTTAGTCTGTTATGACTTTCCAGTTACACAGTAAGTCGATTA\n+TATGGTGCAAACGTGTAAAAGATAAGATGAAACATCGCAATAATCAACATACGATAGTCTAAATTTTACA\n+CAAACAGACAAAGAGAATTTTCCTGAATTATCAATGCAATAGCATCAAATCAACTCAAGAGCCTTATTGC\n+TGCTTCCAGAATTTCTTCTGAAGTAACATGTCGATCCGCGGCTACATAAATGACTTTATGATCTCCGGTC\n+AGAGATGGAAACCCTGCGGCCATTACAGTAAGGTGTGTTTTTTCGCCATTTGGATATTCACGCATGATGG\n+TGTTAACTCCAGTCATCGCTGGCACTACCACTGCTGGTTCAGAGTTAAAAAAACTATGATTTTTTTCATG\n+ATGTTACCGTAGTATGTGAGTATCCATCGAATAGACACCAAGCAAAAAAGCTCCCGAAGGAGCCTTCATT\n+TTCACTTTTTTAAATCCAACGACAGACGGCTGGCATTTAAGTATTGTGAAATATTATCAAATGTAATCAT\n+CATTGATTTACAAAAGATACATTTTGCCCCGAAAGGATTCATGTCAGAAACATCAAAAGATGATGTTCTA\n+TACTGGGAACCATGACAACACGGGCATCTAAAGTGAATATGGTTTGTAATATTGTCTACCTCAAAGCGCC\n+ACTACATGAACAGCGGCAGGACCTTTAGGTCCGTTCTCAATACCAAATTCAACTTCCTGATTCTCAGTTA\n+ATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGT\n+GATGAAACCAAAACCTTTTTCAGGGTTAAACCATTTCACTAAACCAGTCATTTTGTTAGACATAATTATT\n+ACCTTTTGAAGAAATTAGCCCTTGGGCAGAATGGTCCGAAAAAAAATATCAGAGAGAAAAACCAACAAGG\n+AAATCTCAAGAGGTACAAATAATAAAATTATAACAATGACTGCTTCAGATAAATTTGTAACAAACCAGAA\n+CACCATTAACGCATGATTAACCACCCATAGCAAGGATTACTTTTGTAAAGAAAAACACAGCAATGAAAGA\n+ATAGCTTTATTTATTAATAAAACGTGTCATTCTGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGA\n+ATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATA\n+TTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGT\n+AGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGAGCATGTTGGTGAGCAT\n+TCCTTCGGCGGTTTTGGTTGTTTTGCCTCTGACGGCAGCGGCAAGATCTGCGGTATGCTTCGCTGCGTCA\n+AGGCGTATGGCATATTTTTTTGCTTCGGCACGCAACTGGTTAACACTATCAGACAGATAAGCAGCCCTGG\n+CAGAAATTTCAGCAGATTTCTGTTGCGCATCTTTAACAGCCTCATCACGGGCTATAGTTCGCCCCTGTTC\n+AAT'..b'CGGGGTTAACTCG\n+TCTGCCGCCTCTTTTAAAAGCGGCACCAGCGGGCGGAATGACTGAATAAAGGTTTCGTACATGGCATTTT\n+GTTCAGTTAAATGCCAGCACTCTTCTACTCTGGCACGCAGTGCTGCGCGAGAAAG\n+>contig-201_955\n+TGGCCCCCTTTCCAGGTGACCGTGTAATCTGAACTACCCTTTGGTATCTTCAGTGCCTGCCTGCAGGCTG\n+AGGTGTTGCCCTTACAAATGCAACAACGACATGGATTACAACACCCTCATAAACAAAGGGCAATCACCTG\n+ATCTAAGCTCTTACCTATGACAGTGATAGGTTATGCCTTTTACTCGACTTTTGCACTGACTGAAAAGGAC\n+AAATTAATGTTAAAAAAGATACTTTTACTGGCTCTGCTTCCTGCAATCGCCTTCGCAGAGGAACTTCCTG\n+CTCCAGTAAAAGCGATTGAAAAACAGGGCATTACAATCATCAAAACATTCGATGCCCCCGGAGGAATGAA\n+AGGTTATCTCGGAAAGTATCAGGATATGGGCGTCACCATCTACCTGACTCCAGATGGTAAGCACGCTATC\n+TCTGGTTACATGTACAACGAGAAAGGTGAAAACCTGAGTAACACACTTATCGAAAAAGAAATTTACGCAC\n+CAGCCGGACGCGAAATGTGGCAACGGATGGAACAATCCCACTGGCTCCTCGACGGTAAAAAAGATGCGCC\n+GGTCATTGTCTACGTCTTCGCCGATCCGTTCTGCCCATATTGTAAACAGTTCTGGCAGCAGGCGCGCCCG\n+TGGGTAGATTCTGGCAAAGTGCAATTAAGAACATTGTTGGTTGGGGTTATCAAGCCAGAAAGCCCGGCGA\n+CAGCAGCGGCAATTCTTGCCTCCAAAGATCCCGCAAAAACCTGGCAACAATATGAAGCCTCTGGTGGCAA\n+GCTTAAGCTAAACGTGCCTGCAAACGTAAGTACAGAGCAAATGAAAGTGTTAAGTGACAATGAGAAACTG\n+ATGGACGATCTGGGGGCAAATGTCACGCCGGCTATCTATTACATGAGTAAGGAAAATACGCTACAACAGG\n+CCGTGGGGTTGCCCGATCAGAAAACGCTTAATATCATTATGGGGAATAAATAAAAGGTAATTCATGGATG\n+GTTGAACTATATCCCTGCTTTTCAACCATCCTAAAAAAGCATGAATTGCTCGCTCTGCCCTAAGTGGCTG\n+TGCTATTTTAGAAAAACTTAATCCTGAGTTAAGCAAAAAAACATAATCAATAAAAATATATACGCAAAAA\n+ACATTGATTAAGTGAATATATCATGGAAGAAAAATATAACCGGAGTAGTGTATGGCCAATCTCTACGACT\n+TGAAAAAGTTCGACTTAAATCTTCTTGTCATATTTGAGTGTATTTACCAG\n+>contig-201_956\n+GTTCGGGATGTTTCACTTCATCAATTAGAGTTAGTGCATCATTAAGACCAAGGTAATTCTGTGTCGAATA\n+GCGATAGGCCGCGATATTCAGTGAAGTACTTGTTTCTTCGAATAACTTGTTCCAGGAAACACGATAACTT\n+TGCCCCTGGTATGTTTTATCATCCGGGATACGAACATTGGAATGAGTCACATCGAAAGAAAATGCACCAA\n+CTGAAGTATTCAGACCAAGACCTAACAAACCAGCGGTATAGTTATTATCGGTTATCTGAATACCGGTATA\n+ACCCGTCAGATAGTTATTCAGGCCGTAGTAGTAGCTTGCTTGAAATAAATTAGGCTCATCCTGAATATCA\n+TCTTTTAAGACCTGACCGCCGCTAATATCCCAACGTCCAACGCCAGGGCGTAACATTTGAACAACGGATG\n+AGAAAGGTTGCGAGAATGTCCGCTTTGAGCCATCGGATTCTTCGATGGTAACAATAAGATCGCTGCCGTA\n+CCCTGACGGACTCAGATCATCAATGACGAAAGCGCCTGGCGGCACCGTCGTTTCATAAATCTTATAGCCA\n+CCTTGCGTAATAGTGACTTTGGCGTTGGTATTGGCAACGCCATGAATGATAGGCGCAAAGCTGGCTAAAG\n+TCGGAGGCAACATGCGGCTGTCACTGTATAAACGAATGCCTCGGATACTGACGGAATCAAAGGTTTCGCC\n+CGTCGTATAAGACTCACCAAGAATGAGTTGAGAACGCAGCGAGGCGATATCACGCTGAACATACCGATTC\n+TTAAAATCATAATTACTGCCAGAATCGGTCATCCAGTTGTAGTTGCCCGAGGCACGCAGTCGCCATGCAC\n+CTAAATTCATCCCACCGTTAAATGCAGCATAAATGCTTTCATTTTTTCGACCAGGGGTTTCACTATGATA\n+TCCGTTGAGGTTGTATGACAACATGGCCGCATTAATGCCGTTTTCCCATAACGATGGATCAACATAGTTT\n+TGGTAATTTTTCATTACCCAGGCTTGAGGAACGTCTATATCCAGACGTTGATCGTTAACGTCATAACGAA\n+CAGAAGCCTGAGGGATAATTTCCGTCAAATTGAGGCAATTGCCGAGCGTTTCATCCCTGGCAAGCAGAAC\n+GGCTTTTTCGTTATTTATATCGGGAGAATTAATATGAAACTGCAATAAATTCTTTAATGTGATACAAGCC\n+TGGGCGTTCTTTTTTCCTTCAATTGCGACAAATGTAATACTTTGGTTAAT\n+>contig-201_962\n+CCGGCTCGCGTTTGCCAAGATCCAACTCATTGAAGGCATAACCATGACGCTCAAGCAGTTGTGCCTCTTT\n+GATGGTGAAATCACCATGACGAGAGAATCCACGTGGATAATGTTTATTGTCGAAATATCGATTAGTCGTC\n+GTAAAGCTTTCCGCCATCCTGCACGCTCCTAATTCTTTGACCGAGCTAGTTATGGCGCGGAGTATTAGTT\n+ACGCTTGACAGAGTGTAAAACAAAACATTTAAATCATAACGACAAATAATTTTGCGGAGAGCACTGTGGA\n+TACGGAATTGTTAAAAACTTTCCTGGAAGTTAGCCGAACGCGTCACTTTGGTCGAGCGGCTGAATCGCTC\n+TATCTGACCCAGTCAGCAGTGAGCTTTCGAATCAGACAACTGGAAAATCAACTGGGTGTGAACCTTTTCA\n+CCCGCCACAGAAACAATATCCGTTTAACCGCTGCCGGTGAAAAACTACTGCCTTATGCAGAAACGCTCAT\n+GAGCACCTGGCAGGCCGCCCGTAAGGAGGTGGCGCATACCTCACGACATAACGAGTTTTCTATCGGTGCC\n+AGCGCCTCGTTGTGGGAATGTATGCTTAATCAGTGGCTGGGACGCTTGTATCAAAATCAGGATGCCCATA\n+CAGGCTTACAGTTCGAAGCGCGAATTGCCCAACGGCAGTCTCTGGTAAAACAGCTGCATGAACGCCAGCT\n+TGATCTTCTTATTACCACTGAAGCGCCCAAAATGGACGAATTTAGTAGTCAGTTGCTGGGATATTTCACT\n+TTAGCGCTTTATACCAGTGCCCCTTCAAAACTAAAGGGAGATCTTAATTATCTGCGACTTGAGTGGGGGC\n+CAGATTTTCAACAGCATGAGGCAGGTTTGATCGGTGCTGACGAAGTGCCCATTCTGACAACCAGTTCTGC\n+TGAACTGGCACAGCAACAGATTGCGATGCTTAATGGTTGCACCTGGCTACCCGTCAGCTGGGCGCGTAAA\n+AAAGGCGGCCTGCATACCGTTGTCGATAGCACAACACTTTCACGGCCGCTTTATGCCATATGGCTGCAAA\n+ATAGCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGA\n+ATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAG\n+CTTTCGCTAAGGATGATTTCTGGCAGG\n' |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/abundances.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/abundances.tsv Thu Jun 28 08:49:29 2018 -0400 |
| b |
| @@ -0,0 +1,236 @@ +contig-201_100 10.0483036227717 +contig-201_103 10.4792113995706 +contig-201_109 10.5951955529085 +contig-201_114 10.1189427312775 +contig-201_119 11.1817996742671 +contig-201_122 9.84835390946502 +contig-201_123 10.0651769087523 +contig-201_125 10.7371808179365 +contig-201_126 10.1927310488058 +contig-201_132 9.99578770008425 +contig-201_140 11.8097592433362 +contig-201_143 9.2919455841071 +contig-201_151 10.6901439162669 +contig-201_156 16.047619047619 +contig-201_162 10.0604567845947 +contig-201_163 10.6779775280899 +contig-201_165 10.2735870299482 +contig-201_170 10.6238677536232 +contig-201_171 9.66833257610177 +contig-201_177 9.95110192837465 +contig-201_18 9.66596565019278 +contig-201_188 10.5986903648269 +contig-201_19 9.77999062792877 +contig-201_193 9.41183431952663 +contig-201_2 11.2932163046712 +contig-201_205 10.8216295571324 +contig-201_219 10.9125751503006 +contig-201_221 9.079456877043 +contig-201_223 9.71570121951219 +contig-201_225 10.4176635276152 +contig-201_229 10.7303457106274 +contig-201_230 9.82517303255575 +contig-201_234 10.2354155911203 +contig-201_239 10.5213430504945 +contig-201_242 10.924464192368 +contig-201_245 10.0052673163023 +contig-201_249 10.086876155268 +contig-201_250 9.36224219989424 +contig-201_252 10.6196660482375 +contig-201_253 28.5196286472149 +contig-201_258 9.87939833467634 +contig-201_260 10.638418079096 +contig-201_262 9.12540453074434 +contig-201_266 9.86262241566921 +contig-201_269 10.088517402028 +contig-201_27 10.21198336366 +contig-201_272 8.72764786795048 +contig-201_282 25.3983739837398 +contig-201_285 10.9570621468927 +contig-201_286 10.087620124364 +contig-201_29 10.4003450106157 +contig-201_292 10.0156784492588 +contig-201_295 9.90841654778887 +contig-201_30 15.7308001070377 +contig-201_303 10.1399766218586 +contig-201_305 10.6149341142021 +contig-201_311 9.75299043062201 +contig-201_313 9.08580858085809 +contig-201_315 16.765681544029 +contig-201_321 10.4130829800121 +contig-201_330 8.33675373134328 +contig-201_332 9.38154613466334 +contig-201_333 10.9499687304565 +contig-201_339 9.52913385826772 +contig-201_343 9.55541441727533 +contig-201_351 9.25497113534317 +contig-201_352 12.2714101738571 +contig-201_357 10.5730081300813 +contig-201_359 9.8930081300813 +contig-201_366 10.5828665568369 +contig-201_368 10.1939755047997 +contig-201_371 12.8882215548882 +contig-201_376 10.102157788267 +contig-201_377 9.71317567567568 +contig-201_382 9.04791238877481 +contig-201_39 10.4600701754386 +contig-201_390 9.93353994490358 +contig-201_394 10.1849030470914 +contig-201_398 10.178596247394 +contig-201_401 9.71203638908328 +contig-201_402 9.81140657802659 +contig-201_404 10.6093366093366 +contig-201_406 10.6410978184377 +contig-201_408 10.5934530095037 +contig-201_411 9.83786647827623 +contig-201_412 9.8696113074205 +contig-201_417 10.2807829181495 +contig-201_423 10.6444444444444 +contig-201_429 10.2130371449381 +contig-201_431 10.3230316409124 +contig-201_434 9.97744082840237 +contig-201_44 16.7263474770642 +contig-201_447 9.71740768651093 +contig-201_448 9.72209653092006 +contig-201_449 9.26442851754055 +contig-201_459 8.52840259245139 +contig-201_464 11.4007766990291 +contig-201_465 8.2289156626506 +contig-201_471 11.0184893784422 +contig-201_475 9.54829770387965 +contig-201_477 10.3786138613861 +contig-201_48 10.7450922509225 +contig-201_480 25.2854864433812 +contig-201_483 9.03528468323977 +contig-201_484 10.0991569650743 +contig-201_495 9.98851988519885 +contig-201_504 9.30788381742739 +contig-201_507 10.3704781704782 +contig-201_508 11.3304203079484 +contig-201_515 10.3013008812421 +contig-201_516 10.1732548359966 +contig-201_519 10.1124210526316 +contig-201_528 9.29434447300771 +contig-201_534 8.86960313999128 +contig-201_539 9.87609841827768 +contig-201_540 9.43227792436236 +contig-201_548 11.7796081923419 +contig-201_55 10.8483426668685 +contig-201_557 9.3613369467028 +contig-201_558 8.55515370705244 +contig-201_559 10.5521305530372 +contig-201_560 9.5265306122449 +contig-201_561 9.86000911992704 +contig-201_563 9.20054819552307 +contig-201_566 11.7594123048669 +contig-201_567 10.4967860422406 +contig-201_569 9.78903730999539 +contig-201_571 10.623730378578 +contig-201_573 10.4485634847081 +contig-201_575 8.82311977715877 +contig-201_577 11.9446788560713 +contig-201_582 10.9886739027843 +contig-201_584 9.35541883577851 +contig-201_585 10.3745265151515 +contig-201_589 10.0463671128107 +contig-201_591 10.6379722620756 +contig-201_596 9.9985549132948 +contig-201_60 10.2119669000637 +contig-201_608 9.88295288975231 +contig-201_609 9.4914924647545 +contig-201_615 10.1020009760859 +contig-201_617 8.84799608993157 +contig-201_618 11.3785504407444 +contig-201_620 9.93851451057551 +contig-201_621 10.2567634038367 +contig-201_63 10.9189624617367 +contig-201_631 10.2543815723585 +contig-201_635 8.51132360342224 +contig-201_636 11.7353830645161 +contig-201_64 9.8240246074146 +contig-201_649 9.53666146645866 +contig-201_653 9.32603025560772 +contig-201_654 9.60574412532637 +contig-201_657 10.648167539267 +contig-201_658 10.2545835515977 +contig-201_659 9.54645669291339 +contig-201_66 10.8223989396952 +contig-201_663 9.97629083245522 +contig-201_666 10.2051687763713 +contig-201_669 8.97142857142857 +contig-201_67 9.84032069483882 +contig-201_670 9.08730158730159 +contig-201_674 8.93833067517278 +contig-201_680 10.6991434689507 +contig-201_687 10.972027972028 +contig-201_690 9.27008086253369 +contig-201_691 9.97510822510823 +contig-201_697 10.0720917531404 +contig-201_702 10.0455293472298 +contig-201_706 8.91964777105118 +contig-201_710 9.75 +contig-201_711 15.5618101545254 +contig-201_716 9.8811771238201 +contig-201_719 10.2357541899441 +contig-201_72 10.4967454607742 +contig-201_725 9.4 +contig-201_727 9.79469825155104 +contig-201_736 9.44348823866896 +contig-201_738 9.84858952216465 +contig-201_74 9.94477894374677 +contig-201_745 9.10208816705337 +contig-201_746 9.72083575159605 +contig-201_747 9.67483946293053 +contig-201_752 9.58264462809917 +contig-201_753 10.1712935617247 +contig-201_765 8.93169562612343 +contig-201_77 10.2923103932584 +contig-201_773 8.85060240963855 +contig-201_774 11.6118143459916 +contig-201_787 9.33599019006744 +contig-201_789 9.64211172498465 +contig-201_790 9.90411800860479 +contig-201_798 9.92861576660459 +contig-201_804 10.6950532247965 +contig-201_805 11.7849529780564 +contig-201_807 11.802135678392 +contig-201_817 9.96246819338422 +contig-201_818 10.8475765306122 +contig-201_826 9.08600770218228 +contig-201_827 12.1618497109827 +contig-201_829 9.87588424437299 +contig-201_832 8.06511927788524 +contig-201_838 9.21558441558442 +contig-201_840 10.4745762711864 +contig-201_844 9.71363339856491 +contig-201_845 10.2992796332678 +contig-201_846 9.80353634577603 +contig-201_847 9.34407894736842 +contig-201_853 9.33928571428571 +contig-201_86 9.74968530839777 +contig-201_863 9.66554734721289 +contig-201_864 8.81384408602151 +contig-201_872 9.4 +contig-201_886 10.356993736952 +contig-201_893 7.87114845938375 +contig-201_898 8.86984352773827 +contig-201_90 9.8601347659807 +contig-201_904 9.52525252525253 +contig-201_905 8.37237888647867 +contig-201_908 13.8620188816267 +contig-201_91 9.92617572001458 +contig-201_922 11.311755952381 +contig-201_926 9.23916292974589 +contig-201_930 8.78931527464259 +contig-201_933 9.6968085106383 +contig-201_934 10.820395738204 +contig-201_935 11.3783371472159 +contig-201_940 10.9442292796282 +contig-201_944 8.78811571540266 +contig-201_947 9.56141732283464 +contig-201_950 8.69261318506751 +contig-201_954 9.07791164658635 +contig-201_955 10.15 +contig-201_956 10.0177419354839 +contig-201_96 10.1921860465116 +contig-201_962 8.56532456861134 |
| b |
| diff -r 000000000000 -r 35aa0df55a62 test-data/interleavedPE_unmapped_Sample3_total.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/interleavedPE_unmapped_Sample3_total.fasta Thu Jun 28 08:49:29 2018 -0400 |
| b |
| b'@@ -0,0 +1,983468 @@\n+>1/1\n+TTAATCATGTTTACAGTAATGTAACCTTCCCGTAAAATGCCCACACACTTTAAACGCCACCAGATCCCGTG\n+>1/2\n+CTTCCATACCTTCGTGTGCGCTGTGCTCACCTTCTGGCTGGGTCATGTCCATGCTCTTACCGTGAGCCATAAACTTG\n+>10/1\n+GAGGTTATTGCTCGTATCGCAGCTAAACACAATGCGACTCCGGCACAAGTGATTCTGGCGTGGGCTATGGGGGAAGGTTACTCAGTAATTCCTTCTTCTACTAAACGTAAAA\n+>10/2\n+TTAATCGGACCACGCGACAACTTAGCCTGACGGAAGAAGGCGAGCGTTATTTTCGTCGCGTACAGTCAATTTTGCAGGAGATGGCAGCGGCAGAATCAGAAATTATGGAGACGCGTAAT\n+>11/1\n+ACCACACAGAGGTGTTGATTTCGCCATGCCGCAGGGTACGCCAGTGCTTTCAGTGGGTGACGGTGAAGTGGTGGTTGCCAAACGCAGTGGCGCAGCAGGTTAT\n+>11/2\n+CCTGATTATGGAACATCGCTGCCATTTTCTGCCCTTGCGAGGCCATCAGCATGGCAGGAATATCGACGGCCCAACCGTGCGGCACCAGA\n+>12/1\n+CTTCATCCACTCTTTTGTCAGCAGTCCTCGATCGGTGTAGTCAGCGTTCAGGTATGCTTCGAAAAAAGCAGTTATCAGTCCCAGGTTTGAATTACCAGGATTAGGGAAAA\n+>12/2\n+AAGGAAAGCGCATTGGCTACGTAATTAAAACAGAAAATAAAGAAACCCCATTCACTGTGGTTGATATCGATGGTCCATCAGGCAACGTAAAAAC\n+>21/1\n+TGGCAACACCATTGCCCGCCAGCCAGTTTCCGCCAGCGACTTTGCCCTGCAATTTACGCCCGGAAAACGCTATCGGGTCATTGACGTCATCCATAA\n+>21/2\n+ATCTATCTGGCTTCTCTCTTTGCGTTGGGTTTCCTGGTCTTTGGCC\n+>27/1\n+CCACAGCGCTACAATGCCCGCCCTTAAAGTGGGGGCACTCCCCTAACCGCT\n+>27/2\n+CGGTGCGTGCACAATAGTAGAAAGATTTGGTACGACCTTCGATTTTCAGCGAATGCACGCCCATTTTGGTCAGGGTTCTACATGGGCGATGGCGCGCAGACTTTC\n+>28/1\n+GGACGATAAAGAACTCTCTGCCTTTGGGGATAAAGCCCGCCGTCTGAACCTTGATATTCATATTGAAACCAG\n+>28/2\n+AATGGAAATATTCCTGCATCGGGATATAAAACGCATCTTTCAGCGACGGTAATTTATAAATTGTACCGCCACACAGTGTTAATAGACTAAATAACGCCCATTT\n+>32/1\n+TGTGCCATGCGCATCCCGTCACGCGTACGCGCCATGGTTAATTCAGCGTTCACCGCATTACGCTCACGTCGGCATATTTCTTGTCGAGCAAAGGTTCAGCAATAGCATCGGCCA\n+>32/2\n+GTCCGCGCCATTGCTGGTGTTACCTGAAAGTGGCGGCGCGTGGCTAAAAACCTGTTATGACGCGCAAAACGATGCCATGCTGGATGACG\n+>35/1\n+GGAGATAAAGCCGCGCTTACCGCCGCATTAAAAGCGGCAGGTCGTAAAGTGACTCAGGCAGGCTACCCTGAAGAT\n+>35/2\n+TACCGGTACGCTGTCAATGAAATGGGCGAGCGTCAGTGAGGGAAATGGCGGCTTTATTTTAATGCTGGTGATGATTTCTCTGTCGTAT\n+>37/1\n+TATGTATTGAGCGCGAACGGTGAGCGTAGCCCGGTCAACGATCATCCGTTCTGTCTTTTCAATCCGCAGGAAGATGCGCAGATT\n+>37/2\n+GTTCTGCCTGCTCTTGTGGGAACTGCTCGCGCTCAATCTGCTGTTCCAGGACGTAGAACAGATGGACCGGGTTTGCTGC\n+>42/1\n+AAAAGGGGACGATTCTAACGACGGTTAGCTTAATTGTCAGTCATCCGTATCAGAAAAGTTTTTACGCGTTTTTACCTGCGCCATGCTTTCCAGAATACGGTGATAGTTTTCGAAACGGGTTTCCGCGATTTTCCCTT\n+>42/2\n+CTACGACGACAATCTGTTTGGCGAGCCTGATGAAGGTATCGTCATCAGCCGCTTTGGTATGCACGCTGATGTGGAATCCGCCGATGGCGACGTTCACCGCTGCAATATTCGC\n+>46/1\n+TCGTCTGGATGAGCTATGCCAGGACGCGGCGGGCGTGAACTTTAACGGCTTCGCCTCGCGCCTGCGGGAAAAAGGGCCGCACTGGAGCGCCGAAGT\n+>46/2\n+CGCCATCGCGCAGGTTGTCGCACAGCTTCCACAGCTTCGCGACCAGATCGTTATTGTTCATTGTGAGTTCCGTAAATTAAGCAGCGGCCCAAATT\n+>51/1\n+CAGAAGTACTCTAAGGAGCGAATCATGGCAGCGAAAATCCGTCGTGATGACGAAGTTATCGTGTTAACCGGTAAAGATAAAGGTAAACGCGGTAAAGTTA\n+>51/2\n+GATGATCGCTTTCAGTTCAGCGCGTTTCGCGAAGTATTTATCAGCTAAAGCTACGCGTTTTACTTCGCGTGCTTTCATTGATTGCTTAGCCATTTA\n+>52/1\n+CTGCGGCAAAATCGCCCTGCTTCGCCTGTTTCAGTGCCGCATACGCCAGGCTGCGCGCTTGTCCGGAGTTGATGATCAGCCCCATCACCACTTCTTCCAGCTCTTCAGCT\n+>52/2\n+CTTCTCGGCATTAATTCCCGGCTTTATTATTCTTTCCGTGATGGGGATTATTGCCTGGGCGTTGAATACCTGGGGCACCAACTTCCATCAGATCATTATGGATACCATCTCAACCCCACTGGCATCGTTGG\n+>57/1\n+TAAAGAGTGCCAGTTTACGACAGGTTTAGCCGTTGTTATTACCACGACGTATAACGAAACGCGTATTCAGCCAAATACCAAATGTCCTGAAAAGAGCTAATAATCAGGAGGAGT\n+>57/2\n+CAAAGTCAGCCAGGCGTTCACTGTGTTCCTGCCGGTACGTTCCGTTGGCGTAATGGGCGATGGTCGTAAGTATGACTGGGTTGTCTCTCTG\n+>65/1\n+CGCTGCCATTTTCTGCCCTTGCGAGGCCATCAGCATGGCAGGAATATCGACGGCCCAACCGTGCGGCACCAGAAAGATAACTTTCTCGTTATTACGCCGCATCTCTT\n+>65/2\n+TGACCGGTCGCGTTGCACCACACAGAGGTGTTGATTTCGCCATGCCGCAGGGTACGCCAGTGCTTTCAGTGGGTGAC\n+>67/1\n+CAAAGGCGGCTGGCGTGAAATTTATCGCTTATACCAGCCTGCTACATGCAGATACCTCCCCGCTCGGCCTCGCCGATGAGCACATCGAGACGGAGAA\n+>67/2\n+CAGGGTGCCGATAATCATCGTGGAAACAGGCGCGCCAGTACGTTGAATGGCACTGGCAAGGCAGAAGTAATAGATGAGGTTGCCCATCATAGTGAGCATCAAGGCGGTAAGCCAGTCGCGAC\n+>70/1\n+GGCGCGCCGCGCTTCGGTGTTAAAACGCACGCTGTCGCCAGTGAGTGAGGCGTGGCGCTCCACTTCATAATCCAGGTTCGGTTCAATAT\n+>70/2\n+CGCCAGCGTTTCGCCAGAAACAGAAGTGGTGAGCGTTGAGATTGAACTGCATAACCCGTGGGATTTCGAAGAGGTCTACGCCTGCCTGC\n+>77/1\n+GCGCTTTGATCCCGGCTGCCCATACCATCAGATCAGCCTCAATATATTCGCCATCTTTAG\n+>77/2\n+TTTCAGCAACAAAACTTGATTAACATCAATTTTGGTATGACCAATGCACCATTCATGTTATTCTCAATAGCGAAGAA\n+>79/1\n+AACCTTTAATCTGATTGCGAAGGCTAACTCAGGGGTAGCGGTATTCGCTGCGG'..b'AGGAATTTGCAAATAAATAAGTGTCGTCATATTTCCCTCTGGTCATTGGGTGGACTCTTAAAGGGTAGACGCTGATAAATAAC\n+>999915/2\n+CCGATCAACTGGTCGCCATGCGTGTATATATGGACGGGCGGTTAATTGTTTCGACCCGACAACGCAAAGTGCTGGCGCTGGACGATGTG\n+>999917/1\n+GTCTGTGCCATTGGTGCGGTGATCGGTTTGATCAACGGTCTGATTATCGCTTATCTCAACGTGACGCCGTTCATTACCACGCCGGCACGATGATCATCGTCTATG\n+>999917/2\n+ACGTCTGCCCGGTGGGTTGTATTGAGCTCGGGGAAGTGAAGTTTAAGAAAGGCGAGAAAGA\n+>999921/1\n+CATGCACCGCAACCAGACTTTTAACCGCAGTTGCGCCCACCATCGCAAAGTGATTTATCAGCCCACTGGCCAGCAACAATACAAAGAGTAA\n+>999921/2\n+GATGTCCTTCACTCGACGCAAATTTGTTCTGGGGATGGGAACAGTAATCTTTTTTACTGGTTCTGCGTCTTCTCTGTTAGCGAACACGAGG\n+>999925/1\n+CGCCTGGGCAATAACCAATGCGTCGAGATACATCACCTCATCTTCAAAAGTGGCGTAGCCTTCACTGTCGCAGGTGGTAGCGCGAATGAAGGCAATATCTGGCGCAATCGCTTTGTAATAGAG\n+>999925/2\n+CTGACGTTGCTTGCCGCGACCCTGGAGATGCAGGAGCAGTATGCCGATCGTCCAATTATCACGATGTCGATGGCAAAAACTGGCGTAATTTCTCGTCTGGCTGGTGAAGTATTTGGCTCGGCGGCAACTT\n+>999926/1\n+ATCGAACAATACTTTGCCCTGCGCATCGGTCATATAGACATGATATTCATTGCGCACTTTGTTAATGCCACCGATATTGGCGCGAAACGGG\n+>999926/2\n+AAACGGTCTGGTTAGTGGAAGATGAGCAAGGGATAGCCGACACGCTGGTCTACATGTTGCAGCAGGAAGGTTTTGCCGTCGAGGT\n+>999937/1\n+GCGGGTCCGCGCGGCGGCCTGATCCTGGCGAAAGGTGGTAGCGAAGAGCTGTACAAAAAACTGAACTCTGCCGTTTTCCCTGGTGGT\n+>999937/2\n+TGAGTCTGTATAACTTCCTCAACATCCTCAATATTAATCAGATTTGGTTGTACGGTCGCAGTTGTGCCTTTGGTGAGAACTGGCTTAATACTATTATTCGCCAGAC\n+>999947/1\n+CGCCTTTAAAATCGCTTTTCCCCGTGCCCCACAGGTCGCGCAGCACCTGAACATATTCGGTGAGATAGTCGTAACGACGGGAGAAATAGTCATCGC\n+>999947/2\n+GAATCTGCCGCAGCACGGCAATATACAGCGCCTCTTTTGACGGAAAGTAATACAGCAGATTGGTTTTTGAAACACCCGCCAACTCTGCGAT\n+>999955/1\n+ATAGGATTAAGCGCGGCGCTGGAATGGCTGGCAGATTACGATATCAACCAGGCCGAAAGCTGGAGCCGTAGCTTAGCAAC\n+>999955/2\n+GCCACGGCAGAAGGGCCGAAGCGGATGGATTGTGCATCTGGATTTGGCGCGGCAACGATGGTGACCGCCACCT\n+>999956/1\n+TTTCTGGCTTAGCGCGCTCTTTCATCGTCATCGAGTTGATGATGGCTTCCATACGCACCAGCACTTTATCGTCCATCTGTGACT\n+>999956/2\n+GTTGGTCATGAAGTTAATAAGAGCCTGACGCCGGGGCAGGAGTTCGTCA\n+>999960/1\n+CGTGCCAAAATTGAACGCGTCCCTTTTATTGACACCTTCGATTTACGTTACAA\n+>999960/2\n+TATAAGGTAGTAATGCAAAATAAAATTAACGTCAGCAATAAACTGAAAATAAAAAAGCTTTGAGCTTTT\n+>999962/1\n+CCCTTATCCATCTTCAGAATGAGTATTATTGCGGATTTTCTTAACCCGTACTATAC\n+>999962/2\n+ATACCGCGTCGTCCATTAAGCGTACTCATATGGAACTTG\n+>999970/1\n+CCTGCCCGAATGGTCCACCACTTTCATTATTACCCTGATATTGCAAAGCAAAGTTCAAGCCATCGACCTAACCAAAGAAGCCATTGTTACGGTAGGTTGCAACACCA\n+>999970/2\n+ATTAATTCATTTAATCAATATATTAGCACTGATTACAATTATACCTTTTTATTATTCTGT\n+>999975/1\n+AAAAGAATTATAAGGAGGACACGGTACGACAAAAAAGGTAGATGAATCATGTTGAAGATAATACCCGGTGCAACTGGATACTTTAATAAAA\n+>999975/2\n+ATTAATTTAGAAGTGTCTGTAAGTATTTTAATCTCTTCCTTTGAGGTTGGGTCAAACGACTTCGCGAAGCTAATTAATTGTGGTGCAGCATCTCG\n+>999978/1\n+TCCGTTGCAGTCGCTTTTTTCTGACTCAACCGTCGGTTATGCCTGTGCGGCACTTATGTTCTCCATTGGCGGCTTTATTTTTATGATGCTGTGCTACAGAGGCGTCAAAG\n+>999978/2\n+GAGGCAGAGGTCAGAGAAGATAATAAAATTATTGCATTAATCTTTTTCATAATAAGTCCATTTTTT\n+>999982/1\n+AGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCGGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGA\n+>999982/2\n+TCGTCCGTTCGTACCTGAACTGGTGGATGGTAAACCCTGGCAGTCGTATGAAACAGCGCAAATTGCGGTTGATCTGCGCTTCT\n+>999983/1\n+CCATATCGATAGTCACGTTTTCCTGCGCGTAGGTATCGGTATAGGTTAATTTTTC\n+>999983/2\n+GCCGCCAGACGCTGGATGCGCAGGTCATTAGCGGCGAAGGGGAAGATAATGTGCTGACGTTATCATTACCAGCCTCAGCCAGCGCACCTTATGCCGTTGAACGCATGGCGGCGCTTTTGCAACAAA\n+>999984/1\n+GGCTCACGCAGCTTGCGGGCAAAGGCAGTTTTTTTCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAG\n+>999984/2\n+TGGCGCGGTGATTGCGATGCATGATTCGTTTACCGCTCTCGGTGGCATGGTGCCGATGTGGCTGATGCAAATTGGTGAAGTGGTGTTCGGCGGTGTCGGTTCTGGTCTTTACGGC\n+>999985/1\n+GCCGTTGATTATTCACTACAACAACGGCGGCGCGGTTCGTCTGGGCGATGTGGCGACGGTGACCGACTCAGTGCAGGATGTGCGCAACGCCGGGATGACCAACGCCAAACC\n+>999985/2\n+CATCGCCTGAAACGAAATACTCTGATCCGCCTGAATCCCGCCCATCAACACGCCAGTGTCCTGCTCCGGGAAGAAGGTT\n+>999987/1\n+GAACATAAAACTGGTTCATTAAGTTTCCTTGCTTGCTGGCTGTGTGAGAACTCCAGCATACCACCGAGCCTGAAG\n+>999987/2\n+GTCATCCTGGATCGCTTGATAGCGATCTAACCAGGTTGACGTTGTGATAGCCTTTCCTTTGCTGGTTGCGATCCTGTCACTGATAGCCAGAATCTGCCGGGTTCTTTGTT\n+>999999/1\n+CATCTGGCAATGCCGAAACCGTCTTTATTCGTCCGTGAACAAAAATCCCCTTCTGCATCGGTGACGGTAAATCTGTTACCCGGCCGCGCACTCGATGAAG\n+>999999/2\n+CAGCTTTCATCGCCTCAGCGCGACGTGTTAGCTGCGGACGTACCGCTTTCCGCCACAGCAGCCACGCCACCAGCAGTACCAGCAACCAGCGACCGGCA\n' |