Previous changeset 3:98242353faa4 (2018-05-14) Next changeset 5:7518ee87b53d (2020-09-08) |
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/megahit commit d44d890566efb82b4ce8a9ed2903b0902f3884ca |
modified:
megahit_wrapper.xml test-data/paired_result.fa |
added:
test-data/interleaved-fq.fa test-data/interleaved_result.fa |
b |
diff -r 98242353faa4 -r de387b2b2803 megahit_wrapper.xml --- a/megahit_wrapper.xml Mon May 14 06:11:34 2018 -0400 +++ b/megahit_wrapper.xml Mon Feb 18 12:14:46 2019 -0500 |
[ |
b'@@ -1,8 +1,8 @@\n <?xml version=\'1.0\' encoding=\'utf-8\'?>\n-<tool id="megahit" name="MEGAHIT" version="@VERSION@.3">\n+<tool id="megahit" name="MEGAHIT" version="@VERSION@.4">\n <description>for metagenomics assembly</description>\n <macros>\n- <token name="@VERSION@">1.1.2</token>\n+ <token name="@VERSION@">1.1.3</token>\n </macros>\n <requirements>\n <requirement type="package" version="@VERSION@">megahit</requirement>\n@@ -22,15 +22,20 @@\n -1 \'${input_option.batchmode.pair_input.forward}\'\n -2 \'${input_option.batchmode.pair_input.reverse}\'\n #end if\n+ #else if $input_option.choice == \'interleaved\'\n+ --12 \'${input_option.interleaved_file}\'\n #else\n -r \'${input_option.single_files}\'\n #end if\n ##basic assembly\n --min-count \'${basic_section.min_count}\'\n- --k-min \'${basic_section.k_min}\'\n- --k-max \'${basic_section.k_max}\'\n- --k-step \'${basic_section.k_step}\'\n- --min-contig-len \'${basic_section.min_contig_len}\'\n+ #if $basic_section.k_mer.k_mer_method == "klist_method":\n+ --k-list \'${basic_section.k_mer.k_list}\'\n+ #else:\n+ --k-step \'${basic_section.k_mer.k_step}\'\n+ --k-min \'${basic_section.k_mer.k_min}\'\n+ --k-max \'${basic_section.k_mer.k_max}\'\n+ #end if\n ##advanced assembly\n ${advanced_section.nomercy}\n --bubble-level \'${advanced_section.bubble_level}\'\n@@ -40,17 +45,22 @@\n --low-local-ratio \'${advanced_section.low_local_ratio}\'\n ${advanced_section.nolocal}\n ${advanced_section.kmin1pass}\n+ --min-contig-len \'${output_section.min_contig_len}\'\n && cat megahit_out/log\n ]]></command>\n <inputs>\n <conditional name="input_option">\n <param name="choice" type="select" label="Select your input option">\n <option value="single" selected="true">Single</option>\n+ <option value="interleaved">Interleaved-paired-end</option>\n <option value="paired">Paired-end</option>\n <option value="paired_collection">Paired-end collection</option>\n </param>\n <when value="single">\n- <param name="single_files" argument="-r" type="data" format="fastq,fastqsanger,fasta,fastq.gz,fastqsanger.gz" multiple="true" label="Single-end file(s)" help="FASTQ/FASTA/FASTQ.GZ files accepted" />\n+ <param name="single_files" argument="-r" type="data" format="fastq,fastqsanger,fasta,fastq.gz,fastqsanger.gz,fastq.bz2" multiple="true" label="Single-end file(s)" help="Accepts fasta (.fasta, .fa) and fastq (.fastq) formats as well as gzip (.gz) and gzip2 (.bz2) files" />\n+ </when>\n+ <when value="interleaved">\n+ <param name="interleaved_file" argument="--12" type="data" format="fastq,fastqsanger,fasta,fastq.gz,fastqsanger.gz,fastq.bz2" multiple="true" label="Interleaved-paired-end file(s)" help="Accepts fasta (.fasta, .fa) and fastq (.fastq) formats as well as gzip (.gz) and gzip2 (.bz2) files" />\n </when>\n <when value="paired">\n <param name="fastq_input1" argument="-1" type="data" format="fastq,fastqsanger,fasta,fastq.gz,fastqsanger.gz" multiple="true" label="Mate 1 input reads"/>\n@@ -72,14 +82,24 @@\n </when>\n </conditional>\n <section name="basic_section" title="Basic assembly options" expanded="True">\n- <param name="min_contig_len" argument="--min-contig-len" type="integer" value="200" label="minimum length of contigs to output" />\n- <param name="min_count" argument="--min-count" type="integer" value="2" label="minimum multiplicity for filtering (k_min+1)-mers"/>\n- <param name="k_min" argument="--k-min" type="integer" value="21" label="minimum kmer size" max="255" help="must be odd number"/>\n- <param name="k_max" argument="--k-max" type="integer" value="141" label="maximum kmer size" max="255" help="must be odd number"/>\n- <p'..b'of length " value="20,0.95" />\n <param name="prune_level" argument="--prune-level" type="integer" value="2" min="0" max="3" label="strength of low depth pruning" />\n@@ -88,9 +108,17 @@\n <param name="nolocal" type="boolean" checked="false" truevalue="--no-local" falsevalue="" label="disable local assembly" />\n <param name="kmin1pass" type="boolean" checked="false" truevalue="--kmin-1pass" falsevalue="" label="use 1pass mode to build SdBG of k_min" />\n </section>\n+ <section name="output_section" title="Output options" expanded="True">\n+ <param name="min_contig_len" argument="--min-contig-len" type="integer" value="200" label="minimum length of contigs to output" />\n+ <param name="show_intermediate_contigs" type="boolean" checked="false" label="Return intermediate contigs?"/>\n+ </section>\n </inputs>\n <outputs>\n <data format="fasta" name="output" from_work_dir="megahit_out/final.contigs.fa" label="Assembly with ${tool.name} on ${on_string}" />\n+ <collection name="intermediate_contigs" type="list" label="Intermediate contigs from ${tool.name} on ${on_string}">\n+ <filter>output_section[\'show_intermediate_contigs\']</filter>\n+ <discover_datasets pattern="(?P<designation>.*\\d)\\.contigs\\.fa$" ext="fasta" directory="megahit_out/intermediate_contigs" />\n+ </collection>\n </outputs>\n <tests>\n <test>\n@@ -105,6 +133,13 @@\n </output>\n </test>\n <test>\n+ <conditional name="input_option">\n+ <param name="choice" value="interleaved"/>\n+ <param name="interleaved_file" value="interleaved-fq.fa"/>\n+ </conditional>\n+ <output name="output" file="interleaved_result.fa"/>\n+ </test>\n+ <test>\n <conditional name="input_option">\n <param name="choice" value="paired"/>\n <param name="fastq_input1" value="paired-fq1.fa"/>\n@@ -113,23 +148,23 @@\n <output name="output" file="paired_result.fa"/>\n </test>\n <test>\n- <conditional name="input_option">\n- <param name="choice" value="paired_collection"/>\n- <conditional name="batchmode">\n- <param name="processmode" value="merge"/>\n- <param name="pair_input_list">\n- <collection type="list:paired">\n- <element name="Pair1">\n- <collection type="paired">\n- <element name="forward" value="paired-fq1.fa" ftype="fasta"/>\n- <element name="reverse" value="paired-fq2.fa" ftype="fasta"/>\n- </collection>\n- </element>\n- </collection>\n- </param>\n+ <conditional name="input_option">\n+ <param name="choice" value="paired_collection"/>\n+ <conditional name="batchmode">\n+ <param name="processmode" value="merge"/>\n+ <param name="pair_input_list">\n+ <collection type="list:paired">\n+ <element name="Pair1">\n+ <collection type="paired">\n+ <element name="forward" value="paired-fq1.fa" ftype="fasta"/>\n+ <element name="reverse" value="paired-fq2.fa" ftype="fasta"/>\n+ </collection>\n+ </element>\n+ </collection>\n+ </param>\n+ </conditional>\n </conditional>\n- </conditional>\n- <output name="output" file="paired_result.fa"/>\n+ <output name="output" file="paired_result.fa"/>\n </test>\n </tests>\n <help><![CDATA[\n@@ -149,4 +184,4 @@\n <citations>\n <citation type="doi">10.1093/bioinformatics/btv033</citation>\n </citations>\n-</tool>\n+</tool>\n\\ No newline at end of file\n' |
b |
diff -r 98242353faa4 -r de387b2b2803 test-data/interleaved-fq.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/interleaved-fq.fa Mon Feb 18 12:14:46 2019 -0500 |
b |
b'@@ -0,0 +1,400 @@\n+>megahit_ref_example_454_1062_2:0:0_1:0:0_c8/1\n+GTCCGTCCAAATCTCGCAACAATCGGCGCGTAAACAGGCAGCCAGCACCGCAGCAGAGTAGTCGGAACCGTTGCGTCCAAGCACCACCAGTTCGCCTTAT\n+>megahit_ref_example_454_1062_2:0:0_1:0:0_c8/2\n+CCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTAAGCCAATATCAGCGATGCCGAACGTATTTTTGCCG\n+>megahit_ref_example_183_711_2:0:0_2:0:0_c9/1\n+AACATCCATGAAACGCATTAGCACCACCATTACGACCACCAACACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCC\n+>megahit_ref_example_183_711_2:0:0_2:0:0_c9/2\n+ACGGCAAATCAGCGCAGCGTTGATGCTATCCGGGCACTGCCCGAACAAACTAATGGCATGCAGGACATGTTTTATTTGGGCAAATTCCTGATCGACGAAA\n+>megahit_ref_example_447_926_3:0:0_0:0:0_ca/1\n+CTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCTGCCAGGATGCTTTACCCAATATCATCGATGCGGAACGTATT\n+>megahit_ref_example_447_926_3:0:0_0:0:0_ca/2\n+GCCACTGATGTACCGCCGGTGAAACCTGCCATCAGCACCATGTGATCAGCCGGAATGCGGCTTGCCGCAATACGGCGGGTGGACTCAGCAATATCGACGG\n+>megahit_ref_example_35_557_3:0:0_4:0:0_cb/1\n+TCTGTGTGGATTAAAAAAAGAGTGTCTGATAGCAGCTTCTGAACTTGTAACCAGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTT\n+>megahit_ref_example_35_557_3:0:0_4:0:0_cb/2\n+AGTTCGGCAAAAATACGTTCGGCATCGCAGATATTGGGTAACGCATGCTGGCCGCTAATGGTTTTTTCAATCATCGCCACCAGGTGGTAGGTGATTTTGG\n+>megahit_ref_example_423_941_6:0:0_1:0:0_cc/1\n+GCAGGGGCAGGAGGCGAGCGTCCTCTCTGCCCCCGCCAAAATCACCAAGCACCTGGTTGCGATGATTGAAAAACCCATTAGCGGCCAGGATGCTTTACCC\n+>megahit_ref_example_423_941_6:0:0_1:0:0_cc/2\n+AAACGTTCTGCATTTGCCACTGATGTACCGCCGGTGAAAGCTGCCATCAGCACCATGTGATCAGCCGGAATGCGGCTTGCCGCAATACGGCGGGTGGACT\n+>megahit_ref_example_683_1208_1:0:0_1:0:0_cd/1\n+TGGAACTGGGCGATGGGGGTAATGGTGCGGGGGTGAAGAACATTAGCGCCGAAGTAGGAAAGCTCCATCGCTTCCTGGTAGGACATCGACTTCAACAACC\n+>megahit_ref_example_683_1208_1:0:0_1:0:0_cd/2\n+ATAGCCTCAACGCTGCGCTGATTTGCCGTGGCGAGAAAATGTCGATCGCCATTATGGCCGGCGTATTAGAAGCGCGCGGTCACAACGTTACTGTTATCGA\n+>megahit_ref_example_102_568_2:0:0_1:0:0_ce/1\n+GTCCCGTCAAAAGTTCGGCAAAAATACGTTCGGCATCGCTGATATTGGGTAAAGCATCCTGGCCGCAAATGGTTTTTTCAATCATCGCCACCAGGTGGTT\n+>megahit_ref_example_102_568_2:0:0_1:0:0_ce/2\n+AAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGCGTACACAACATCCATGACACGCATT\n+>megahit_ref_example_435_844_3:0:0_2:0:0_cf/1\n+ACTCAGCAATCTCGACGGTAGATTCGAGGTAATGCCCCACTGCCAGCAGTTTTTCGACCGGATCGATACCAGTAACGTTGTGACCGCGCGCTTCTAATAC\n+>megahit_ref_example_435_844_3:0:0_2:0:0_cf/2\n+GGCCACCGTCCTCTCTGCCCCCGCCACAATCACCACCCACCTGGTGGCGATGATTGCAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGAT\n+>megahit_ref_example_551_990_1:0:0_2:0:0_d0/1\n+CCGAACTTTTGAGGGGACTCGCCGCCGCCCAGCCGGGGTTCCCGCTGGCGCAATTGAAAACTTTCGTCGATCAGGAATTTGCCCAAATAAAACATGTCCT\n+>megahit_ref_example_551_990_1:0:0_2:0:0_d0/2\n+GCGTCCAAGCACCACCAGTTCGCCTTTTTCATTACCGGCAACACGCCGAAAACGTTCTGCATTTGCCACTGATGTCCCGCCGGTGAAACCTGCCATCAGC\n+>megahit_ref_example_446_903_2:0:0_2:0:0_d1/1\n+ACCTGCCATCAGCACCATGTGATCAGCCGGAAAGCGGCTTGCCGCAATACGGCGGGTGGACTCAGCAATATCGACGGTAGATTCGAGGTACTGCCCCACT\n+>megahit_ref_example_446_903_2:0:0_2:0:0_d1/2\n+TCTCTGCCCCCGCCAAAATCACCAACCACCAGGTGGCGATGATTGAACAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGTAT\n+>megahit_ref_example_274_766_8:0:0_1:0:0_d2/1\n+TGTGACCGCGCGCTTCTAATACGCCGGCCATAATGGCGATCGACATTTTCTCGCCACGGCAAATCAGCGCAGCGTTGATGCTATCCGGGCACTGCCCCCA\n+>megahit_ref_example_274_766_8:0:0_1:0:0_d2/2\n+AAAAAATCCCGCACCTTACAGTGCGGGCTTTTTTTTTCGACCAACGGTAACGCGGAAACAAGCAAGCGAGTTTTGAAGTTCGGCGGTACATCAGTGGCAA\n+>megahit_ref_example_302_779_3:0:0_4:0:0_d3/1\n+TATTTTTTTCGACCAAAGGTAACGAGGTAAGAACCATGCGAGTGTTGAAGTTCGGCGGTACCTCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGA\n+>megahit_ref_example_302_779_3:0:0_4:0:0_d3/2\n+ATAACCGTACCGTTGTGACCGCGCGCTTCTAATACGCCGGCCATAATGGCGATCGACATTTTCTCGGCACGGCAAATCAGCGCAGCGTTGATTCTATCCG\n+>megahit_ref_example_664_1070_2:0:0_5:0:0_d4/1\n+CCGTCACCGTCCGTCCAAATCTCGCAACAAACGGCGCGTAAACAGGCAGCCAGCACCGCAGCAGAGTAGTCGGAACCTTTGCGTCCAAGGACCCCCAGTT\n+>megahit_ref_example_664_1070_2:0:0_5:0:0_d4/2\n+TTGTTGGGGCAGTTCCCGGATAGCATCAACGCTGCGCTGATTTTCCGTGGCGAGAAAATGTCGATCGCCATTATGGCCGGCGTATTAGAAGCGCGCGGTC\n+>megahit_ref_example_190_676_5:0:0_0:0:0_d5/1\n+ATGAAACGCATTAGCACCACCATAACCCCCACCAACACGATTACCAGAGGTAACG'..b'AATTTGCCCAAATAAAACATGTCCTGCATGGCATAAGATTGTTGGGGCAGTGCCCGGATAGCAT\n+>megahit_ref_example_175_730_3:0:0_2:0:0_11f/1\n+GAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCAGCATTACGACAGGTAACGGTGCGGGCTGACGCTTACAGGAAACACAGA\n+>megahit_ref_example_175_730_3:0:0_2:0:0_11f/2\n+CGATCGACATTTTCTCGCCACGGCAAATCAGCGCAGCGTTGATGCTATCGGGGCACTGCCCCAACAAACTAATTCCATGCAGGACATGTTTTATTTGGGC\n+>megahit_ref_example_694_1127_1:0:0_1:0:0_120/1\n+GCTGCGCTTATTTGCCGTGGCGAGAAAATGTCGATCGCCATTATGGCCGGCGTATTAGAAGCGCGCGGTCACAACGTTACTGTTATCGATCCGGTCGAAA\n+>megahit_ref_example_694_1127_1:0:0_1:0:0_120/2\n+GACATCGACTTCAACAACCTCGCATCGGGCACCTGACGCGGGTCGCAGGTATAGACCCGGTCAACGTCCGTCCAAATCTCGCAACAATCGGCGCGTAAAC\n+>megahit_ref_example_539_991_1:0:0_3:0:0_121/1\n+TGCGTCCAAGCACCACCAGTTCGCCTTTTTCATTACCGGCAACACGCAGAAAACGTTCTGCATTTGCCACTGATTTACCGCCGGATAAACCTGCCATCAG\n+>megahit_ref_example_539_991_1:0:0_3:0:0_121/2\n+AACGTATTTTTGCCGAACTTTTGACGGGACTCGCCGCCGCCCAGCCGTGGTTCCCGCTGGCGCAATTGAAAACTTTCGTCGATCAGGAATTTGCCCAAAT\n+>megahit_ref_example_689_1161_1:0:0_0:0:0_122/1\n+GCCGAAGTAGGAAAGCTCCATCGCTTCCTGGTAGGACATCGACTTCAACAACCTCGCATCGGGCACCTGACGCGGGTCGCAGGTATAGACCCCGTCAACG\n+>megahit_ref_example_689_1161_1:0:0_0:0:0_122/2\n+TCAACGCTGCGCTGATTTGCCGTGGCGAGAAAATGTCGATCGCCATTATGGCCGGCGTATTAGAAGCGCGCGGTCACAACGTTAGTGTTATCGATCCGGT\n+>megahit_ref_example_371_878_3:0:0_1:0:0_123/1\n+CAAATGCAGAACTTTTTCAGCGTGTTGCCGATATACTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAA\n+>megahit_ref_example_371_878_3:0:0_1:0:0_123/2\n+GCCGGAATGCGGCTTGCCGCAATACGGCGGGTGGACTCAGCAATATCGACGGTAGATTCGAGGTAATGCCCCACTGCCAGCAGTATTTCGACCGGATCGA\n+>megahit_ref_example_407_902_2:0:0_2:0:0_124/1\n+CCTGCCATCAGCACCATGTGATCAGCCGGAATGCGGCTTGCCGCAATACGGCGGGTGGACTCAGCAATATCGACGGTCGATTCGATGTAATGCCCCACTG\n+>megahit_ref_example_407_902_2:0:0_2:0:0_124/2\n+TGGAAAGCAATTCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACGAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGG\n+>megahit_ref_example_496_1063_2:0:0_1:0:0_125/1\n+ACCATTAGCGGCCAGGATGCTTTACCCCATATCAGCGATGCCGAACGAATTTTTGCCGAACTTTTGACGGGACTCGCCGCCGCCCAGCCGGGGTTCCCGC\n+>megahit_ref_example_496_1063_2:0:0_1:0:0_125/2\n+CGTCCGTCCAAATCTCGCAACAATCGGCGCGTAAACAGGCAGCCAGCACCGCAGCAGAGAAGTCGGAACCGTTGCGTCCAAGCACCACCAGTTCGCCTTT\n+>megahit_ref_example_529_1002_0:0:0_1:0:0_126/1\n+GTCGGAACCGTTGCGTCCAAGCACCACCAGTTCGCCTTTTTCATTACCGGCAACACGCAGAAAACGTTCTGCATTTGCCACTGATGTACGGCCGGTGAAA\n+>megahit_ref_example_529_1002_0:0:0_1:0:0_126/2\n+AGCGATGCCGAACGTATTTTTGCCGAACTTTTGACGGGACTCGCCGCCGCCCAGCCGGGGTTCCCGCTGGCGCAATTGAAAACTTTCGTCGATCAGGAAT\n+>megahit_ref_example_486_996_1:0:0_5:0:0_127/1\n+ACCGTTGCGTCCAAGCAGCACCAGTTCGCCTTTTTCATAACCGGCAACACGCAGAAAACTTTCTGCATTTGCGACTGATTTACCGCCGGTGAAACCTGCC\n+>megahit_ref_example_486_996_1:0:0_5:0:0_127/2\n+GATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGAATTTTTGCCGAACTTTTGACGGGACTCGCCGCCGCCCAGCCG\n+>megahit_ref_example_200_640_1:0:0_0:0:0_128/1\n+TTATTTGGGCAAATTCCTGATCGACGAAAGTTTTCAATTGCGCCAGCGGGAACCCCGGCTGGGCGGCGGCGAGTCCCGTCAAAAGTTCGGCAAAAATACG\n+>megahit_ref_example_200_640_1:0:0_0:0:0_128/2\n+TTAGCCCCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGG\n+>megahit_ref_example_370_888_2:0:0_2:0:0_129/1\n+GGAAATGCAGAACGTTTTCTGCGTGTTGCCGATATTCTGGAAAGGAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCA\n+>megahit_ref_example_370_888_2:0:0_2:0:0_129/2\n+CATGTGATCATCCGGAATGCGGCTTGCCGCAATACGGGGGGTGGACTCAGCAATATCGACGGTAGATTCGAGGTAATGCCCCACTGCCAGCAGTTTTTCG\n+>megahit_ref_example_335_841_1:0:0_2:0:0_12a/1\n+CCATGCGATTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGT\n+>megahit_ref_example_335_841_1:0:0_2:0:0_12a/2\n+CAGCAATATCGACGGTAGATTGGAGGTAATGCCGCACTGCCAGCAGTTTTTCGACCGGATCGATAACAGTAACGTTGTGACCGCGCGCTTCTAATACGCC\n+>megahit_ref_example_42_498_1:0:0_2:0:0_12b/1\n+GGTTTTTTCAATCATCGCCACCAGGTGGTTGGTGATTTTGGGGGGGGCAGAGATGACGGTGGCCACCTGCCCCTGCCTGGCATTGCTTTCCAGAATATCG\n+>megahit_ref_example_42_498_1:0:0_2:0:0_12b/2\n+GGATTAAAAAAAGAGTGTCTGAAAGCAGCTTCTGAACTGGTTACCTGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAAT\n\\ No newline at end of file\n' |
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diff -r 98242353faa4 -r de387b2b2803 test-data/interleaved_result.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/interleaved_result.fa Mon Feb 18 12:14:46 2019 -0500 |
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@@ -0,0 +1,2 @@ +>k59_1 flag=1 multi=8.7336 len=1215 +TGACTGCAACGGGCAATATGTCTCTGTGTGGATTAAAAAAAGAGTGTCTGATAGCAGCTTCTGAACTGGTTACCTGCCGTGAGTAAATTAAAATTTTATTGACTTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTACACAACATCCATGAAACGCATTAGCACCACCATTACCACCACCATCACCATTACCACAGGTAACGGTGCGGGCTGACGCGTACAGGAAACACAGAAAAAAGCCCGCACCTGACAGTGCGGGCTTTTTTTTTCGACCAAAGGTAACGAGGTAACAACCATGCGAGTGTTGAAGTTCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGATATTCTGGAAAGCAATGCCAGGCAGGGGCAGGTGGCCACCGTCCTCTCTGCCCCCGCCAAAATCACCAACCACCTGGTGGCGATGATTGAAAAAACCATTAGCGGCCAGGATGCTTTACCCAATATCAGCGATGCCGAACGTATTTTTGCCGAACTTTTGACGGGACTCGCCGCCGCCCAGCCGGGGTTCCCGCTGGCGCAATTGAAAACTTTCGTCGATCAGGAATTTGCCCAAATAAAACATGTCCTGCATGGCATTAGTTTGTTGGGGCAGTGCCCGGATAGCATCAACGCTGCGCTGATTTGCCGTGGCGAGAAAATGTCGATCGCCATTATGGCCGGCGTATTAGAAGCGCGCGGTCACAACGTTACTGTTATCGATCCGGTCGAAAAACTGCTGGCAGTGGGGCATTACCTCGAATCTACCGTCGATATTGCTGAGTCCACCCGCCGTATTGCGGCAAGCCGCATTCCGGCTGATCACATGGTGCTGATGGCAGGTTTCACCGGCGGTACATCAGTGGCAAATGCAGAACGTTTTCTGCGTGTTGCCGGTAATGAAAAAGGCGAACTGGTGGTGCTTGGACGCAACGGTTCCGACTACTCTGCTGCGGTGCTGGCTGCCTGTTTACGCGCCGATTGTTGCGAGATTTGGACGGACGTTGACGGGGTCTATACCTGCGACCCGCGTCAGGTGCCCGATGCGAGGTTGTTGAAGTCGATGTCCTACCAGGAAGCGATGGAGCTTTCCTACTTCGGCGCTAAAGTTCTTCACCCCCGCACCATTACCCCCTTCGCCCAGTTCCAGATCCCTTGCCTGATTAAA |
b |
diff -r 98242353faa4 -r de387b2b2803 test-data/paired_result.fa --- a/test-data/paired_result.fa Mon May 14 06:11:34 2018 -0400 +++ b/test-data/paired_result.fa Mon Feb 18 12:14:46 2019 -0500 |
b |
@@ -1,2 +1,2 @@ ->k141_1 flag=1 multi=107.0000 len=390 +>k141_1 flag=1 multi=106.0000 len=390 CATTCAATTGTTATTATTATGTCCTACAAGCATTAATTAATTAACACACTTTAGTAAGTATGTTCGCCTGTAATATTGAACGTAGGTGCGATAAATAATAGGATGAGGCAGGAATCAAAGACAGATACTGCGACATAGGGTGCTCCGGCTCCAGCGTCTCGCAATGCTATCGCGTGCACACCCCCCAGACGAAAATACCAAATGCATGGAGAGCTCCCGTGAGTGGTTAATAGGGTGATAGACCTGTGATCCATCGTGATGTCTTATTTAAGGGGAACGTGTGGGCTATTTAGGTTTTATGACCCTGAAGTAGGAACCAGATGTCGGATACCTGTCTCTTATACACATCTGACGCTGCCGACGAGCGATCAAGTGTAGTGCTCGGGGGGG |