| Previous changeset 7:692832801d70 (2021-06-06) Next changeset 9:82ff4f47436a (2021-06-08) |
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Commit message:
"planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/lotus2 commit bdade08328554140c46dd473081787773644c11c" |
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modified:
lotus2.xml |
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added:
test-data/OTU_paired.fna test-data/OTU_paired.txt test-data/mapping_paired.txt |
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| diff -r 692832801d70 -r 0fddee8b1f7e lotus2.xml --- a/lotus2.xml Sun Jun 06 17:55:32 2021 +0000 +++ b/lotus2.xml Tue Jun 08 02:17:42 2021 +0000 |
| [ |
| @@ -41,14 +41,14 @@ <command detect_errors="exit_code"><![CDATA[ #import os.path #import re -#def symlink_basename($f): +#def symlink_basename($f, $f_ext): #set $fn = re.sub('[^\w\-_.]', '_', $f.element_identifier) #if $fn.endswith('.gz'): #set $fn = $fn[:-3] #end if - #if $f.ext.startswith('fastqsanger'): + #if $f_ext.startswith('fastq'): #set $exts_to_drop = ('.fq', '.fastq', '.fastqsanger') - #elif $f.ext.startswith('fasta'): + #elif $f_ext.startswith('fasta'): #set $exts_to_drop = ('.fa', '.fasta', '.fna') #else #set $exts_to_drop = [] @@ -67,7 +67,7 @@ #if $inputs.paired_or_single == 'single': #for $f in $inputs.input: #set $ext = $f.ext.replace('sanger', '') - ln -s '$f' 'input/${symlink_basename(f)}.${ext}' && + ln -s '$f' 'input/${symlink_basename($f, $ext)}.${ext}' && #end for #elif $inputs.paired_or_single == 'paired': #for i, f in enumerate($inputs.left_input): @@ -81,14 +81,15 @@ #else: #for $f in $inputs.pair_input: #set $ext = $f.forward.ext.replace('sanger', '') - ln -s '$f.forward' 'input/${symlink_basename(f)}.1.${ext}' && + ln -s '$f.forward' 'input/${symlink_basename($f, $ext)}.1.${ext}' && #set $ext = $f.reverse.ext.replace('sanger', '') - ln -s '$f.reverse' 'input/${symlink_basename(f)}.2.${ext}' && + ln -s '$f.reverse' 'input/${symlink_basename($f, $ext)}.2.${ext}' && #end for #end if #if $tax_args.aligner_cond.taxAligner not in ('0', '3') and $tax_args.aligner_cond.refDB_cond.refDB == 'history': - #set $ref_fasta_symlink = $symlink_basename($tax_args.aligner_cond.refDB_cond.ref_fasta) + '.' + $tax_args.aligner_cond.refDB_cond.ref_fasta.ext + #set $ext = $tax_args.aligner_cond.refDB_cond.ref_fasta.ext + #set $ref_fasta_symlink = $symlink_basename($tax_args.aligner_cond.refDB_cond.ref_fasta, $ext) + '.' + $ext ln -s '$tax_args.aligner_cond.refDB_cond.ref_fasta' '$ref_fasta_symlink' && #end if @@ -186,9 +187,9 @@ <inputs> <conditional name="inputs"> - <param name="paired_or_single" type="select" label="Paired or Single-end data?"> + <param name="paired_or_single" type="select" label="Single- or Paired-end data?"> <option value="single" selected="true">Single-end</option> - <option value="paired_collection">Paired-end collection</option> + <option value="paired_collection">Paired-end list</option> </param> <when value="single"> <param name="input" type="data" format="fastqsanger,fastqsanger.gz" multiple="true" label="Single-end reads" /> @@ -301,6 +302,9 @@ <option value="ITS1">ITS1</option> <option value="ITS2">ITS2</option> </param> + <when value="" /> + <when value="LSU" /> + <when value="SSU" /> <when value="ITS"> <expand macro="ITSx_macro" /> </when> @@ -348,13 +352,22 @@ <output name="mapping" file="mapping.txt" /> </test> <test> - <param name="paired_or_single" value="single"/> - <param name="input" value="Anh_sample1.fastq.gz,Anh_sample2.fastq.gz" ftype="fastqsanger.gz"/> - <param name="mapping" value="mapping.txt" /> + <param name="paired_or_single" value="paired_collection"/> + <param name="pair_input"> + <collection type="list:paired"> + <element name="Anh_sample"> + <collection type="paired"> + <element name="forward" value="Anh_sample1.fastq.gz" ftype="fastqsanger.gz" /> + <element name="reverse" value="Anh_sample2.fastq.gz" ftype="fastqsanger.gz" /> + </collection> + </element> + </collection> + </param> + <param name="mapping" value="mapping_paired.txt" /> <param name="platform" value="454" /> <param name="clustering" value="3" /> - <output name="otu" file="OTU.txt" compare="sim_size" /> - <output name="otu_fna" file="OTU.fna" compare="sim_size" /> + <output name="otu" file="OTU_paired.txt" compare="sim_size" /> + <output name="otu_fna" file="OTU_paired.fna" compare="sim_size" /> </test> </tests> |
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| diff -r 692832801d70 -r 0fddee8b1f7e test-data/OTU_paired.fna --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/OTU_paired.fna Tue Jun 08 02:17:42 2021 +0000 |
| b |
| b'@@ -0,0 +1,294 @@\n+>OTU1\n+TACAGATCGTCCGTCAATTCCTTTAAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGATTACTTAATGCGTTTGCGCCGGCACCGAAGGACCTTGGTCCCCCAACACCTAGTAATCATCGTTTACAGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACAGTCCAGTAAGCCGCCTTCGCCACTGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCGCTTACCTCTCCTGCACTCTAGCTGCACAGTTTCCAAAGCAGTTCCATTGTTAAGCCATGGGATTTCACTCCAGACTTGCGCTGCCGTCTACGCTCCCTTTACACCCAGTAAATCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGGGCTTCTTAGTCAGGTACCGTCATTTTCTTCCCTGCTGATAGAGCTTTACGTACCGAAATACTTCTTCACTCACGCGGCGTCGCTGCATCAGGGTTTCCCCCATTGTGCAATAT\n+>OTU2\n+ACTACTATGTCCGTCAATTCCTTTAAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGAATGCTTATCGCTTTCGCTTCGCCACCCAGGGGTCAATCCCCCCGGACAGCCAGCATTCATCGTTTACTGCGTGGACTACCAGGGTATCTAATCCTGTTCGATACCCACGCTTTCGTGCCTCAGCGTCAGTGTGGAGCCGGCATGCTGCCTTCGCAATCGGAGTTCTGCGCGATATCTATGCATTTCACCGCTACACCGCGCATTCCGCATACTTCTCTCCAACTCGAGACTGCCAGTTTCAACGGCGGGCTGGGGTTGAGCCCCGGGCTTTGACCGCTGACTTAACAGACCGCCTGCGCACCCTTTAAACCCAATAAATCCGGATAACGCTCGCATCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGATGCTTTTTCTTCAGGTACACTCATCCGGGGACACGTCCCCGCCTTTGTTCCCTGACAAAAGAGGTTTACGATACTCTGTACCTTCCTCCCTCACGCGGCTTGG\n+>OTU3\n+AGACTATACTCCGTCAATTCCTTTGAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGGATGCTTAACGCTTTCGCTTGGCCGCCGACTGTATATCGCCGACAGCGGGCATCCATCGTTTACCGCGCGGACTACCAGGGTATCTAATCCTGTTCGATACCCGCGCTTTCGAGCTTCAGCGTCAGTAACGCTGCGGCAGGCTGCCTTCGCAATCGGGGTTCTTCGTGATATCTAAGCATTTCACCGCTACACCACGAATTCCGCCTGCCTTCCGCGCACTCAAGGTCTCCAGTTCGCGCCGCACTCTCATGGTTGAGCCACAAAATTTCACGGCACGCTTAAAGACCGGCCTACGCTCCCTTTAAACCCAATAAATCCGGATAACGCCCGGACCTTCCGTATTACCGCGGCTGCTGGCACGGAATTAGCCGGTCCTTATTCATGCGGTACCTGCAAACATCCACACGTGGACGCCTTTATCCCCGCATAAAAGAGGTTTACAACCCATAGGGCAGTCTTCCCTCACGCTACTTGGCTGGTTCAGCCT\n+>OTU4\n+ACGACTACAGCCGTCAATTCCTTTAAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGAATACTTAACGCTTTCGCTGTACCACCCAGGCATCATTCTGCCCGGACAGTTAGTATTCATCGTTTACTGCGTGGACTACCAGGGTATCTAATCCTGTTCGATACCCACGCTTTCGTGCATGAGCGTCAGTTGAGCGCCGGTATGCTGCCTTCGCAATCGGAGTTCTGCGTGATATCTATGCATTTCACCGCTACACCACGCATTCCGCATACTTCTCGCTCACTCAAGAACGCCAGTTTCAACGGCACGACGGGGTTGAGCCCCGAAATTTTACCGCTGACTTGACATTCCGCCTGCGCACCCTTTAAACCCAATAAATCCGGATAACGCTCGCATCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGATGCTTTTTCTTCAGGTACTCGCAAAGCGCCACACGTGGCGCCCTTTGCTCCCTGACAAAAGAGGTTTACAATCCATAGGACCGTCATCCCTCACGCGA\n+>OTU5\n+TACACACACTCCGTCAATTCATTTAAGTTTCAACCTTGCGGTCGTACTCCCCAGGCGGAGTGCTTAATGCGTTAGCTGCAGCACTGAGAGGCGGAAACCTCCCAACACTTAGCACTCATCGTTTACGGCATGGACTACCAGGGTATCTAATCCTGTTCGCTACCCATGCTTTCGAGCCTCAGCGTCAGTTGCAGACCAGAGAGCCGCCTTCGCCACTGGTGTTCTTCCATATATCTACGCATTCCACCGCTACACATGGGAGTTCCACTCTCCTCTTCTGCACTCAAGTTCAACAGTTTCTGATGCAATTCTCCGGTTGAGCCGAAGGCTTTCACATCAGACTTATTGAACCGCCTGCACTCGCTTTACGCCCAATAAATCCGGACAACGCTTGCCACCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGTGACTTTCTAGGTAATTACCGTCAAATAAAGGCCAGTTACTACCTCTATCTTTCTTCACTACCAACAGAGCTTTACGAGCCGAAA\n+>OTU6\n+TCTACGTAGCCCGTCAATTCCTTTGAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGATCACTTAACGCTTTCGCTGTGCCGCTTACTGTGTATCGCAAACAGCTAGTGATCATCGTTTACTGCGTGGACTACCAGGGTATCTAATCCTGTTTGATCCCCACGCTTTCGTGCATCAGCGTCAGTCATGGCTTGGCAGGCTGCCTTCGCAATCGGGGTTCTGCGTGATATCTAAGCATTTCACCGCTACACCACGCATTCCGCCTGCCTCAAACATACTCAAGCCTCCCAGTTTCAACGGCAATTCTATGGTTGAGCCACAGACTTTCACCGCTGACTTAAAAGGCCGCCTACGCACCCTTTAAACCCAATAAATCCGGATAACGCTCGGATCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGATCCTTATTCATAAGGTACATACAAAACGGGACACGTCCCGCACTTTATTCCCTTATAAAAGAGGTTTACGATCCATAGAACCTTCATCCCTCACGCGACTGT\n+>OTU7\n+ATACGACGTACCGTCAATTCCTTTGAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGATTACTTACTGCGTTTGCTGCGGCACCGGAGGGTCCATACCCTCCGACACCTAGTAATCATCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACAGTCCAGTAAGCCGCCTTCGCCACTGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCGCTTACCTCTCCTGCACTCCAGCCATACAGTTTCCAGAGCAGTCCGGGGGTTGAGCCCCCGCCTTTCACTCCAGACTTGCACAGCCGTCTACGCTCCCTTTACACCCAGTAATTCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGGGCTTCTTGGTCGGGTACCGTCATTGCTTTCTTCCCTGCTGACAGAGCTTTACATACCTAAATACTTCTTCACTCACGCGGCGTCGCTGGATCAGGGTTCCC\n+>OTU8\n+TACACGTGATCCGTCAATTCATTTGAGTTTCAACCTTGCGATCGTACTCCCCAGGTGGGATACTTATTGCGTTAGCTGCGGCACGCAGGGGGTCAGTCCCCGCACACCTAGTATCCATCGTTTACAGCGTGGACTACCAGGGTATCTAATCCTGTT'..b'TTTCTC\n+>OTU140\n+ATACGACGTACCGTCAATTCCTTTAAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGAATACTTATTGCGTTTGCGACGGCACCGAAAAGCTTTGCTCTCCAACACCTAGTATTCATCGTTTACCGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACTGTCCAGTAAGCCGCCTTCGCCACTGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCACTTACCTCTCCAGCACTCTAGCTCCACAGTTTCCAAAGCAGTCCCAGGGTTGAGCCCTGGGCTTTCACTTCAGACTTGCACAGCCGTCTACGCTCCCTTTACACCCAGTAAATCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGGGCTTCTTAGTCAGGTACCGTCTTTCTTCTTCCCTGCTGATAGAGCTTTACATACCGAAATACTTCTTCACTCACGCGGCGTCGCTGCATCAGGGTTTCCC\n+>OTU141\n+ACGCTCGACACCGTCAATTCCTTTAAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGAATACTTAACGCTTTCGCTGTATCACCCAGCCGTCATTCCGGCCGGACAATTAGTATTCATCGTTTACTGCGTGGACTACCAGGGTATCTAATCCTGTTCGATACCCACGCTTTCGTGCTTCAGCGTCAGTCGGGCGCCGGTATGCTGCCTTCGCAATCGGGGTTCTGCGTGATATCTATGCATTTCACCGCTACACCACGCATTCCGCACACTTCTCGCCCACTCAAGACCGCCAGTTTCAACGGCTCGTGGAGGTTGAGCCTCCAAATTTTACCGCTGACTTAACAACCCGCCTACGCACCCTTTAAACCCAATAAATCCGGATAACGCTCGCATCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGATGCTTTTTC\n+>OTU142\n+TACACACACTCCGTCAATTCCTTTAAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGATTACTTATTGCGTTTGCGGCGGCACCGAAGCCCCTTAGGGCCCCAACACCTAGTAATCATCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACGGTCCAGTAAGCCGCCTTCGCCACCGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCGCTTACCCCTCCCGCACTCCAGCCCGCCAGTTTCCAAAGCAGTTCCGCAGTTAAGCTGCGGCATTTCACTTCAGACTTGGCGTACCGTCTACGCTCCCTTTACACCCAGTAAATCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGGGCTTCTTACTCAGGTACCGTCTGCTGACCGTAAGGTCAGTATTTATTCCCTGCTGATAGAGCTTTACGTAACGAATTACTTCTTAACTCACGCGGCGTCGCTGCATCAGGGTTTCC\n+>OTU143\n+TCTACGTAGCCCGTCAATTCCTTTAAGTTTTAGTCTTGCGACCGTACTTCCCAGGCGGTTAACTTCTCGCGTTGGCTGCGTTACTGAGAATATTACTTCCCAACAACTAGTTAACATCGTTTAGGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGTGCCTGAGCGTCAGTTATGTCCCAGGAGGCTGCCTTCGCCATCGGTGTTCTTCCACATATCTACGCATCTCACTGCTACACGTGGAATTCCACCTCCCTCTGACACACTCTAGTCGAGCAGTCACATATGCCATTCCCGAGTTAAGCTCGGGGATTTCACATCTGTCTTACTCAACCGCCTGCGCACCCTTTACGCCCAGTAATTCCGATTAACGCTCGCACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGTGCTTATTCTTAGAGTACCGTCAGCAACACCCTTTATTAAAAGGTGTTCTTTTCGTTCTCTACAAAAGT\n+>OTU144\n+ACGCGAGTATCCGTCAATTCCTTTAAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGATCACTTACTGCGTTTGCTGCGGCACCGATGGGTCCATACCCACCGACACCTAGTGATCATCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACAGTCCAGTAAGCCGCCTTCGCCACTGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCACTTACCTCTCCTGCACTCCAGCCATACAGTTTCCAAAGCAATTCCCAGGTTGAGCCCGGGGCTTTCACTTCAGACTTGCCATACCGTCTACGCTCCCTTTACACCCAGTAAATCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGGGCTTCTTACTCAGGTACCGTCTTTCTTCTTCCCTGCTGATAGAGCTTTACATACCGAAATACTTCTTCACTCACGCG\n+>OTU145\n+CGACGTGACTCCGTCAATTCCTTTGAGTTTCATTCTTGCGAACGTACTCCCCAGGTGGAATGCTTACTGCGTTTGCGGCGGCACCGGAAGACCATGTCCCCCGACACCTAGCATTCATCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCACGCTTTCGAGCCTCAACGTCAGTTACCGTCCAGCAAGCCGCCTTCGCCACCGGTGTTCCTCCTAATATCTACGCATTTCACCGCTACACTAGGAATTCCGCTTGCCCCTCCGGCACTCCAGCATGCCAGTTTCCAATGCAGTCCCGGGGTTGAGCCCCGGCCTTTCACACCAGACTTGGCACGCCGTCTACGCTCCCTTTACACCCAGTAAATCCGGATAACGCTTGCCCCCTACGTATTACCGCGGCTGCTGGCACGTAGTTAGCCGGGGCTTCTTAGTCAGGTACCGTCATTTTCTTCCCTGCTGATAGAGCTTTACGTACCGAAATACTTCTTCGCTCACGCGGCGTCGCTGCATCAGGGTTTC\n+>OTU146\n+ACGACTACAGCCGTCAATTCCTTTAAGTAGAACGTGAGACTTTCATACTTCCTTCCCATGATCTCCGTGGGTTTCGCAAACTTGTGGGTATAGTTCAGCGACTTTTCGGGTTCCGCCTTCTTGTTGAAATCCACCGCGCCCGCTGCCTGGGCCTTTTTGATCTCTTCCTGCTCCGCCTGCTCTTCCTGTCCCATGGGGGTTCCCTGTACCTGCATGTTATCCATCTTCATTCCTCCTGTTTATGGTTATAGTGTGAAAAGCCAGCGGCGTTCTGCCGCTGGCCGTGTCCTGCTGCCTCCCGTATG\n+>OTU147\n+ACTGTACAGTCCGTCAATTCATTTAAGTTTCACCGTTGCCGGCGTACTCCCCAGGTGGAATGTTTAACGCTTTCGCTGTGCCACCCAGGACCGAAGTCCCGGACAGCTAACATTCATCGTTTACTGCGTGGACTACCAGGGTATCTAATCCTGTTCGATCCCCACGCTTTCGTGCCTCAGCGTCAGTTGAGCGCCGGTATGCTGCCTTCGCAATCGGAGTTCTGCGTGATATCTATGCATTTCACCGCTACACCACGCATTCCGCATACTTCTCGCTCACTCAAGAAGACCAGTTTCAACGGCAGGCCGGTGTTGAGCACCGACATTTGACCGCTGACTTAACCTTCCGCCTACGCACCCTTTAAACCCAATAAATCCGGATAACGCTCGCATCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGATGCTTTTTCTTCGGGTACTCTCCTTCCCGCCACACGTGGCGGGCCTTGCTCCCCGACAAAAGAGGTTTACAATCCATAGGACCGTCATCC\n' 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| diff -r 692832801d70 -r 0fddee8b1f7e test-data/OTU_paired.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/OTU_paired.txt Tue Jun 08 02:17:42 2021 +0000 |
| b |
| @@ -0,0 +1,148 @@ +OTU SMPL0 +OTU1 39 +OTU2 19 +OTU3 19 +OTU4 18 +OTU5 17 +OTU6 15 +OTU7 10 +OTU8 9 +OTU9 9 +OTU10 9 +OTU11 9 +OTU12 9 +OTU13 8 +OTU14 8 +OTU15 7 +OTU16 7 +OTU17 7 +OTU18 6 +OTU19 6 +OTU20 5 +OTU21 5 +OTU22 5 +OTU23 5 +OTU24 5 +OTU25 4 +OTU26 4 +OTU27 4 +OTU28 4 +OTU29 4 +OTU30 4 +OTU31 4 +OTU32 4 +OTU33 4 +OTU34 4 +OTU35 4 +OTU36 3 +OTU37 3 +OTU38 3 +OTU39 3 +OTU40 3 +OTU41 3 +OTU42 3 +OTU43 3 +OTU44 3 +OTU45 3 +OTU46 3 +OTU47 3 +OTU48 3 +OTU49 3 +OTU50 3 +OTU51 3 +OTU52 2 +OTU53 2 +OTU54 2 +OTU55 2 +OTU56 2 +OTU57 2 +OTU58 2 +OTU59 2 +OTU60 2 +OTU61 2 +OTU62 2 +OTU63 2 +OTU64 2 +OTU65 2 +OTU66 2 +OTU67 2 +OTU68 2 +OTU69 2 +OTU70 2 +OTU71 2 +OTU72 2 +OTU73 2 +OTU74 2 +OTU75 2 +OTU76 2 +OTU77 2 +OTU78 2 +OTU79 2 +OTU80 2 +OTU81 1 +OTU82 1 +OTU83 1 +OTU84 1 +OTU85 1 +OTU86 1 +OTU87 1 +OTU88 1 +OTU89 1 +OTU90 1 +OTU91 1 +OTU92 1 +OTU93 1 +OTU94 1 +OTU95 1 +OTU96 1 +OTU97 1 +OTU98 1 +OTU99 1 +OTU100 1 +OTU101 1 +OTU102 1 +OTU103 1 +OTU104 1 +OTU105 1 +OTU106 1 +OTU107 1 +OTU108 1 +OTU109 1 +OTU110 1 +OTU111 1 +OTU112 1 +OTU113 1 +OTU114 1 +OTU115 1 +OTU116 1 +OTU117 1 +OTU118 1 +OTU119 1 +OTU120 1 +OTU121 1 +OTU122 1 +OTU123 1 +OTU124 1 +OTU125 1 +OTU126 1 +OTU127 1 +OTU128 1 +OTU129 1 +OTU130 1 +OTU131 1 +OTU132 1 +OTU133 1 +OTU134 1 +OTU135 1 +OTU136 1 +OTU137 1 +OTU138 1 +OTU139 1 +OTU140 1 +OTU141 1 +OTU142 1 +OTU143 1 +OTU144 1 +OTU145 1 +OTU146 1 +OTU147 1 |
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| diff -r 692832801d70 -r 0fddee8b1f7e test-data/mapping_paired.txt --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/mapping_paired.txt Tue Jun 08 02:17:42 2021 +0000 |
| b |
| @@ -0,0 +1,2 @@ +#SampleID fastqFile SequencingRun +SMPL0 Anh_sample.1.fastq.gz,Anh_sample.2.fastq.gz a |