| Previous changeset 2:39320fee9d70 (2019-11-28) Next changeset 4:5f4544915893 (2024-03-20) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/obitools commit 5d3c7a7b3f7d687bb03ef7993ddf1a6507d655bd" |
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modified:
macros.xml obistat.xml test-data/output_ngsfilter_error_3.fastq test-data/output_ngsfilter_unidentified.fastq test-data/output_obisort.fastq |
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added:
test-data/illuminapairedend.output.fastq.gz test-data/output_ngsfilter_error_3.fastq.gz test-data/output_obiannotate.fasta.gz test-data/output_obiclean_advanced.fasta.gz test-data/output_obigrep_predicat.fasta.gz test-data/output_obiuniq.fasta.gz test-data/output_obiuniq_family.fasta.gz test-data/wolf_small.F.fastq.gz test-data/wolf_small.R.fastq.gz |
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| diff -r 39320fee9d70 -r 723a93febe89 macros.xml --- a/macros.xml Thu Nov 28 15:51:18 2019 -0500 +++ b/macros.xml Mon May 10 19:37:00 2021 +0000 |
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| @@ -6,7 +6,8 @@ </requirements> </xml> - <token name="@TOOL_VERSION@">1.2.11</token> + <token name="@TOOL_VERSION@">1.2.13</token> + <token name="@PROFILE@">21.01</token> <xml name="stdio"> <stdio> @@ -14,6 +15,80 @@ </stdio> </xml> + <token name="@INPUT_FORMATS@">fastqsanger,fastqsanger.gz,fastqsolexa,fastqsolexa.gz,fasta,fasta.gz</token> + <token name="@GUNZIP_INPUT@"><![CDATA[ + #if $input.ext.endswith(".gz") + gunzip -c '$input' > input && + #else + ln -s '$input' input && + #end if + ]]></token> + <token name="@GZIP_OUTPUT@"><![CDATA[ + #if $input.ext.endswith(".gz") + | gzip -c + #end if + ]]></token> + + <!-- generate galaxy.json to determine output format + - by default same as input + - if out_format can be specified + - fasta/fastq depending on $out_format (if != "") + - or fasta if the tool does not support choosing the output format, e.g. obiuniq which always outputs fasta + - gz if $input is zipped + + A list of outputs to include in the json can be given by + setting a variable $outputs = [...] listing pairs of output names and the actual output + (defaults to [("output", $output)]) + --> + <token name="@GENERATE_GALAXY_JSON@"><![CDATA[ + #import json + + #try: + #silent $outputs[0] + #except + #set outputs = [("output", $output)] + #end try + + #if $input.ext.startswith("fastq") + #set ext = "fastqsanger" + #else if $input.ext.startswith("fasta") + #set ext = "fasta" + #end if + + #try + #if $out_format == "fasta" + #set ext = "fasta" + #else if $out_format == "fastq" + #set ext = "fastqsanger" + #end if + #except + #set ext = "fasta" + #end try + + #if $input.ext.endswith(".gz") + #set ext = ext + ".gz" + #end if + + #set gxy_json = {} + #for oname, o in $outputs + #silent gxy_json[oname] = {"ext": ext} + #end for + && echo '${json.dumps(gxy_json)}' >> galaxy.json + ]]></token> + + <token name="@OUT_FORMAT@"><![CDATA[ + #if $out_format + --${out_format}-output + #end if + ]]></token> + + <xml name="out_format_macro"> + <param name="out_format" type="select" optional="true" label="Output data type" help="For FASTA/Q the the default output type is the same as the input type"> + <option value="fasta">fasta</option> + <option value="fastq">fastq</option> + </param> + </xml> + <token name="@OBITOOLS_LINK@"> <![CDATA[ -------- @@ -105,15 +180,43 @@ <option value="taxid">taxid</option> </xml> - <xml name="inputtype"> - <option value="--genbank">genbank</option> - <option value="--embl">embl</option> - <option value="--sanger">sanger</option> - <option value="--solexa">solexa</option> - <option value="--ecopcr">ecopcr</option> - <option value="--ecopcrdb">ecopcrdb</option> - <option value="--fasta" selected="true">fasta</option> + <xml name="input_format_options_macro"> + <section name="input_format_options" title="Input format options" expanded="false"> + <param name="options_inputtype" type="select" optional="true" label="Specify the input datatype" help="default: determine automatically (should only be necessay for non FASTA/FASTQ datasets)"> + <option value="--genbank">genbank</option> + <option value="--embl">embl</option> + <option value="--sanger">sanger</option> + <option value="--solexa">solexa</option> + <option value="--ecopcr">ecopcr</option> + <option value="--ecopcrdb">ecopcrdb</option> + <option value="--fasta">fasta (including obitools fasta extentions)</option> + <option value="--raw-fasta">raw fasta (more tolerant format variant)</option> + </param> + <param name="options_seqtype" type="select" optional="true" label="Specify the sequence datatype" > + <option value="--nuc">nucleic</option> + <option value="--prot">protein</option> + </param> + </section> </xml> + + <token name="@INPUT_FORMAT@"><![CDATA[ + #if $input_format_options.options_inputtype + $input_format_options.options_inputtype + #else + #if $input.ext.startswith("fasta") + --fasta + #else if $input.ext.startswith("fastqsolexa") + ## input file is in fastq nucleic format produced by solexa sequencer + --solexa + #else + ## input file is in sanger fastq nucleic format (standard fastq) + --sanger + #end if + #end if + #if $input_format_options.options_seqtype + $input_format_options.options_seqtype + #end if + ]]></token> <xml name="sanitizer"> <sanitizer invalid_char="test"> |
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| diff -r 39320fee9d70 -r 723a93febe89 obistat.xml --- a/obistat.xml Thu Nov 28 15:51:18 2019 -0500 +++ b/obistat.xml Mon May 10 19:37:00 2021 +0000 |
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| b'@@ -1,137 +1,147 @@\n-<tool id="obi_stat" name="obistat" version="@TOOL_VERSION@">\r\n- <description>computes basic statistics for attribute values</description>\r\n- <macros>\r\n- <import>macros.xml</import>\r\n- </macros>\r\n- <expand macro="requirements"/>\r\n- <expand macro="stdio"/>\r\n-\r\n- <command>\r\n-\r\n- <![CDATA[\r\n-\r\n- obistat\r\n- #for $attribute in $catattributes\r\n- #if str( $attribute.options_attributespe.options_attributespe_selector) == "key"\r\n- -c \'$attribute.options_attributespe.options_catattribute_selector\'\r\n- #end if\r\n- #if str( $attribute.options_attributespe.options_attributespe_selector) == "python"\r\n- -c \'${attribute.options_attributespe.attribute}\'\r\n- #end if\r\n- #end for\r\n-\r\n- #if str( $options_attribute.options_attributebe_selector) == "yes"\r\n- #if str( $options_attribute.options_attribute_selector) == "min"\r\n- -m \'$options_attribute.options_uniq_selector\'\r\n- #end if\r\n- #if str( $options_attribute.options_attribute_selector) == "max"\r\n- -M \'$options_attribute.options_uniq_selector\'\r\n- #end if\r\n- #if str( $options_attribute.options_attribute_selector) == "mean"\r\n- -a \'$options_attribute.options_uniq_selector\'\r\n- #end if\r\n- #if str( $options_attribute.options_attribute_selector) == "variance"\r\n- -v \'$options_attribute.options_uniq_selector\'\r\n- #end if\r\n- #if str( $options_attribute.options_attribute_selector) == "std"\r\n- -s \'$options_attribute.options_uniq_selector\'\r\n- #end if\r\n- #end if\r\n-\r\n- \'$input\' > \'$output\'\r\n-\r\n- ]]>\r\n-\r\n-\r\n- </command>\r\n-\r\n- <inputs>\r\n- <param name="input" type="data" format="fasta,fastq" label="Input sequences file" />\r\n-\r\n- <repeat name="catattributes" title="Category attribute" min="0">\r\n- <conditional name="options_attributespe">\r\n- <param name="options_attributespe_selector" type="select" label="How would you specify the category attribute key?" >\r\n- <option value="key" selected="true">simply by a key of an attribute</option>\r\n- <option value="python">by a python expression</option>\r\n- </param>\r\n- <when value="python">\r\n- <param name="attribute" type="text" label="Regular expression pattern matched against the attributes of the sequence record. the value of this attribute is of the form : key:regular_pattern. The pattern is case sensitive." >\r\n- <expand macro="sanitizer"/>\r\n- </param>\r\n- </when>\r\n- <when value="key">\r\n- <param name="options_catattribute_selector" type="select" label="Attribute used to categorize the sequence records" >\r\n- <expand macro="attributes"/>\r\n- </param>\r\n- </when>\r\n- </conditional>\r\n- </repeat>\r\n-\r\n- <conditional name="options_attribute">\r\n- <param name="options_attributebe_selector" type="select" label="Use a specific option" >\r\n- <option value="None" selected="true">no</option>\r\n- <option value="yes">yes</option>\r\n- </param>\r\n- <when value="yes">\r\n- <param name="options_attribute_selector" type="select" label="Select your specific option" >\r\n- <option value="min" selected="true">min</option>\r\n- <option value="max">max</option>\r\n- <option value="mean">mean</option>\r\n- <option value="variance">variance</option>\r\n- <option value="std">standard deviation</option>\r\n- </param>\r\n- <param name="options_uniq_selector" type="select" label="A'..b'peat>\n+ <conditional name="options_attribute">\n+ <param name="options_attributebe_selector" type="select" label="Use a specific option" >\n+ <option value="None" selected="true">no</option>\n+ <option value="yes">yes</option>\n+ </param>\n+ <when value="yes">\n+ <param name="options_attribute_selector" type="select" label="Select your specific option" >\n+ <option value="min" selected="true">min</option>\n+ <option value="max">max</option>\n+ <option value="mean">mean</option>\n+ <option value="variance">variance</option>\n+ <option value="std">standard deviation</option>\n+ </param>\n+ <param name="options_uniq_selector" type="select" label="Attribute to merge" >\n+ <expand macro="attributes"/>\n+ </param>\n+ </when>\n+ <when value="None"></when>\n+ </conditional>\n+ <expand macro="input_format_options_macro"/>\n+ </inputs>\n+ <outputs>\n+ <data format="txt" name="output"/>\n+ </outputs>\n+ <tests>\n+ <test>\n+ <param name="input" value="output_obiannotate.fasta" ftype="fasta"/>\n+ <conditional name="catattributes_0|options_attributespe">\n+ <param name="options_attributespe_selector" value="key"/>\n+ <param name="options_catattribute_selector" value="count" />\n+ </conditional>\n+ <conditional name="catattributes_1|options_attributespe">\n+ <param name="options_attributespe_selector" value="key"/>\n+ <param name="options_catattribute_selector" value="merged" />\n+ </conditional>\n+ <conditional name="options_attribute">\n+ <param name="options_attributebe_selector" value="yes"/>\n+ <param name="options_attribute_selector" value="min" />\n+ <param name="options_uniq_selector" value="seq_length" />\n+ </conditional>\n+ <output name="output" file="output_obistat.txt" ftype="txt" sort="True"/>\n+ </test>\n+ <test>\n+ <param name="input" value="output_obiannotate.fasta.gz" ftype="fasta.gz" />\n+ <conditional name="catattributes_0|options_attributespe">\n+ <param name="options_attributespe_selector" value="key"/>\n+ <param name="options_catattribute_selector" value="count" />\n+ </conditional>\n+ <conditional name="catattributes_1|options_attributespe">\n+ <param name="options_attributespe_selector" value="key"/>\n+ <param name="options_catattribute_selector" value="merged" />\n+ </conditional>\n+ <conditional name="options_attribute">\n+ <param name="options_attributebe_selector" value="yes"/>\n+ <param name="options_attribute_selector" value="min" />\n+ <param name="options_uniq_selector" value="seq_length" />\n+ </conditional>\n+ <output name="output" file="output_obistat.txt" ftype="txt" sort="True"/>\n+ </test>\n+ </tests>\n+ <help><![CDATA[\n+\n+.. class:: infomark\n+\n+**What it does**\n+\n+stats computes basic statistics for attribute values of sequence records. The sequence records can be categorized or not using one or several -c options. By default, only the number of sequence records and the total count are computed for each category. Additional statistics can be computed for attribute values in each category, like:\n+\n+\\* minimum value (-m option)\n+\n+\\* maximum value (-M option)\n+\n+\\* mean value (-a option)\n+\n+\\* variance (-v option)\n+\n+\\* standard deviation (-s option)\n+\n+The result is a contingency table with the different categories in rows, and the computed statistics in columns.\n+\n+@OBITOOLS_LINK@\n+\n+ ]]>\n+ </help>\n+ <expand macro="citation" />\n+</tool>\n' |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/illuminapairedend.output.fastq.gz |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_ngsfilter_error_3.fastq |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_ngsfilter_error_3.fastq.gz |
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| Binary file test-data/output_ngsfilter_error_3.fastq.gz has changed |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_ngsfilter_unidentified.fastq |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_obiannotate.fasta.gz |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_obiclean_advanced.fasta.gz |
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| Binary file test-data/output_obiclean_advanced.fasta.gz has changed |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_obigrep_predicat.fasta.gz |
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| Binary file test-data/output_obigrep_predicat.fasta.gz has changed |
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| diff -r 39320fee9d70 -r 723a93febe89 test-data/output_obisort.fastq --- a/test-data/output_obisort.fastq Thu Nov 28 15:51:18 2019 -0500 +++ b/test-data/output_obisort.fastq Mon May 10 19:37:00 2021 +0000 |
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| b"@@ -1,172 +1,232 @@\n->HELIUM_000100422_612GNAAXX:7:57:18459:16145#0/2_CONS_SUB_SUB_CMP count=64; merged_sample={'26a_F040644': 64}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=99; obiclean_headcount=1; seq_rank=5; obiclean_samplecount=1; obiclean_status={'26a_F040644': 'h'}; obiclean_head=True; \n-ttagccctaaacataaacattcaataaacaagaatgttcgccagagtactactagcaaca\n-gcctgaaactcaaaggacttggcggtgctttacatccct\n->HELIUM_000100422_612GNAAXX:7:22:8540:14708#0/2_CONS_SUB_SUB count=61; merged_sample={'29a_F260619': 30, '15a_F730814': 31}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=100; obiclean_headcount=2; seq_rank=4; obiclean_samplecount=2; obiclean_status={'29a_F260619': 'h', '15a_F730814': 'h'}; obiclean_head=True; \n-ttagccctaaacacaagtaattaatataacaaaattattcgccagagtactaccggcaat\n-agcttaaaactcaaaggacttggcggtgctttataccctt\n->HELIUM_000100422_612GNAAXX:7:6:9274:14951#0/2_CONS_SUB_SUB count=46; merged_sample={'13a_F730603': 46}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=100; obiclean_headcount=1; seq_rank=8; obiclean_samplecount=1; obiclean_status={'13a_F730603': 'h'}; obiclean_head=True; \n-ctagccttaaacacaaatagttatgcaaacaaaactattcgccagagtactaccggcaat\n-agcttaaaactcaaaggacttggcggtgctttataccctt\n->HELIUM_000100422_612GNAAXX:7:13:5742:9859#0/2_CONS_SUB_SUB count=7; merged_sample={'29a_F260619': 7}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=4; obiclean_headcount=0; seq_rank=16; obiclean_samplecount=1; obiclean_status={'29a_F260619': 's'}; obiclean_head=True; \n+@HELIUM_000100422_612GNAAXX:7:57:18459:16145#0/2_CONS_SUB_SUB_CMP count=64; merged_sample={'26a_F040644': 64}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=99; obiclean_headcount=1; seq_rank=5; obiclean_samplecount=1; obiclean_status={'26a_F040644': 'h'}; obiclean_head=True; \n+ttagccctaaacataaacattcaataaacaagaatgttcgccagagtactactagcaacagcctgaaactcaaaggacttggcggtgctttacatccct\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:22:8540:14708#0/2_CONS_SUB_SUB count=61; merged_sample={'29a_F260619': 30, '15a_F730814': 31}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=100; obiclean_headcount=2; seq_rank=4; obiclean_samplecount=2; obiclean_status={'29a_F260619': 'h', '15a_F730814': 'h'}; obiclean_head=True; \n+ttagccctaaacacaagtaattaatataacaaaattattcgccagagtactaccggcaatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:6:9274:14951#0/2_CONS_SUB_SUB count=46; merged_sample={'13a_F730603': 46}; obiclean_singletoncount=0; obiclean_internalcount=0; seq_length=100; obiclean_headcount=1; seq_rank=8; obiclean_samplecount=1; obiclean_status={'13a_F730603': 'h'}; obiclean_head=True; \n+ctagccttaaacacaaatagttatgcaaacaaaactattcgccagagtactaccggcaatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:13:5742:9859#0/2_CONS_SUB_SUB count=7; merged_sample={'29a_F260619': 7}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=4; obiclean_headcount=0; seq_rank=16; obiclean_samplecount=1; obiclean_status={'29a_F260619': 's'}; obiclean_head=True; \n tttt\n->HELIUM_000100422_612GNAAXX:7:89:10281:5930#0/2_CONS_SUB_SUB_CMP count=3; merged_sample={'29a_F260619': 3}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=100; obiclean_headcount=0; seq_rank=6; obiclean_samplecount=1; obiclean_status={'29a_F260619': 's'}; obiclean_head=True; \n-ttagccctaaacacaaataattacacaaacaaaattgttcaccagagtactagcggcaac\n-agcttaaaactcaaaggacttggcggtgctttataccctt\n->HELIUM_000100422_612GNAAXX:7:29:15520:18035#0/2_CONS_SUB_SUB count=2; merged_sample={'29a_F260619': 2}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=100; obiclean_headcount=0; seq_rank=7; obiclean_sample"..b"M_000100422_612GNAAXX:7:10:9237:10532#0/2_CONS_SUB_SUB_CMP count=1; merged_sample={'29a_F260619': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=100; obiclean_headcount=0; seq_rank=51; obiclean_samplecount=1; obiclean_status={'29a_F260619': 'i'}; obiclean_head=False; \n+ttagccctaaacacaagtaattaatataacaaaataattcgccagagtactaccggcaatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:7:11998:4462#0/2_CONS_SUB_SUB count=1; merged_sample={'26a_F040644': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=99; obiclean_headcount=0; seq_rank=52; obiclean_samplecount=1; obiclean_status={'26a_F040644': 'i'}; obiclean_head=False; \n+ttagccctaaacataaacattcaataaacaagaatgttcgccagagtagtactagcaacagcctgaaactcaaaggacttggcggtgctttacatccct\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:111:18277:17779#0/2_CONS_SUB_SUB_CMP count=1; merged_sample={'26a_F040644': 1}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=99; obiclean_headcount=0; seq_rank=53; obiclean_samplecount=1; obiclean_status={'26a_F040644': 's'}; obiclean_head=True; \n+ttagccctaaacatagataattttacaacaaaataattcgccagaggactactagcaatagcctgaaactcaaaggacttggcggtgctttacatccct\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:3:17077:6562#0/2_CONS_SUB_SUB_CMP count=1; merged_sample={'15a_F730814': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=100; obiclean_headcount=0; seq_rank=54; obiclean_samplecount=1; obiclean_status={'15a_F730814': 'i'}; obiclean_head=False; \n+ttagccctaaacacaagtaattaatataacaaaattattcgccagagtactgccggcaatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:19:4311:13343#0/2_CONS_SUB_SUB_CMP count=1; merged_sample={'26a_F040644': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=99; obiclean_headcount=0; seq_rank=55; obiclean_samplecount=1; obiclean_status={'26a_F040644': 'i'}; obiclean_head=False; \n+ttagccctaaacataaacattcaataaacaagaatgttcgccagagtactacgagcaacagcctgaaactcaaaggacttggcggtgctttacatccct\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:30:1800:7833#0/2_CONS_SUB_SUB count=1; merged_sample={'15a_F730814': 1}; obiclean_singletoncount=1; obiclean_internalcount=0; seq_length=100; obiclean_headcount=0; seq_rank=56; obiclean_samplecount=1; obiclean_status={'15a_F730814': 's'}; obiclean_head=True; \n+ttagccctaaacacaagacattaatataacgagattaatcgacagagtactaccggctatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:108:9222:18258#0/2_CONS_SUB_SUB count=1; merged_sample={'13a_F730603': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=100; obiclean_headcount=0; seq_rank=57; obiclean_samplecount=1; obiclean_status={'13a_F730603': 'i'}; obiclean_head=False; \n+ctagccttaaacacaaatagttatgcagacaaaactattcgccagagtactaccggcaatagcttaaaactcaaaggacttggcggtgctttataccctt\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n+@HELIUM_000100422_612GNAAXX:7:38:3005:20881#0/2_CONS_SUB_SUB_CMP count=1; merged_sample={'26a_F040644': 1}; obiclean_singletoncount=0; obiclean_internalcount=1; seq_length=99; obiclean_headcount=0; seq_rank=58; obiclean_samplecount=1; obiclean_status={'26a_F040644': 'i'}; obiclean_head=False; \n+ttagccctaaacatgaacattcaataaacaagaatgttcgccagagtactactagcaacagcctgaaactcaaaggacttggcggtgctttacatccct\n++\n+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n" |
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