| Next changeset 1:46c5d7a0393b (2022-09-06) |
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Commit message:
planemo upload for repository https://github.com/katholt/srst2 commit 00fa01604956cb2e175fe9df199fc98956efad27 |
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added:
macros.xml srst2.xml test-data/ARGannotR.fasta test-data/ERR024070_1_reduced_forward_reads.fastqsanger.gz test-data/ERR024070_2_reduced_reverse_reads.fastqsanger.gz test-data/Escherichia_coli1R.fasta test-data/profiles_csv |
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| diff -r 000000000000 -r f9a0855c792d macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Mon Aug 22 19:13:16 2022 +0000 |
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| @@ -0,0 +1,19 @@ +<?xml version="1.0"?> +<macros> + <token name="@TOOL_VERSION@">0.2.0</token> + <token name="@VERSION_SUFFIX@">0</token> + <token name="@PROFILE@">20.01</token> + <xml name="requirements"> + <requirements> + <requirement type="package" version="0.1.18">samtools</requirement> + <requirement type="package" version="@TOOL_VERSION@">srst2</requirement> + <yield/> + </requirements> + </xml> + <xml name="read_type_options"> + <param argument="--read_type" type="select" label="Read file type"> + <option value="q" selected="true">fastq</option> + <option value="f">fasta</option> + </param> + </xml> +</macros> \ No newline at end of file |
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| diff -r 000000000000 -r f9a0855c792d srst2.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/srst2.xml Mon Aug 22 19:13:16 2022 +0000 |
| [ |
| b'@@ -0,0 +1,339 @@\n+<tool id="srst2" name="SRST2" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">\n+ <description>Short Read Sequence Typing for Bacterial Pathogens</description>\n+ <macros>\n+ <import>macros.xml</import>\n+ <token name="@FAST_A_Q_FORMATS@">fasta,fasta.gz,fastq,fastq.gz,fastqsanger,fastqsanger.gz</token>\n+ </macros>\n+ <expand macro="requirements"/>\n+ <version_command>srst2 --version</version_command>\n+ <command detect_errors="exit_code"><![CDATA[\n+#if $input.selector == "single"\n+#set ext=$input.single_input.datatype.file_ext\n+ ln -s $input.single_input \'./input_read1.$ext\' &&\n+#else if $input.selector == "paired"\n+#set ext_1=$input.paired_input1.datatype.file_ext\n+#set ext_2=$input.paired_input2.datatype.file_ext\n+ ln -s $input.paired_input1 \'./input_read1.$ext_1\' &&\n+ ln -s $input.paired_input2 \'./input_read2.$ext_2\' &&\n+#end if\n+#for $i, $s in enumerate($prev_output)\n+ #if $s\n+ ln -s $s \'./$i-prev_output.txt\' &&\n+ #end if\n+#end for\n+#for $i, $s in enumerate($use_gene_db.gene_db)\n+ #if $s\n+ ln -s $s \'./$i-gene_db.fasta\' &&\n+ #end if\n+#end for\n+#if $use_mlst_db.selector == "yes"\n+#set ext_3=$use_mlst_db.mlst_definitions.datatype.file_ext\n+ ln -s $use_mlst_db.mlst_db \'./mlst_db.fasta\' &&\n+ ln -s $use_mlst_db.mlst_definitions \'./mlst_definitions.$ext_3\' &&\n+#end if\n+srst2\n+#if $input.selector == "single"\n+ --input_se \'./input_read1.$ext\'\n+ --read_type ${input.read_type}\n+#else if $input.selector == "paired"\n+ --input_pe \'./input_read1.$ext_1\' \'./input_read2.$ext_2\'\n+ $input.merge_paired\n+ --forward _read1\n+ --reverse _read2\n+ --read_type ${input.read_type}\n+#end if\n+#if $use_mlst_db.selector == "yes" \n+ --mlst_db \'./mlst_db.fasta\'\n+ --mlst_definitions \'./mlst_definitions.$ext_3\'\n+ --mlst_delimiter \'$use_mlst_db.mlst_delimiter\'\n+ --mlst_max_mismatch $use_mlst_db.mlst_max_mismatch\n+ --min_depth $use_mlst_db.min_depth\n+ --min_edge_depth $use_mlst_db.min_edge_depth \n+#end if\n+#if $use_gene_db.selector == "yes" \n+ --gene_db\n+ #for $i, $s in enumerate($use_gene_db.gene_db)\n+ #if $s\n+ \'$i-gene_db.fasta\'\n+ #end if\n+ #end for\n+ $use_gene_db.no_gene_details\n+ --gene_max_mismatch $use_gene_db.gene_max_mismatch\n+ --min_coverage $use_gene_db.min_coverage\n+ --max_divergence $use_gene_db.max_divergence\n+#end if\n+ --prob_err $prob_err\n+#if $truncation_score_tolerance \n+ --truncation_score_tolerance $truncation_score_tolerance\n+#end if\n+#if $stop_after \n+ --stop_after $stop_after\n+#end if\n+ --max_unaligned_overlap $max_unaligned_overlap\n+ --mapq $mapq\n+ --baseq $baseq\n+ --output \'output\'\n+#if $prev_output\n+ --prev_output \n+ #for $i, $s in enumerate($prev_output)\n+ #if $s\n+ \'$i-prev_output.txt\'\n+ #end if\n+ #end for \n+#end if \n+#if \'log\' in str($output_files_selector)\n+ --log\n+#end if\n+#if \'save_scores\' in str($output_files_selector)\n+ --save_scores\n+#end if\n+#if \'report_new_consensus\' in str($output_files_selector)\n+ --report_new_consensus\n+#end if\n+#if \'report_all_consensus\' in str($output_files_selector)\n+ --report_all_consensus\n+#end if\n+#if \'keep_interim_alignment\' in str($output_files_selector)\n+ --keep_interim_alignment\n+#end if\n+#if \'report_new_consensus\' in str($output_files_selector) and $use_gene_db.selector == "yes" and $use_mlst_db.selector == "yes"\n+&& mkdir -p allelesOutput/ && cp *.output__input.*.pileup allelesOutput\n+#end if\n+#if $use_gene_db.selector == "yes" and $use_gene_db.no_gene_details\n+&& mkdir -p geneTypingOutput/ && cp output__genes__*__results.txt geneTypingOutput && cp output__fullgenes__*__results.txt geneTypingOutput\n+#end if\n+#if \'save_scores\' in str($output_files_selector)\n+ && mkdir -p scoresOutput/ && cp *.scores scoresOutput\n+#end if\n+#if $input.selector == "single" or $input.selector == "paired"\n+&& mkdir -p bowtie2Alignments/ && cp *'..b'_mismatch" value="10"/>\n+ <param name="min_depth" value="5"/>\n+ <param name="min_edge_depth" value="2"/>\n+ </conditional>\n+ <conditional name="use_gene_db">\n+ <param name="selector" value="yes"/>\n+ <param name="gene_db" value="ARGannotR.fasta"/>\n+ <param name="no_gene_details" value="true"/>\n+ <param name="gene_max_mismatch" value="10"/>\n+ <param name="min_coverage" value="90"/>\n+ <param name="max_divergence" value="10"/>\n+ </conditional>\n+ <output name="mlst_results">\n+ <assert_contents>\n+ <has_text text="fumC"/>\n+ <has_n_lines n="2"/>\n+ </assert_contents>\n+ </output>\n+ <output_collection name="gene_typing" type="list">\n+ <element name="output__fullgenes__0-gene_db__results.txt">\n+ <assert_contents>\n+ <has_text text="AmpC1_Ecoli_Bla"/>\n+ <has_n_lines n="2"/>\n+ </assert_contents>\n+ </element>\n+ <element name="output__genes__0-gene_db__results.txt">\n+ <assert_contents>\n+ <has_text text="AmpC1_Ecoli_Bla"/>\n+ <has_n_lines n="2"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output name="Compiled_gene_and_mlst_output">\n+ <assert_contents>\n+ <has_text text="fumC"/>\n+ <has_n_lines n="2"/>\n+ </assert_contents>\n+ </output>\n+ <output name="all_consensus">\n+ <assert_contents>\n+ <has_text text="49__AmpC1_Ecoli_Bla__AmpC1__1670"/>\n+ <has_n_lines n="2"/>\n+ </assert_contents>\n+ </output>\n+ <output_collection name="new_consensus" type="list">\n+ <element name="49__AmpC1_Ecoli_Bla__AmpC1__1670.output__input.0-gene_db.pileup">\n+ <assert_contents>\n+ <has_text text="49__AmpC1_Ecoli_Bla__AmpC1__1670"/>\n+ <has_n_lines n="1196"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output_collection name="samtools_pileup_alignment" type="list">\n+ <element name="output__input.0-gene_db.pileup">\n+ <assert_contents>\n+ <has_text text="49__AmpC1_Ecoli_Bla__AmpC1__1670"/>\n+ <has_n_lines n="1196"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output_collection name="bowtie2_alignment_output" type="list">\n+ <element name="output__input.0-gene_db.sorted.bam">\n+ <assert_contents>\n+ <has_size value="18500" delta="1000"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output name="log_output">\n+ <assert_contents>\n+ <has_text text="Building"/>\n+ <has_n_lines n="52"/>\n+ </assert_contents>\n+ </output>\n+ </test>\n+ </tests>\n+ <help><![CDATA[\n+SRST2\n+=====\n+Short Read Sequence Typing for Bacterial Pathogens\n+\n+This program is designed to take Illumina sequence data, a MLST (Multi Locus Sequence Types) database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs (Serotypes) and/or reference genes\n+\n+Read more about the tool: https://holtlab.net/2014/12/27/behind-the-paper-srst2-for-short-read-sequence-typing-of-bacterial-pathogens/\n+\n+Input\n+=====\n+Learn more about all inputs and their formates: https://github.com/katholt/srst2#input-read-formats-and-options\n+\n+Output\n+======\n+Learn more about all outputs: https://github.com/katholt/srst2#output-files\n+ ]]></help> \n+ <citations>\n+ <citation type="doi">10.1186/s13073-014-0090-6</citation>\n+ </citations>\n+ </tool>\n\\ No newline at end of file\n' |
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| diff -r 000000000000 -r f9a0855c792d test-data/ARGannotR.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/ARGannotR.fasta Mon Aug 22 19:13:16 2022 +0000 |
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| b'@@ -0,0 +1,16390 @@\n+>0__OqxBgb_Flq__OqxBgb__49 no;no;OqxBgb;Flq;EU370913;47851-51003;3153\n+ATGGACTTTTCCCGCTTTTTTATCGACAGGCCGATTTTCGCCGCGGTGCTGTCGATTTTA\n+ATTTTTATCACCGGGTTAATCGCTATCCCACTGCTGCCGGTGAGCGAATATCCGGATGTC\n+GTCCCGCCGAGCGTCCAGGTGCGCGCGGAGTATCCCGGCGCCAACCCGAAAGTGATTGCC\n+GAGACCGTGGCGACGCCGCTGGAGGAAGCGATCAACGGCGTTGAAAACATGATGTACATG\n+AAATCGGTCGCCGGCTCCGACGGCGTGCTGGTCACCACCGTCACCTTCCGCCCGGGTACC\n+GACCCGGATCAGGCGCAGGTTCAGGTGCAGAACCGCGTCGCGCAGGCCGAAGCGCGTCTG\n+CCGGAGGATGTACGCCGTCTGGGGATCACCACCCAGAAGCAGTCTCCGACGCTGACCCTG\n+GTGGTGCATCTGTTCTCCCCCGGCGGGAAGTACGACTCGCTGTATATGCGCAACTACGCC\n+ACGCTGAAAGTGAAGGATGAGCTGGCGCGCCTGCCCGGCGTCGGCCAGATCCAGATTTTT\n+GGCTCCGGTGAATATGCGATGCGCGTCTGGCTGGATCCCAATAAGGTCGCTGCCCGCGGT\n+CTGACGGCCTCGGATGTGGTGACGGCGATGCAGGAGCAAAACGTCCAGGTGTCTGCCGGA\n+CAGCTTGGCGCCGAGCCGCTGCCGCAGGAGAGCGATTTCCTGATCTCCATTAACGCCCAG\n+GGCCGTCTGCATACCGAAGAAGAGTTTGGCAATATCATTCTGAAAACGGCGCAGGATGGC\n+TCGCTGGTCCGCCTGCGCGACGTGGCGCGCATCGAGATGGGTTCCGGTAGCTATGCGCTG\n+CGCTCCCAGCTCAACAATAAGGATGCGGTCGGGATCGGTATCTTCCAGTCACCCGGCGCT\n+AACGCCATCGATCTGTCGAACGCGGTACGCGCCAAAATGGCCGAGCTGGCCACCCGCTTC\n+CCGGAAGATATGCAATGGGCGGCGCCGTACGACCCGACGGTTTTCGTCCGCGACTCCATC\n+CGCGCGGTGGTGCAGACGCTGCTGGAGGCGGTAGTGCTGGTGGTGCTGGTAGTGATCCTG\n+TTCCTGCAGACCTGGCGCGCGTCGATTATCCCGTTGATCGCTGTGCCGGTATCGGTGGTG\n+GGTACCTTCAGCATTCTCTATCTGCTGGGCTTCTCGCTGAATACCCTGAGCCTGTTCGGG\n+CTGGTACTGGCTATCGGTATCGTGGTGGACGACGCCATCGTGGTGGTGGAGAACGTCGAG\n+CGTAATATCGAAGAGGGGCTTGCGCCGCTTGCCGCGGCGCATCAGGCGATGCGTGAGGTC\n+TCCGGGCCGATTATCGCCATTGCGCTGGTGCTGTGTGCGGTGTTCGTGCCGATGGCGTTT\n+CTCTCCGGGGTCACCGGCCAGTTCTACAAACAGTTCGCGGTGACCATCGCCATCTCGACG\n+GTGATCTCGGCCATCAACTCGCTGACGCTCTCCCCGGCGCTGGCGGCCCTGCTGTTAAAG\n+CCGCACGGCGCGAAGAAAGACCTCCCTACCCGGCTGATCGATCGCCTGTTTGGCTGGATT\n+TTCCGTCCGTTTAACCGCTTTTTCCTGCGCAGCTCGAACGGCTATCAGGGACTGGTAGGC\n+AAAACGCTTGGACGCCGTGGCGCAGTGTTTGCGGTGTACCTGCTGCTGCTCTGCGCCGCT\n+GGGGTGATGTTTAAAGTCGTCCCCGGCGGGTTTATTCCCACCCAGGATAAGCTGTATCTC\n+ATTGGCGGCGTGAAGATGCCGGAAGGGTCGTCGCTGGCGCGCACCGACGCGGTGATCCGC\n+AAAATGAGCGAGATCGGGATGAATACCGAAGGGGTCGACTATGCGGTCGCTTTCCCGGGG\n+CTTAACGCGCTGCAGTTCACCAACACGCCGAATACCGGGACGGTCTTTTTTGGCCTGAAA\n+CCGTTCGACCAGCGCAAACACACGGCGGCGGAAATTAACGCGGAGATCAACGCCAAAATC\n+GCGCAAATCCAGCAGGGCTTTGGCTTTTCCATCCTGCCGCCGCCGATTTTAGGTCTGGGT\n+CAGGGTTCCGGCTACTCCCTGTACATCCAGGATCGCGGAGGGCTGGGCTATGGCGCGCTG\n+CAAAGCGCGGTGAATGCGATGTCCGGGGCGATTATGCAGACGCCGGGGATGCACTTCCCG\n+ATCTCGACTTACCAGGCTAACGTGCCGCAGCTGGACGTGCAGGTCGATCGCGATAAGGCG\n+AAAGCGCAGGGGGTATCGCTAACCGATCTGTTCGGTACGCTGCAGACCTATCTCGGCTCG\n+TCTTATGTCAATGACTTTAACCAGTTCGGGCGTACCTGGCGCGTGATGGCCCAGGCTGAC\n+GGACCATACCGCGAGAGCGTGGAAGATATCGCCAATCTGCGCACCCGCAATAATCAGGGC\n+GAAATGGTACCGATCGGCAGTATGGTGAATATCAGTACCACCTACGGGCCGGATCCGGTG\n+ATCCGCTACAACGGTTATCCGGCGGCGGACCTGATTGGCGATGCCGATCCGCGGGTCCTC\n+TCTTCTTCGCAGGCGATGACGCATCTGGAAGAGCTGTCGAAGCAGATCCTGCCGAATGGG\n+ATGAATATTGAGTGGACGGATCTCAGCTTCCAGCAGGCCACCCAGGGCAACACGGCGCTG\n+ATCGTCTTCCCGGTGGCGGTGCTGCTGGCATTCCTCGTACTGGCCGCGCTGTATGAAAGC\n+TGGACCCTGCCGCTGGCGGTGATCCTTATCGTACCGATGACGATGCTCTCCGCGCTGTTT\n+GGCGTCTGGCTGACCGGGGGCGATAACAACGTCTTCGTGCAGGTGGGTCTGGTGGTCCTG\n+ATGGGCCTGGCCTGTAAAAACGCCATTCTGATCGTCGAGTTTGCCCGCGAGCTGGAGATC\n+CAGGGGAAAGGCATCATGGAAGCGGCGCTGGAGGCATGCCGCCTGCGTCTGCGCCCGATC\n+GTGATGACCTCCATCGCCTTTATCGCCGGGACCATTCCGCTGATCCTCGGCCACGGCGCG\n+GGGGCGGAAGTCCGCGGCGTCACCGGGATCACGGTGTTCTCCGGGATGCTGGGCGTGACG\n+CTCTTCGGTCTGTTCCTGACGCCGGTGTTTTACGTGACGCTACGGAAACTGGTGACCCGC\n+AGGAAGCCGGTCCAGGAGGATCTGCCCGCCTAG\n+>1__VanTc_Gly__VanTc3__534 yes;no;VanTc3;Gly;AY033764;1644-3746;2103\n+ATGAAGAAGAATCAAGGAATCGAGCAATTTCGGGTGATTTTGGCGATGATGGTGGTGGCG\n+ATCCACTGTCTGCCTCTTCATCACTTATGGCCTGACGGTGATACCCTGATCACGTTGACG\n+CTCTTCAGAATTGCCGTTCCCTTCTTTTTTATGATCAGCGGATATTACGTGTTCAGCGAC\n+TTAGCCACCCAAAACAGCTATCCTGCCAGACATCGTGTCTGGCAGTTTATTAAAAAGCAG\n+CTGCAAGTCTACCTCATAGCCACACTGCTCTTTTTGCCGCTTGCTTGGTACAGCGGCATG\n+CTAGGGTTGAACATGCCACTAGGCACTTTTATTCAAACTTTGCTGGTCAATGGCATCCTT\n+TATCATCTATGGTATTTTCCTGCGATCATTACCGGCAGTCTATTAGTGATGGGCCTCTTG\n+ACACGTCTTTCTTTCAAGCAGGTGTTTTTCACTGCTGTCGGCTTGTATGTGGTTGGTTTA\n+GGTGGGGACAGTTGGTCTGGCCTGGCTGCCCAAACACCCATCACGCCACTCTATTCACGG\n+ATTTTTCAACTATTGGATGG'..b'GAATGAAGCCATACCAAACGACGAGCGTGACACCACGATG\n+CCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT\n+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGC\n+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCGGTAAGCGTGGGTCT\n+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC\n+ACGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCC\n+TCACTGATTAAGCATTGGTAA\n+>205__TEM-1D_Bla__TEM-190__1028 no;no;TEM-190;Bla;JN416112;1-861;861\n+ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCCTTCCT\n+GTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATCAGTTGGGTGCA\n+CGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCC\n+GAAGAACGTTTTCCAATGCTGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCC\n+CGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTG\n+GTTGAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTA\n+TGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCAACTTACTTCTGACAACGATC\n+GGAGGACCGAAGGAGCTAACCGCTTTTTTGCACAACATGGGGGATCATGTAACCCGCCTT\n+GATCGTGGGGAACCGGAGCTGAATGAAGCCATACCAAACGACGAGCGTGACACCACGATG\n+CCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT\n+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGC\n+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCGGTGAGCGTGGATCT\n+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC\n+ACGACGGGGAGTCAGGCAACTATGGATGAACGAGATAGACAGATCGCTGAGATAGGTGCC\n+TCACTGATTAAGCATTGGTAA\n+>205__TEM-1D_Bla__TEM-191__1029 no;no;TEM-191;Bla;JF949916;1-757;757\n+ATTCCCTTTTTTGCGGCATTTTGCCTTCCTGTTTTTGCTCACCCAGAAACGCTGGTGAAA\n+GTAAAAGATGCTGAAGATCAGTTGGGTGCACGAGTGGGTTACATCGAACTGGATCTCAAC\n+AGCGGTAAGATCCTTGAGAGTTTTCGCCCCGAAGAACGTTTTCCAATGATGAGCACTTTT\n+AAAGTTCTGCTATGTGGTGCGGTATTATCCCGTGTTGACGCCGGGCAAGAGCAACTCGGT\n+CGCCGCATACACTATTCTCAGAATGACTTGGTTGAGTACTCACCAGTCACAGAAAAGCAT\n+CTTACGGATGGCATGACAGTAAGAGAATTATGCAGTGCTGCCATAACCATGAGTGATAAC\n+ACTGCTGCCAACTTACTTCTGACAACGATCGGAGGACCGAAGGAGCTAACCGCTTTTTTG\n+CACAACATGGGGGATCATGTAACTCGCCTTGATCGTTGGGAACCGGAGCTGAATGAAGCC\n+ATACCAAACGACGAGCGTGACACCACGATGCCTGCAGCAATGGCAACAACGTTGCGCAAA\n+CTATTAACTGGCGAACTACTTACTCTAGCTTCCCGGCAACAATTAATAGACTGGATGGAG\n+GCGGATAAAGTTGCAGGACCACTTCTGCGCTCGGCCCTTCCGGCTGGCTGGTTTATTGCT\n+GATAAATCTGGAGCCGGTAAGCGTGGGTCTCGCGGTATCATTGCAGCACTGGGGCCAGAT\n+GGTAAGCCCTCCCGTATCGTAGTTATCTACACGACGG\n+>205__TEM-1D_Bla__TEM-192__1030 no;no;TEM-192;Bla;JF949915;1-754;754\n+ATTCCCTTTTTTGCGGCATTTTGCCTTCCTGTTTTTGCTCACCCAGAAACGCTGGTGAAA\n+GTAAAAGATGCTGAAGATCAGTTGGGTGCACGAGTGGGTTACATCGAACTGGATCTCAAC\n+AGCGGTAAGATCCTTGAGAGTTTTCGCCCCGAAGAACGTTTTCCAATAATGAGCACTTTT\n+AAAGTTCTGCTATGTGGTGCGGTATTATCCCGTGTTGACGCCGGGCAAGAGCAACTCGGT\n+CGCCGCATACACTATTCTCAGAATGACTTGGTTGAGTACTCACCAGTCACAGAAAAGCAT\n+CTTACGGATGGCATGACAGTAAGAGAATTATGCAGTGCTGCCATAACCATGAGTGATAAC\n+ACTGCTGCCAACTTACTTCTGACAACGATCGGAGGACCGAAGGAGCTAACCGCTTTTTTG\n+CACAACATGGGGGATCATGTAACTCGCCTTGATCGTTGGGAACCGGAGCTGAATGAAGCC\n+ATACCAAACGACGAGCGTGACACCACGATGCCTGCAGCAATGGCAACAACGTTGCGCAAA\n+CTATTAACTGGCGAACTACTTACTCTAGCTTCCCGGCAACAATTAATAGACTGGATGGAG\n+GCGGATAAAGTTGCAGGACCACTTCTGCGCTCGGCCCTTCCGGCTGGCTGGTTTATTGCT\n+GATAAATCTGGAGCCGGTGAGCGTGGGTCTCGCGGTATCATTGCAGCACTGGGGCCAGAT\n+GGTAAGCCCTCCCGTATCGTAGTTATCTACACGA\n+>205__TEM-1D_Bla__TEM-193__1031 no;no;TEM-193;Bla;JN935135;1-861;861\n+ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCCTTCCT\n+GTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATCAGTTGGGTGCA\n+CGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCC\n+GAAGAACGTTTTCCAATGATGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCC\n+CGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTG\n+GTTGAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTA\n+TGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCCACTTATTTCTGACAACGATC\n+GGAGGACCGAAGGAGCTCACCGCTTTTTTGCACAACATGGGGGATCATGTCACCCGCCTT\n+GATTGTTGGGGACCGAAGCTGACTGAGGCCATACCACACGACGAGCGTGACACCACGATG\n+CCTGCAGCAGTGGCCAACACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT\n+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCAATTCTGCGC\n+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCGGTGAGCGTGGATCT\n+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC\n+ACGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCC\n+TCACTGATTAAGCATTGGTAA\n' |
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| diff -r 000000000000 -r f9a0855c792d test-data/ERR024070_1_reduced_forward_reads.fastqsanger.gz |
| b |
| Binary file test-data/ERR024070_1_reduced_forward_reads.fastqsanger.gz has changed |
| b |
| diff -r 000000000000 -r f9a0855c792d test-data/ERR024070_2_reduced_reverse_reads.fastqsanger.gz |
| b |
| Binary file test-data/ERR024070_2_reduced_reverse_reads.fastqsanger.gz has changed |
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| diff -r 000000000000 -r f9a0855c792d test-data/Escherichia_coli1R.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/Escherichia_coli1R.fasta Mon Aug 22 19:13:16 2022 +0000 |
| b |
| b'@@ -0,0 +1,2130 @@\n+>adk_1\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTCACCGACGAACTGGTGATCGCGCTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATTGTTGATCGTATCGTAGGCCGCCGCGTTCATGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTACGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGCTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_2\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTTACCGACGAACTGGTGATCGCGCTGGTTAAAGGGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATCGTTGACCGTATCGTCGGTCGCCGCGTTCACGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGTAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTACGTAAACGTCTGGTTGAATACCATCAGATGACAGCACCGCTGATCGGCTACTACTCCAAAGAAGCTGAAGCGGGTA\n+>adk_3\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTCACCGACGAACTGGTGATCGCGCTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATTGTTGATCGTATCGTAGGCCGCCGCGTTCATGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTGCGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGTTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_4\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTTACCGACGAACTGGTGATCGCGCTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATCGTTGACCGTATTGTCGGTCGCCGCGTTCACGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAACCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTACGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGCTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_5\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAATTGGTCACCGACGAACTGGTGATCGCGCTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATCGTTGACCGTATCGTCGGTCGCCGCGTTCACGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTACGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGCTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_6\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTCACCGACGAACTGGTGATCGCGCTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATTGTTGATCGTATCGTAGGCCGCCGCGTTCATGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTGCGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGCTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_7\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTCACCGACGAACTGGTGATCGCACTGGTTAAAGAGCGCATTGCTCAGGAAGACTGCCGTAATGGTTTCCTGTTGGACGGCTTCCCGCGTACCATTCCGCAGGCAGACGCGATGAAAGAAGCGGGCATCAATGTTGATTACGTTCTGGAATTCGACGTACCGGACGAACTGATTGTTGATCGTATCGTAGGCCGCCGCGTTCATGCGCCGTCTGGTCGTGTTTATCACGTTAAATTCAATCCGCCGAAAGTAGAAGGCAAAGACGACGTTACCGGTGAAGAACTGACTACCCGTAAAGACGATCAGGAAGAAACCGTGCGTAAACGTCTGGTTGAATACCATCAGATGACTGCACCGCTGATCGGCTACTACTCCAAAGAAGCGGAAGCGGGTA\n+>adk_8\n+GGGGAAAGGGACTCAGGCTCAGTTCATCATGGAGAAATATGGTATTCCGCAAATCTCCACTGGCGATATGCTGCGTGCTGCGGTCAAATCTGGCTCCGAGCTGGGTAAACAAGCAAAAGACATTATGGATGCTGGCAAACTGGTCACCG'..b'AAATCGCGTGCATTTGCCGATATCGTAAAAATCGGTCGAACCCACTTGCAGGACGCCACGCCGCTAACACTGGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_2\n+CGAGCGCCATTCGTCAGGCGGCGGATGAAGTACTGGCAGGACAGCATAACGATGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAATATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTTGGCGGCGTGCGCGGGATGGAGCGTAAAGTTCATCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAATGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCGCAGCTTAAATCCCTGACACAGACGCTGAGTGAAAAATCGCGCGCATTTGCCGATATCGTCAAAATCGGTCGAACCCACTTGCAGGATGCCACGCCGCTAACACTAGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTGGAGCATAATCTCAAACATATCGAATACAGCCTGCCGCATGTAGCGGAACTGGC\n+>fumC_3\n+CGAGCGCCATTCGGCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCATTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAATATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTTGGCGGCGTGCGCGGGATGGAGCGTAAAGTTCATCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAATGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCACAACTTAAAACCCTGACCCAGACGCTGAGTGAAAAATCGCGCGCATTTGCCGATATCGTCAAAATCGGTCGAACCCACTTGCAGGATGCCACGCCGCTAACACTGGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTGGAGCATAATCTCAAACATATTGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_4\n+CGAGCGCCATTCGGCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGCGTGCGCGGGATGGAACGTAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCGCAGCTTAAAACCCTGACACAGACACTGAGTGAAAAATCGCGTGCATTTGCCGATATCGTCAAAATCGGTCGAACCCACTTGCAGGACGCCACGCCGCTAACACTAGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_5\n+CGAGCGCCATTCGTCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGTGTGCGCGGGATGGAACGTAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCTCAGCTTAAAACCCTGACACAGACACTGAATGAGAAATCCCGTGCTTTTGCCGATATCGTCAAAATTGGTCGTACTCACTTGCAGGATGCCACGCCGTTAACGCTGGGGCAGGCGATTTCCGGCTGGGTAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_6\n+CGAGCGCCATTCGGCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGCGTGCGCGGGATGGAACGTAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCGCAGCTTAAAACCCTGACACAGACGCTGAGTGAAAAATCGCGTGCATTTGCCGATATCGTCAAAATCGGTCGAACCCACTTGCAGGACGCCACGCCGCTAACACTAGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_7\n+CGAGCGCCATTCGGCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGCGTGCGCGGGATGGAACGTAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCGCAGCTTAAAACCCTGACACAGACGCTGAGTGAAAAATCGCGTGCATTTGCCGATATCGTCAAAATCGGTCGAACCCACTTGCAGGACGCCACGCCGCTAACACTGGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTCGAGTATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_8\n+CGAGCGCCATTCGGCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGTGTGCGCGGGATGGAACGTAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGCTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCGCAGCTTAAAACCCTGACACAGACACTGAATGAGAAATCCCGTGCATTTGCCGATATCGTCAAAATTGGTCGTACTCACTTGCAGGATGCCACGCCGCTAACACTGGGGCAGGAGATTTCCGGCTGGGTAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n+>fumC_9\n+CGAGCGCCATTCGTCAGGCGGCGGATGAAGTACTGGCAGGACAGCATGACGACGAATTCCCGCTGGCTATCTGGCAGACCGGCTCCGGCACGCAAAGTAACATGAACATGAACGAAGTGCTGGCTAACCGGGCCAGTGAATTACTCGGCGGTGTGCGCGGGATGGAACGCAAAGTTCACCCTAACGACGACGTGAACAAAAGCCAAAGTTCCAACGATGTCTTTCCGACGGCGATGCACGTTGCGGCGCTGCTGGCGCTGCGCAAGCAACTCATTCCTCAGCTTAAAACCCTGACACAGACACTGAATGAGAAATCCCGTGCTTTTGCCGATATCGTCAAAATTGGTCGTACTCACTTGCAGGATGCCACGCCGTTAACGCTGGGGCAGGAGATTTCCGGCTGGATAGCGATGCTCGAGCATAATCTCAAACATATCGAATACAGCCTGCCTCACGTAGCGGAACTGGC\n' |
| b |
| diff -r 000000000000 -r f9a0855c792d test-data/profiles_csv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/profiles_csv Mon Aug 22 19:13:16 2022 +0000 |
| b |
| b'@@ -0,0 +1,11571 @@\n+ST\tadk\tfumC\tgyrB\ticd\tmdh\tpurA\trecA\tclonal_complex\n+1\t4\t2\t2\t4\t4\t4\t4\t\n+2\t5\t3\t2\t6\t5\t5\t4\t\n+3\t6\t4\t3\t7\t7\t7\t6\tST20 Cplx\n+4\t6\t5\t4\t8\t8\t8\t2\tST10 Cplx\n+5\t7\t6\t5\t9\t9\t8\t2\tST13 Cplx\n+6\t8\t7\t1\t1\t10\t8\t6\t\n+7\t9\t8\t5\t1\t11\t8\t7\t\n+8\t10\t9\t5\t10\t12\t9\t2\tST165 Cplx\n+9\t6\t4\t3\t7\t7\t7\t8\tST20 Cplx\n+10\t10\t11\t4\t8\t8\t8\t2\tST10 Cplx\n+11\t12\t12\t8\t12\t15\t2\t2\tST11 Cplx\n+12\t13\t13\t9\t13\t16\t10\t9\tST12 Cplx\n+13\t6\t6\t5\t9\t9\t8\t2\tST13 Cplx\n+14\t14\t14\t10\t14\t17\t7\t10\tST14 Cplx\n+15\t15\t15\t11\t15\t18\t11\t11\t\n+16\t6\t4\t12\t16\t9\t7\t12\tST29 Cplx\n+17\t6\t4\t3\t17\t7\t7\t6\tST20 Cplx\n+18\t14\t14\t10\t14\t19\t7\t10\tST14 Cplx\n+19\t15\t16\t10\t15\t18\t12\t11\t\n+20\t6\t4\t3\t18\t7\t7\t6\tST20 Cplx\n+21\t16\t4\t12\t16\t9\t7\t7\tST29 Cplx\n+22\t6\t17\t7\t19\t1\t2\t2\tST280 Cplx\n+23\t6\t4\t12\t1\t20\t13\t7\tST23 Cplx\n+24\t17\t18\t13\t20\t18\t14\t13\t\n+25\t6\t6\t14\t21\t9\t7\t7\t\n+26\t6\t19\t15\t18\t11\t8\t14\t\n+27\t16\t20\t12\t16\t9\t7\t7\tST29 Cplx\n+28\t13\t21\t13\t22\t17\t14\t15\tST28 Cplx\n+29\t6\t4\t12\t16\t9\t7\t7\tST29 Cplx\n+30\t18\t22\t16\t23\t5\t15\t4\t\n+31\t18\t22\t17\t6\t5\t5\t4\tST31 Cplx\n+32\t19\t23\t18\t24\t21\t2\t16\tST32 Cplx\n+33\t6\t4\t4\t1\t22\t8\t7\t\n+34\t10\t11\t4\t1\t8\t8\t2\tST10 Cplx\n+35\t20\t24\t19\t13\t23\t16\t17\t\n+37\t21\t22\t20\t6\t5\t17\t18\t\n+38\t4\t26\t2\t25\t5\t5\t19\tST38 Cplx\n+39\t22\t4\t21\t10\t24\t18\t7\t\n+40\t6\t4\t5\t26\t20\t8\t14\tST40 Cplx\n+41\t10\t27\t5\t8\t25\t7\t2\tST226 Cplx\n+42\t23\t28\t22\t27\t5\t16\t4\t\n+43\t24\t11\t4\t8\t8\t8\t2\tST10 Cplx\n+44\t10\t11\t4\t8\t8\t8\t7\tST10 Cplx\n+45\t6\t7\t23\t1\t8\t8\t2\t\n+46\t8\t7\t1\t8\t8\t8\t6\tST46 Cplx\n+47\t8\t11\t5\t1\t7\t18\t6\t\n+48\t6\t11\t4\t8\t8\t8\t2\tST10 Cplx\n+49\t25\t11\t4\t8\t8\t8\t2\tST10 Cplx\n+50\t26\t7\t4\t1\t8\t8\t6\t\n+51\t6\t4\t1\t13\t17\t8\t20\tST399 Cplx\n+52\t6\t11\t5\t1\t20\t8\t2\t\n+53\t9\t29\t12\t1\t11\t13\t6\t\n+54\t6\t30\t5\t1\t24\t8\t21\t\n+55\t6\t4\t4\t18\t20\t8\t14\tST155 Cplx\n+56\t6\t4\t4\t18\t24\t5\t14\tST155 Cplx\n+57\t6\t31\t5\t28\t1\t1\t2\tST350 Cplx\n+58\t6\t4\t4\t16\t24\t8\t14\tST155 Cplx\n+59\t27\t32\t24\t29\t26\t19\t22\tST59 Cplx\n+60\t28\t33\t24\t29\t26\t20\t2\t\n+61\t29\t12\t8\t12\t15\t2\t23\tST11 Cplx\n+62\t28\t33\t25\t29\t7\t11\t24\t\n+63\t30\t11\t5\t8\t7\t21\t2\t\n+64\t31\t34\t26\t30\t27\t22\t17\t\n+65\t28\t33\t25\t29\t1\t11\t2\t\n+66\t6\t22\t20\t6\t5\t5\t2\t\n+67\t6\t19\t5\t1\t9\t8\t7\t\n+68\t33\t26\t2\t31\t5\t16\t19\t\n+69\t21\t35\t27\t6\t5\t5\t4\tST69 Cplx\n+70\t34\t36\t28\t25\t28\t16\t4\t\n+71\t34\t37\t28\t25\t4\t16\t4\t\n+72\t35\t37\t29\t25\t4\t5\t18\tST405 Cplx\n+73\t36\t24\t9\t13\t17\t11\t25\tST73 Cplx\n+74\t36\t24\t9\t13\t17\t5\t25\tST73 Cplx\n+75\t6\t6\t5\t10\t20\t23\t6\t\n+76\t13\t13\t9\t13\t17\t10\t26\t\n+77\t6\t7\t5\t1\t8\t18\t27\tST206 Cplx\n+78\t37\t38\t19\t32\t17\t24\t26\t\n+79\t37\t38\t19\t32\t17\t7\t26\t\n+80\t13\t24\t19\t14\t23\t1\t10\tST568 Cplx\n+81\t14\t14\t10\t14\t17\t7\t21\tST14 Cplx\n+82\t38\t39\t30\t13\t29\t25\t28\t\n+83\t13\t38\t19\t13\t30\t25\t29\t\n+84\t6\t29\t31\t16\t24\t8\t2\t\n+85\t6\t6\t32\t26\t11\t26\t7\t\n+86\t9\t6\t33\t33\t24\t8\t7\tST86 Cplx\n+87\t6\t11\t14\t8\t20\t8\t2\t\n+88\t6\t4\t12\t1\t20\t12\t7\tST23 Cplx\n+89\t39\t7\t4\t34\t20\t7\t7\t\n+90\t6\t4\t12\t1\t20\t8\t7\tST23 Cplx\n+91\t13\t40\t34\t13\t23\t28\t30\t\n+92\t40\t14\t19\t36\t23\t11\t10\t\n+93\t6\t11\t4\t10\t7\t8\t6\tST168 Cplx\n+94\t41\t6\t5\t16\t11\t8\t7\tST448 Cplx\n+95\t37\t38\t19\t37\t17\t11\t26\tST95 Cplx\n+96\t10\t11\t5\t38\t7\t8\t2\t\n+97\t42\t4\t12\t16\t9\t7\t12\tST29 Cplx\n+98\t10\t11\t4\t39\t8\t8\t2\tST10 Cplx\n+99\t6\t4\t22\t18\t9\t26\t7\t\n+100\t10\t27\t5\t10\t12\t9\t2\tST165 Cplx\n+101\t43\t41\t15\t18\t11\t7\t6\tST101 Cplx\n+102\t44\t42\t35\t40\t32\t29\t31\t\n+103\t45\t4\t36\t10\t24\t18\t32\t\n+104\t13\t24\t9\t13\t17\t11\t25\tST73 Cplx\n+105\t13\t43\t19\t36\t17\t10\t10\t\n+106\t21\t35\t27\t6\t5\t8\t4\tST69 Cplx\n+107\t13\t21\t19\t22\t17\t14\t15\tST28 Cplx\n+108\t46\t36\t37\t25\t5\t16\t33\t\n+109\t6\t6\t1\t16\t9\t13\t2\t\n+110\t47\t40\t19\t13\t17\t25\t30\t\n+111\t6\t29\t14\t16\t24\t8\t2\t\n+112\t13\t44\t9\t22\t16\t30\t34\t\n+113\t16\t4\t38\t16\t9\t7\t7\tST29 Cplx\n+114\t4\t2\t2\t41\t4\t4\t4\t\n+115\t4\t26\t39\t25\t5\t31\t19\tST38 Cplx\n+116\t8\t11\t40\t42\t7\t18\t6\t\n+117\t20\t45\t41\t43\t5\t32\t2\t\n+118\t31\t4\t42\t44\t15\t33\t17\t\n+119\t48\t46\t43\t45\t11\t34\t35\t\n+120\t49\t4\t44\t9\t11\t35\t7\t\n+121\t13\t21\t13\t22\t17\t36\t15\tST28 Cplx\n+122\t15\t24\t10\t46\t33\t37\t36\tST122 Cplx\n+123\t50\t47\t19\t37\t17\t30\t2\t\n+124\t6\t19\t3\t18\t9\t38\t6\t\n+125\t51\t48\t45\t47\t34\t39\t37\t\n+126\t13\t43\t19\t37\t17\t25\t25\t\n+127\t13\t14\t19\t36\t23\t11\t10\t\n+128\t52\t49\t46\t48\t35\t40\t38\t\n+129\t6\t23\t3\t26\t9\t7\t7\t\n+130\t18\t22\t20\t6\t5\t5\t4\tST31 Cplx\n+131\t53\t40\t47\t13\t36\t28\t29\tST131 Cplx\n+132\t35\t50\t22\t49\t37\t41\t39\t\n+133\t51\t48\t48\t50\t34\t42\t37\t\n+134\t13\t44\t49\t13\t16\t10\t34\t\n+135\t13\t39\t50\t13\t16\t37\t25\t\n+136\t38\t39\t30\t13\t17\t11\t28\t\n+137\t19\t23\t51\t24\t21\t2\t16\tST32 Cplx\n+139\t54\t51\t52\t6\t12\t5\t40\t\n+140\t55\t38\t19\t37\t17\t11\t26\tST95 Cplx\n+141\t13\t52\t10\t14\t17\t25\t17\t\n+142\t37\t38\t19\t51\t17\t11\t26\tST95 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t\n+12977\t64\t23\t164\t8\t80\t1\t42\t\n+12978\t8\t7\t1\t8\t8\t1068\t6\t\n+12979\t6\t1982\t3\t18\t11\t122\t2\t\n+12980\t10\t11\t4\t8\t8\t942\t2\t\n+12981\t6\t4\t12\t1\t20\t18\t646\t\n+12982\t1451\t41\t15\t18\t11\t8\t6\t\n+12983\t6\t61\t6\t11\t13\t3\t1010\t\n+12984\t6\t4\t12\t1\t20\t1069\t7\t\n' |