| Next changeset 1:7e4f1ed70187 (2020-01-19) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34 |
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added:
macros.xml poretools_extract.xml test-data/poretools-events-out1.tabular test-data/poretools-events-out2.tabular test-data/poretools-extract-out1.fasta test-data/poretools-extract-out1.fastq test-data/poretools-fastq-out1.fasta test-data/poretools-fastq-out1.fastq test-data/poretools-hist-out1.pdf test-data/poretools-hist-out1.png test-data/poretools-hist-out1.svg test-data/poretools-in1.tar.bz2 test-data/poretools-nucdist-out1.tabular test-data/poretools-nucdist-out2.tabular test-data/poretools-occupancy-out1.pdf test-data/poretools-occupancy-out1.png test-data/poretools-qualdist-out1.tabular test-data/poretools-qualdist-out2.tabular test-data/poretools-qualpos-out1.pdf test-data/poretools-qualpos-out1.png test-data/poretools-squiggle-out1-1.pdf test-data/poretools-squiggle-out1-1.png test-data/poretools-squiggle-out1-2.pdf test-data/poretools-squiggle-out1-2.png test-data/poretools-stats-out1.tabular test-data/poretools-stats-out2.tabular test-data/poretools-stats-out3.tabular test-data/poretools-stats-out4.tabular test-data/poretools-stats-out5.tabular test-data/poretools-tabular-out1.tabular test-data/poretools-tabular-out2.tabular test-data/poretools-tabular-out3.tabular test-data/poretools-tabular-out4.tabular test-data/poretools-tabular-out5.tabular test-data/poretools-times-out1.tabular test-data/poretools-times-out2.tabular test-data/poretools-times-out3.tabular test-data/poretools-times-out4.tabular test-data/poretools-times-out5.tabular test-data/poretools-winner-out1.tabular test-data/poretools-winner-out2.tabular test-data/poretools-winner-out3.tabular test-data/poretools-winner-out4.tabular test-data/poretools-yield-plot-out1.png test-data/poretools-yield-plot-out2.png test-data/poretools-yield-plot-out2.svg |
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| diff -r 000000000000 -r 7593f94691fb macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Tue Dec 19 14:46:31 2017 -0500 |
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| @@ -0,0 +1,50 @@ +<?xml version="1.0"?> +<macros> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@VERSION@">poretools</requirement> + <yield /> + </requirements> + </xml> + <token name="@VERSION@">0.6.1a1</token> + <xml name="citations"> + <citations> + <citation type="doi">10.1093/bioinformatics/btu555</citation> + </citations> + </xml> + <xml name="plot_options"> + <param name="extension" type="select" label="File format for histogram"> + <option value="png">PNG</option> + <option value="pdf">PDF</option> + <option value="svg">SVG</option> + <yield /> + </param> + <param name="theme_bw" argument="--theme-bw" type="boolean" truevalue="--theme-bw" falsevalue="" label="Use a monochrome color scheme" /> + </xml> + <xml name="image_output"> + <data name="output" format="png"> + <change_format> + <when input="extension" value="pdf" format="pdf" /> + <when input="extension" value="svg" format="svg" /> + <yield /> + </change_format> + </data> + </xml> + <xml name="stat_options"> + <param name="type" argument="--type" type="select" label="Filter by type of read"> + <option value="all" selected="true">All</option> + <option value="fwd">Forward reads</option> + <option value="rev">Reverse reads</option> + <option value="fwd,rev">Forward and reverse</option> + <option value="2D">2D</option> + <option value="best">Best</option> + </param> + </xml> + <xml name="test_input"> + <param name="input" ftype="fast5.tar" value="poretools-in1.tar.bz2" /> + </xml> + <xml name="length_options"> + <param name="min_length" argument="--min-length" type="integer" value="0" label="Minimum read length" /> + <param name="max_length" argument="--max-length" type="integer" value="1000000000" label="Maximum read length" /> + </xml> +</macros> |
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| diff -r 000000000000 -r 7593f94691fb poretools_extract.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/poretools_extract.xml Tue Dec 19 14:46:31 2017 -0500 |
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| @@ -0,0 +1,71 @@ +<?xml version="1.0"?> +<tool id="poretools_extract" name="Extract reads" version="@VERSION@.0"> + <description>in FASTA or FASTQ format from nanopore files</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="aggressive"> + <![CDATA[ + poretools $output_format --type $type --min-length $min_length --max-length $max_length + $quality + #if $group: + --group '$group' + #end if + #if $start: + --start '$start' + #end if + #if $end: + --end '$end' + #end if + '$input' > '$output' + ]]> + </command> + <inputs> + <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" /> + <param name="output_format" type="select" label="Output format"> + <option value="fastq">FASTQ</option> + <option value="fasta">FASTA</option> + </param> + <expand macro="length_options" /> + <param argument="--type" type="select" label="FASTQ Type"> + <option value="all">All</option> + <option value="fwd">Forward</option> + <option value="rev">Reverse</option> + <option value="2D">2D</option> + <option value="fwd,rev">Forward and reverse</option> + <option value="best">Best</option> + </param> + <param name="quality" type="select" label="Filter by complement events"> + <option value="">Do not filter</option> + <option value="--high-quality">Only report reads with more</option> + <option value="--normal-quality">Only report reads with fewer</option> + </param> + <param argument="--group" type="integer" optional="True" label="Base calling group serial number to extract" /> + <param argument="--start" type="integer" optional="True" label="Start timestamp" /> + <param argument="--end" type="integer" optional="True" label="End timestamp" /> + </inputs> + <outputs> + <data name="output" format="fastq"> + <change_format> + <when input="output_format" value="fasta" format="fasta" /> + </change_format> + </data> + </outputs> + <tests> + <test> + <expand macro="test_input" /> + <param name="output_format" value="fastq" /> + <output name="output" file="poretools-extract-out1.fastq" ftype="fastq" /> + </test> + <test> + <expand macro="test_input" /> + <param name="output_format" value="fasta" /> + <output name="output" file="poretools-extract-out1.fasta" ftype="fasta" /> + </test> + </tests> + <help> + Extract sequences from fast5 files generated by the Oxford Nanopore sequencing technology. + </help> + <expand macro="citations" /> +</tool> |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-events-out1.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-events-out1.tabular Tue Dec 19 14:46:31 2017 -0500 |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-events-out2.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-events-out2.tabular Tue Dec 19 14:46:31 2017 -0500 |
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|
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-extract-out1.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-extract-out1.fasta Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,24 @@ +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5 +GAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5 +ATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5 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+CATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGAACAATGGTAGCCACTAAATCTATAACAATTATTTCAGAAGTTGTCCGCTTGAATCATTCATTTGAAATTGTTAGTGACGCAAGTTAATGCGCGATCCCAGGAGCGGGCTCGTCCAGTTTACAATTGTCCATGCGTAGTCAGTTGTTATGTTGATTCCTGTTACCGATAGGGTATATAACGCTCCTAGTCGATTCGATTTGCTTGGCGCCATCCAAGTATTCCAGAGTCCTTAGCATTTTCTTAATGGCACGTGAAAACGAATCCCCTAAGAGCCACTTATCACGTCCGATTACATACTCCAGTCATGACGCTTCTGTTTATGTTTCTTAACCA +>e643ceef-570f-4ba7-bdae-e9e78da71703_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read1377_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read1377_strand.fast5 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+TTGTGTTTCTTCTTATGACTTGCTATGCGCAGGGGGGAGGAGAGATGTAGCGGAGGGCAGAGTGTGAAAGGGGTAGTTCATTATGCTGTCGTTAAGCCTCCGGGGCTATTGAAAACGATGAATGGGGCCAGGCGCTGGTCACGTACACGTGCGACACTGATGAAACGTTCCTCACCATTCATTAAATTACCGGCTTTTAAACGTGAACATGCTGTTGTAATTCTTCATGGTGGTGTAATGTACTTAGCAGTAGCGTTCAATTGGATTTCGCTTCGAATGTAGTCGATCTGCGCATCCACTGGTCGACGATTTCCTCTCTTTACTGATCGTAGTTCGTCACGTCGTCGTACGATAGGATCAAAGTCGCGGGATGGCTATCCCCGGGCGAACTTTCCAGAGAAGGAAGAAGAAAGACCTTTCGGCTTGTAGTAAGACCCCGAAGACTCGAAAACAGGGCAACGCGAATTCCACTTCGTTATGTTCTTACTATTGGA +>2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5 +CATGTTTCTGCTGATATTGCTAATGGCTGAACTGGAAATAAGGATCCGTTGCTTGCCAACAACTATACTGCGTGGTATTTTCCCAGTGGAAAGATCGGGAACCTTTGATCTTCAATATAGTTACAATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTTGGGTATAACAGGATGAGGAGGACGATTCGAAGTCACGATCATGCGCCCAAGTCAGAATGACTCCACACTACTCCTCCTCAGGACCATTTATAAATAAACAGTGATCAAGATTCCAACAATTAAGATGGCTTGAAACCAATTTCTGCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT +>2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5 +ACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC +>2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5 +GTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-extract-out1.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-extract-out1.fastq Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,48 @@\n+@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\n+GAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\n++\n+)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\n+ATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\n++\n+""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\n+CTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\n++\n+"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\n+GCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\n++\n+))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\n+ACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\n++\n+"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\n+CATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGAACAATGGTAGCCACTAAATCTATAAC'..b'GTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\n++\n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n+@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\n+ACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\n++\n+####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\n+GTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\n++\n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n' |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-fastq-out1.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-fastq-out1.fasta Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,12 @@ +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/2016_3_4_3507_1_ch128_read95_strand.fast5 +GAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/2016_3_4_3507_1_ch128_read95_strand.fast5 +ATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC +>b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/2016_3_4_3507_1_ch128_read95_strand.fast5 +CTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA +>935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/2016_3_4_3507_1_ch128_read430_strand.fast5 +GCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT +>935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/2016_3_4_3507_1_ch128_read430_strand.fast5 +ACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC +>935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/2016_3_4_3507_1_ch128_read430_strand.fast5 +CATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGAACAATGGTAGCCACTAAATCTATAACAATTATTTCAGAAGTTGTCCGCTTGAATCATTCATTTGAAATTGTTAGTGACGCAAGTTAATGCGCGATCCCAGGAGCGGGCTCGTCCAGTTTACAATTGTCCATGCGTAGTCAGTTGTTATGTTGATTCCTGTTACCGATAGGGTATATAACGCTCCTAGTCGATTCGATTTGCTTGGCGCCATCCAAGTATTCCAGAGTCCTTAGCATTTTCTTAATGGCACGTGAAAACGAATCCCCTAAGAGCCACTTATCACGTCCGATTACATACTCCAGTCATGACGCTTCTGTTTATGTTTCTTAACCA |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-fastq-out1.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-fastq-out1.fastq Tue Dec 19 14:46:31 2017 -0500 |
| b |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-squiggle-out1-1.png |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-squiggle-out1-2.pdf |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-stats-out1.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-stats-out1.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,29 @@ +files total reads 4 +files total base-called reads 4 +complement total reads 4 +complement total base pairs 1601 +complement mean 400.25 +complement median 420 +complement min 159 +complement max 602 +complement N25 602 +complement N50 464 +complement N75 376 +template total reads 4 +template total base pairs 1736 +template mean 434.00 +template median 433 +template min 212 +template max 657 +template N25 657 +template N50 494 +template N75 373 +twodirections total reads 4 +twodirections total base pairs 1830 +twodirections mean 457.50 +twodirections median 468 +twodirections min 202 +twodirections max 692 +twodirections N25 692 +twodirections N50 523 +twodirections N75 413 |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-stats-out2.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-stats-out2.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,9 @@ +total reads 4 +total base pairs 1601 +mean 400.25 +median 420 +min 159 +max 602 +N25 602 +N50 464 +N75 376 |
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| diff -r 000000000000 -r 7593f94691fb test-data/poretools-stats-out3.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-stats-out3.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,29 @@ +files total reads 4 +files total base-called reads 4 +complement total reads 4 +complement total base pairs 1601 +complement mean 400.25 +complement median 420 +complement min 159 +complement max 602 +complement N25 602 +complement N50 464 +complement N75 376 +template total reads 4 +template total base pairs 1736 +template mean 434.00 +template median 433 +template min 212 +template max 657 +template N25 657 +template N50 494 +template N75 373 +twodirections total reads 4 +twodirections total base pairs 1830 +twodirections mean 457.50 +twodirections median 468 +twodirections min 202 +twodirections max 692 +twodirections N25 692 +twodirections N50 523 +twodirections N75 413 |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-stats-out4.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-stats-out4.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,9 @@ +total reads 4 +total base pairs 1830 +mean 457.50 +median 468 +min 202 +max 692 +N25 692 +N50 523 +N75 413 |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-stats-out5.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-stats-out5.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| @@ -0,0 +1,29 @@ +files total reads 4 +files total base-called reads 4 +complement total reads 4 +complement total base pairs 1601 +complement mean 400.25 +complement median 420 +complement min 159 +complement max 602 +complement N25 602 +complement N50 464 +complement N75 376 +template total reads 4 +template total base pairs 1736 +template mean 434.00 +template median 433 +template min 212 +template max 657 +template N25 657 +template N50 494 +template N75 373 +twodirections total reads 4 +twodirections total base pairs 1830 +twodirections mean 457.50 +twodirections median 468 +twodirections min 202 +twodirections max 692 +twodirections N25 692 +twodirections N50 523 +twodirections N75 413 |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-tabular-out1.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-tabular-out1.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,13 @@\n+length\tname\tsequence\tquals\n+202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n+602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n' |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-tabular-out2.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-tabular-out2.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,13 @@\n+length\tname\tsequence\tquals\n+202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n+602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n' |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-tabular-out3.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-tabular-out3.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,13 @@\n+length\tname\tsequence\tquals\n+202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t))))+-*)*)+**++**+)*)*,-,,+++-+++/./20.//.+...*.,-,--+***,+++++**+++,.//.,++,.54.320/--.,-.++-.,,.-++++*,+,-./0/.0000/..0-,----/.----,+++++,00.//./.++*+//0.//00/285/+*+**+-,,,,,-,**,,,+--00*0/)*.,+,+.,,,+++,,-+*,*+-+,+,--..,+****)**+++,+++***)*+)**)-,.20//02-))**++*+**+*+**-/0./-,,,--))*))++)+*++..,,+-./.+++++,++++,025-,5.-/,-//0/---,,.43430,,-+,+,.,/..-.+***)))))..//-+,***)))+)++))),***)**))(())--.-())((,((*(*(((*+-0/---,*/**)*,-/.0.-,.,++)*,+,,-,--,-,+++**))**,+*+*))))*))))*))+(+,-+,**)))*)*)))*++((*+****,,,---+*,+*+,0,++*)))(,03.--1+***-*-)*)+****))))+))+***+21--/.-)))**)*)***-10--,-,,+*+)))+,..,,/,,,,-,+)())***)())*++++,+)))***+*))((,+(((())(*)()()***,,---,,,+)((((,()**.*(***+)))\n+602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n' |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-tabular-out4.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-tabular-out4.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,13 @@\n+length\tname\tsequence\tquals\n+202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n+602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n' |
| b |
| diff -r 000000000000 -r 7593f94691fb test-data/poretools-tabular-out5.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/poretools-tabular-out5.tabular Tue Dec 19 14:46:31 2017 -0500 |
| b |
| b'@@ -0,0 +1,13 @@\n+length\tname\tsequence\tquals\n+202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n+159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n+212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n+413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n+376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n+373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n+602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n+657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand 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