| Next changeset 1:2af554112418 (2020-06-17) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanocompore commit 652a872061324ba1073bfa286777ffeefa352671" |
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added:
NanocomporeDB_process.py macros.xml nanocompore_db.xml test-data/DB.tar test-data/GMM_logit_pvalue.bedgraph test-data/KS_dwell_pvalue.bedgraph test-data/KS_intensity_pvalue.bedgraph test-data/annot.bed test-data/reference.fa test-data/sample1.tsv test-data/sample1.tsv.idx test-data/sample2.tsv test-data/sample2.tsv.idx |
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| diff -r 000000000000 -r b6eeea872fd2 NanocomporeDB_process.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/NanocomporeDB_process.py Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,60 @@ +#!/usr/bin/env python + +import argparse +import os + +from nanocompore.SampCompDB import SampCompDB + + +def is_valid_file(file_name): + if os.path.isfile(file_name): + return os.path.abspath(file_name) + else: + raise FileNotFoundError(os.path.abspath(file_name)) + + +def is_valid_directory(dir_name): + if os.path.isdir(dir_name): + return os.path.abspath(dir_name) + else: + raise NotADirectoryError(os.path.abspath(dir_name)) + + +if __name__ == '__main__': + + parser = argparse.ArgumentParser( + description='save nanocompre sampcomp \ + results as interval outputs \ + \nSample call: \"python Nannocompore-plot.py --db-path \ + ./out_SampComp.db --ref-fasta ref.fa --annotation-bed annot.bed \ + --out-dir ./plots/') + + parser.add_argument('--ref-fasta', required=True, type=is_valid_file, + help='The reference genome used for read alignment.') + parser.add_argument('--db-path', default="./out_SampComp.db", type=str, + help='Path to the SampCompDB database path prefix.') + parser.add_argument('--annotation-bed', required=False, type=is_valid_file, + help='BED file containing the annotation of the transcriptome used as reference when mapping') + parser.add_argument('--pvalue-types', type=str, + default='GMM_logit_pvalue,KS_dwell_pvalue,KS_intensity_pvalue', + help='path to the annotations') + parser.add_argument('--bedgraph', default=False, + help='write output in BEDGRAPH format instead of BED') + parser.add_argument('--pvalue-threshold', default=1.0, + help='Maximum reported p-value.') + parser.add_argument('--out-dir', default="./", type=is_valid_directory, + help='path the plotting output directory.') + + args = parser.parse_args() + + db = SampCompDB(args.db_path, fasta_fn=args.ref_fasta, + bed_fn=args.annotation_bed) + print(db) + print("DB read ids:", db.ref_id_list) + + if args.annotation_bed: + for pt in args.pvalue_types.split(','): + print("bedgraph output for p-value type:", pt) + db.save_to_bed(output_fn='{}/{}.bedgraph'.format(args.out_dir, pt), + pvalue_field=pt, pvalue_thr=args.pvalue_threshold, + bedgraph=args.bedgraph) |
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| diff -r 000000000000 -r b6eeea872fd2 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,32 @@ +<?xml version="1.0"?> +<macros> + <token name="@TOOL_VERSION@">1.0.0rc3.post2</token> + <token name="@WRAPPER_VERSION@">galaxy0</token> + <token name="@DESCRIPTION@"></token> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@TOOL_VERSION@">nanocompore</requirement> + <requirement type="package" version="1.32">tar</requirement> + </requirements> + </xml> + <xml name="citations"> + <citations> + <citation type="bibtex">@online{Nanocompore, + author = {Adrien Leger, Tommaso Leonard}, + title = {Nanocompore}, + year = 2019, + url = {https://nanocompore.rna.rocks/}, + urldate = {2020-04-30} + }</citation> + </citations> + </xml> + <token name="@WID@"><![CDATA[ +Nanocompore identifies differences in ONT nanopore sequencing raw signal corresponding to RNA modifications by comparing 2 samples + +Nanocompore compares 2 ONT nanopore direct RNA sequencing datasets from different experimental conditions expected to have a significant impact on RNA modifications. It is recommended to have at least 2 replicates per condition. For example one can use a control condition with a significantly reduced number of modifications such as a cell line for which a modification writing enzyme was knocked-down or knocked-out. Alternatively, on a smaller scale transcripts of interests could be synthesized in-vitro. + ]]></token> + + <token name="@REFERENCES@"><![CDATA[ +More information are available on the `project website <https://nanocompore.rna.rocks/>`_ and `github <https://github.com/tleonardi/nanocompore>`_. + ]]></token> +</macros> \ No newline at end of file |
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| diff -r 000000000000 -r b6eeea872fd2 nanocompore_db.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/nanocompore_db.xml Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,43 @@ +<tool id="nanocompore_db" name="NanoComporeDB" version="@TOOL_VERSION@+@WRAPPER_VERSION@"> + <description>Process SampComp results database</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <command detect_errors="exit_code"><![CDATA[ +mkdir results && +tar -xf $db --strip-components 1 -C results/ && + python '$__tool_directory__/NanocomporeDB_process.py' + --db-path 'results/out_SampComp.db' + --ref-fasta '$reference' +--annotation-bed '$annotation' + ]]></command> + <inputs> + <param name="reference" type="data" format="fasta" label="The reference genome used for read alignment."/> + <param name="annotation" format="bed" type="data" label="BED file containing the annotation of the transcriptome used as reference when mapping"/> + <param name="db" type="data" format="tar" label="SampComp Database" /> + </inputs> + <outputs> + <data name="GMM_logit" format="bedgraph" from_work_dir="GMM_logit_pvalue.bedgraph" /> + <data name="KS_dwell" format="bedgraph" from_work_dir="KS_dwell_pvalue.bedgraph" /> + <data name="KS_intensity" format="bedgraph" from_work_dir="KS_intensity_pvalue.bedgraph" /> + </outputs> + <tests> + <test> + <param name="reference" value="reference.fa"/> + <param name="annotation" value="annot.bed"/> + <param name="db" value="DB.tar"/> + <output name="GMM_logit" file="GMM_logit_pvalue.bedgraph"/> + <output name="KS_dwell" file="KS_dwell_pvalue.bedgraph"/> + <output name="KS_intensity" file="KS_intensity_pvalue.bedgraph"/> + </test> + </tests> + <help><![CDATA[ +Produces interval bed and bedgraph outputs from NanoCompore SampComp results as input using NaonComporeDB API. + +**References** + +@REFERENCES@ + ]]></help> + <expand macro="citations"/> +</tool> |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/DB.tar |
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| Binary file test-data/DB.tar has changed |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/GMM_logit_pvalue.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/GMM_logit_pvalue.bedgraph Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,2 @@ +chr 22102 22107 chr_AGGAA 0 + +chr 22103 22108 chr_GGAAA 1.0472150418546853 + |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/KS_dwell_pvalue.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/KS_dwell_pvalue.bedgraph Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,2 @@ +chr 22102 22107 chr_AGGAA 0.037294307603991536 + +chr 22103 22108 chr_GGAAA 0.037294307603991536 + |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/KS_intensity_pvalue.bedgraph --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/KS_intensity_pvalue.bedgraph Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,2 @@ +chr 22102 22107 chr_AGGAA 0.5940708247528699 + +chr 22103 22108 chr_GGAAA 0.5940708247528699 + |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/annot.bed --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/annot.bed Mon Jun 08 14:41:41 2020 -0400 |
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| @@ -0,0 +1,1 @@ +chr 1 30000 chr 0 + |
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| diff -r 000000000000 -r b6eeea872fd2 test-data/reference.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/reference.fa Mon Jun 08 14:41:41 2020 -0400 |
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| b'@@ -0,0 +1,417 @@\n+>chr\n+ATTAAAGGTTTATACCTTCCCAGGTAACAAACCAACCAACTTTCGATCTCTTGTAGATCTGTTCTCTAAACG\n+AACTTTAAAATCTGTGTGGCTGTCACTCGGCTGCATGCTTAGTGCACTCACGCAGTATAATTAATAACTAAT\n+TACTGTCGTTGACAGGACACGAGTAACTCGTCTATCTTCTGCAGGCTGCTTACGGTTTCGTCCGTGTTGCAG\n+CCGATCATCAGCACATCTAGGTTTCGTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTCCCTGGTTT\n+CAACGAGAAAACACACGTCCAACTCAGTTTGCCTGTTTTACAGGTTCGCGACGTGCTCGTACGTGGCTTTGG\n+AGACTCCGTGGAGGAGGTCTTATCAGAGGCACGTCAACATCTTAAAGATGGCACTTGTGGCTTAGTAGAAGT\n+TGAAAAAGGCGTTTTGCCTCAACTTGAACAGCCCTATGTGTTCATCAAACGTTCGGATGCTCGAACTGCACC\n+TCATGGTCATGTTATGGTTGAGCTGGTAGCAGAACTCGAAGGCATTCAGTACGGTCGTAGTGGTGAGACACT\n+TGGTGTCCTTGTCCCTCATGTGGGCGAAATACCAGTGGCTTACCGCAAGGTTCTTCTTCGTAAGAACGGTAA\n+TAAAGGAGCTGGTGGCCATAGTTACGGCGCCGATCTAAAGTCATTTGACTTAGGCGACGAGCTTGGCACTGA\n+TCCTTATGAAGATTTTCAAGAAAACTGGAACACTAAACATAGCAGTGGTGTTACCCGTGAACTCATGCGTGA\n+GCTTAACGGAGGGGCATACACTCGCTATGTCGATAACAACTTCTGTGGCCCTGATGGCTACCCTCTTGAGTG\n+CATTAAAGACCTTCTAGCACGTGCTGGTAAAGCTTCATGCACTTTGTCCGAACAACTGGACTTTATTGACAC\n+TAAGAGGGGTGTATACTGCTGCCGTGAACATGAGCATGAAATTGCTTGGTACACGGAACGTTCTGAAAAGAG\n+CTATGAATTGCAGACACCTTTTGAAATTAAATTGGCAAAGAAATTTGACACCTTCAATGGGGAATGTCCAAA\n+TTTTGTATTTCCCTTAAATTCCATAATCAAGACTATTCAACCAAGGGTTGAAAAGAAAAAGCTTGATGGCTT\n+TATGGGTAGAATTCGATCTGTCTATCCAGTTGCGTCACCAAATGAATGCAACCAAATGTGCCTTTCAACTCT\n+CATGAAGTGTGATCATTGTGGTGAAACTTCATGGCAGACGGGCGATTTTGTTAAAGCCACTTGCGAATTTTG\n+TGGCACTGAGAATTTGACTAAAGAAGGTGCCACTACTTGTGGTTACTTACCCCAAAATGCTGTTGTTAAAAT\n+TTATTGTCCAGCATGTCACAATTCAGAAGTAGGACCTGAGCATAGTCTTGCCGAATACCATAATGAATCTGG\n+CTTGAAAACCATTCTTCGTAAGGGTGGTCGCACTATTGCCTTTGGAGGCTGTGTGTTCTCTTATGTTGGTTG\n+CCATAACAAGTGTGCCTATTGGGTTCCACGTGCTAGCGCTAACATAGGTTGTAACCATACAGGTGTTGTTGG\n+AGAAGGTTCCGAAGGTCTTAATGACAACCTTCTTGAAATACTCCAAAAAGAGAAAGTCAACATCAATATTGT\n+TGGTGACTTTAAACTTAATGAAGAGATCGCCATTATTTTGGCATCTTTTTCTGCTTCCACAAGTGCTTTTGT\n+GGAAACTGTGAAAGGTTTGGATTATAAAGCATTCAAACAAATTGTTGAATCCTGTGGTAATTTTAAAGTTAC\n+AAAAGGAAAAGCTAAAAAAGGTGCCTGGAATATTGGTGAACAGAAATCAATACTGAGTCCTCTTTATGCATT\n+TGCATCAGAGGCTGCTCGTGTTGTACGATCAATTTTCTCCCGCACTCTTGAAACTGCTCAAAATTCTGTGCG\n+TGTTTTACAGAAGGCCGCTATAACAATACTAGATGGAATTTCACAGTATTCACTGAGACTCATTGATGCTAT\n+GATGTTCACATCTGATTTGGCTACTAACAATCTAGTTGTAATGGCCTACATTACAGGTGGTGTTGTTCAGTT\n+GACTTCGCAGTGGCTAACTAACATCTTTGGCACTGTTTATGAAAAACTCAAACCCGTCCTTGATTGGCTTGA\n+AGAGAAGTTTAAGGAAGGTGTAGAGTTTCTTAGAGACGGTTGGGAAATTGTTAAATTTATCTCAACCTGTGC\n+TTGTGAAATTGTCGGTGGACAAATTGTCACCTGTGCAAAGGAAATTAAGGAGAGTGTTCAGACATTCTTTAA\n+GCTTGTAAATAAATTTTTGGCTTTGTGTGCTGACTCTATCATTATTGGTGGAGCTAAACTTAAAGCCTTGAA\n+TTTAGGTGAAACATTTGTCACGCACTCAAAGGGATTGTACAGAAAGTGTGTTAAATCCAGAGAAGAAACTGG\n+CCTACTCATGCCTCTAAAAGCCCCAAAAGAAATTATCTTCTTAGAGGGAGAAACACTTCCCACAGAAGTGTT\n+AACAGAGGAAGTTGTCTTGAAAACTGGTGATTTACAACCATTAGAACAACCTACTAGTGAAGCTGTTGAAGC\n+TCCATTGGTTGGTACACCAGTTTGTATTAACGGGCTTATGTTGCTCGAAATCAAAGACACAGAAAAGTACTG\n+TGCCCTTGCACCTAATATGATGGTAACAAACAATACCTTCACACTCAAAGGCGGTGCACCAACAAAGGTTAC\n+TTTTGGTGATGACACTGTGATAGAAGTGCAAGGTTACAAGAGTGTGAATATCACTTTTGAACTTGATGAAAG\n+GATTGATAAAGTACTTAATGAGAAGTGCTCTGCCTATACAGTTGAACTCGGTACAGAAGTAAATGAGTTCGC\n+CTGTGTTGTGGCAGATGCTGTCATAAAAACTTTGCAACCAGTATCTGAATTACTTACACCACTGGGCATTGA\n+TTTAGATGAGTGGAGTATGGCTACATACTACTTATTTGATGAGTCTGGTGAGTTTAAATTGGCTTCACATAT\n+GTATTGTTCTTTCTACCCTCCAGATGAGGATGAAGAAGAAGGTGATTGTGAAGAAGAAGAGTTTGAGCCATC\n+AACTCAATATGAGTATGGTACTGAAGATGATTACCAAGGTAAACCTTTGGAATTTGGTGCCACTTCTGCTGC\n+TCTTCAACCTGAAGAAGAGCAAGAAGAAGATTGGTTAGATGATGATAGTCAACAAACTGTTGGTCAACAAGA\n+CGGCAGTGAGGACAATCAGACAACTACTATTCAAACAATTGTTGAGGTTCAACCTCAATTAGAGATGGAACT\n+TACACCAGTTGTTCAGACTATTGAAGTGAATAGTTTTAGTGGTTATTTAAAACTTACTGACAATGTATACAT\n+TAAAAATGCAGACATTGTGGAAGAAGCTAAAAAGGTAAAACCAACAGTGGTTGTTAATGCAGCCAATGTTTA\n+CCTTAAACATGGAGGAGGTGTTGCAGGAGCCTTAAATAAGGCTACTAACAATGCCATGCAAGTTGAATCTGA\n+TGATTACATAGCTACTAATGGACCACTTAAAGTGGGTGGTAGTTGTGTTTTAAGCGGACACAATCTTGCTAA\n+ACACTGTCTTCATGTTGTCGGCCCAAATGTTAACAAAGGTGAAGACATTCAACTTCTTAAGAGTGCTTATGA\n+AAATTTTAATCAGCACGAAGTTCTACTTGCACCATTATTATCAGCTGGTATTTTTGGTGCTGACCCTATACA\n+TTCTTTAAGAGTTTGTGTAGATACTGTTCGCACAAATGTCTACTTAGCTGTCTTTGATAAAAATCTCTATGA\n+CAAACTTGTTTCAAGCTTTTTGGAAATGAAGAGTGAAAAGCAAGTTGAACAA'..b'ACTTCAGACTATTACCAGCTGTACTCAACTCAATTGAGTACAGACACTGGT\n+GTTGAACATGTTACCTTCTTCATCTACAATAAAATTGTTGATGAGCCTGAAGAACATGTCCAAATTCACACA\n+ATCGACGGTTCATCCGGAGTTGTTAATCCAGTAATGGAACCAATTTATGATGAACCGACGACGACTACTAGC\n+GTGCCTTTGTAAGCACAAGCTGATGAGTACGAACTTATGTACTCATTCGTTTCGGAAGAGACAGGTACGTTA\n+ATAGTTAATAGCGTACTTCTTTTTCTTGCTTTCGTGGTATTCTTGCTAGTTACACTAGCCATCCTTACTGCG\n+CTTCGATTGTGTGCGTACTGCTGCAATATTGTTAACGTGAGTCTTGTAAAACCTTCTTTTTACGTTTACTCT\n+CGTGTTAAAAATCTGAATTCTTCTAGAGTTCCTGATCTTCTGGTCTAAACGAACTAAATATTATATTAGTTT\n+TTCTGTTTGGAACTTTAATTTTAGCCATGGCAGATTCCAACGGTACTATTACCGTTGAAGAGCTTAAAAAGC\n+TCCTTGAACAATGGAACCTAGTAATAGGTTTCCTATTCCTTACATGGATTTGTCTTCTACAATTTGCCTATG\n+CCAACAGGAATAGGTTTTTGTATATAATTAAGTTAATTTTCCTCTGGCTGTTATGGCCAGTAACTTTAGCTT\n+GTTTTGTGCTTGCTGCTGTTTACAGAATAAATTGGATCACCGGTGGAATTGCTATCGCAATGGCTTGTCTTG\n+TAGGCTTGATGTGGCTCAGCTACTTCATTGCTTCTTTCAGACTGTTTGCGCGTACGCGTTCCATGTGGTCAT\n+TCAATCCAGAAACTAACATTCTTCTCAACGTGCCACTCCATGGCACTATTCTGACCAGACCGCTTCTAGAAA\n+GTGAACTCGTAATCGGAGCTGTGATCCTTCGTGGACATCTTCGTATTGCTGGACACCATCTAGGACGCTGTG\n+ACATCAAGGACCTGCCTAAAGAAATCACTGTTGCTACATCACGAACGCTTTCTTATTACAAATTGGGAGCTT\n+CGCAGCGTGTAGCAGGTGACTCAGGTTTTGCTGCATACAGTCGCTACAGGATTGGCAACTATAAATTAAACA\n+CAGACCATTCCAGTAGCAGTGACAATATTGCTTTGCTTGTACAGTAAGTGACAACAGATGTTTCATCTCGTT\n+GACTTTCAGGTTACTATAGCAGAGATATTACTAATTATTATGAGGACTTTTAAAGTTTCCATTTGGAATCTT\n+GATTACATCATAAACCTCATAATTAAAAATTTATCTAAGTCACTAACTGAGAATAAATATTCTCAATTAGAT\n+GAAGAGCAACCAATGGAGATTGATTAAACGAACATGAAAATTATTCTTTTCTTGGCACTGATAACACTCGCT\n+ACTTGTGAGCTTTATCACTACCAAGAGTGTGTTAGAGGTACAACAGTACTTTTAAAAGAACCTTGCTCTTCT\n+GGAACATACGAGGGCAATTCACCATTTCATCCTCTAGCTGATAACAAATTTGCACTGACTTGCTTTAGCACT\n+CAATTTGCTTTTGCTTGTCCTGACGGCGTAAAACACGTCTATCAGTTACGTGCCAGATCAGTTTCACCTAAA\n+CTGTTCATCAGACAAGAGGAAGTTCAAGAACTTTACTCTCCAATTTTTCTTATTGTTGCGGCAATAGTGTTT\n+ATAACACTTTGCTTCACACTCAAAAGAAAGACAGAATGATTGAACTTTCATTAATTGACTTCTATTTGTGCT\n+TTTTAGCCTTTCTGCTATTCCTTGTTTTAATTATGCTTATTATCTTTTGGTTCTCACTTGAACTGCAAGATC\n+ATAATGAAACTTGTCACGCCTAAACGAACATGAAATTTCTTGTTTTCTTAGGAATCATCACAACTGTAGCTG\n+CATTTCACCAAGAATGTAGTTTACAGTCATGTACTCAACATCAACCATATGTAGTTGATGACCCGTGTCCTA\n+TTCACTTCTATTCTAAATGGTATATTAGAGTAGGAGCTAGAAAATCAGCACCTTTAATTGAATTGTGCGTGG\n+ATGAGGCTGGTTCTAAATCACCCATTCAGTACATCGATATCGGTAATTATACAGTTTCCTGTTCACCTTTTA\n+CAATTAATTGCCAGGAACCTAAATTGGGTAGTCTTGTAGTGCGTTGTTCGTTCTATGAAGACTTTTTAGAGT\n+ATCATGACGTTCGTGTTGTTTTAGATTTCATCTAAACGAACAAACTAAAATGTCTGATAATGGACCCCAAAA\n+TCAGCGAAATGCACCCCGCATTACGTTTGGTGGACCCTCAGATTCAACTGGCAGTAACCAGAATGGAGAACG\n+CAGTGGGGCGCGATCAAAACAACGTCGGCCCCAAGGTTTACCCAATAATACTGCGTCTTGGTTCACCGCTCT\n+CACTCAACATGGCAAGGAAGACCTTAAATTCCCTCGAGGACAAGGCGTTCCAATTAACACCAATAGCAGTCC\n+AGATGACCAAATTGGCTACTACCGAAGAGCTACCAGACGAATTCGTGGTGGTGACGGTAAAATGAAAGATCT\n+CAGTCCAAGATGGTATTTCTACTACCTAGGAACTGGGCCAGAAGCTGGACTTCCCTATGGTGCTAACAAAGA\n+CGGCATCATATGGGTTGCAACTGAGGGAGCCTTGAATACACCAAAAGATCACATTGGCACCCGCAATCCTGC\n+TAACAATGCTGCAATCGTGCTACAACTTCCTCAAGGAACAACATTGCCAAAAGGCTTCTACGCAGAAGGGAG\n+CAGAGGCGGCAGTCAAGCCTCTTCTCGTTCCTCATCACGTAGTCGCAACAGTTCAAGAAATTCAACTCCAGG\n+CAGCAGTAGGGGAACTTCTCCTGCTAGAATGGCTGGCAATGGCGGTGATGCTGCTCTTGCTTTGCTGCTGCT\n+TGACAGATTGAACCAGCTTGAGAGCAAAATGTCTGGTAAAGGCCAACAACAACAAGGCCAAACTGTCACTAA\n+GAAATCTGCTGCTGAGGCTTCTAAGAAGCCTCGGCAAAAACGTACTGCCACTAAAGCATACAATGTAACACA\n+AGCTTTCGGCAGACGTGGTCCAGAACAAACCCAAGGAAATTTTGGGGACCAGGAACTAATCAGACAAGGAAC\n+TGATTACAAACATTGGCCGCAAATTGCACAATTTGCCCCCAGCGCTTCAGCGTTCTTCGGAATGTCGCGCAT\n+TGGCATGGAAGTCACACCTTCGGGAACGTGGTTGACCTACACAGGTGCCATCAAATTGGATGACAAAGATCC\n+AAATTTCAAAGATCAAGTCATTTTGCTGAATAAGCATATTGACGCATACAAAACATTCCCACCAACAGAGCC\n+TAAAAAGGACAAAAAGAAGAAGGCTGATGAAACTCAAGCCTTACCGCAGAGACAGAAGAAACAGCAAACTGT\n+GACTCTTCTTCCTGCTGCAGATTTGGATGATTTCTCCAAACAATTGCAACAATCCATGAGCAGTGCTGACTC\n+AACTCAGGCCTAAACTCATGCAGACCACACAAGGCAGATGGGCTATATAAACGTTTTCGCTTTTCCGTTTAC\n+GATATATAGTCTACTCTTGTGCAGAATGAATTCTCGTAACTACATAGCACAAGTAGATGTAGTTAACTTTAA\n+TCTCACATAGCAATCTTTAATCAGTGTGTAACATTAGGGAGGACTTGAAAGAGCCACCACATTTTCACCGAG\n+GCCACGCGGAGTACGATCGAGTGTACAGTGAACAATGCTAGGGAGAGCTGCCTATATGGAAGAGCCCTAATG\n+TGTAAAATTAATTTTAGTAGTGCTATCCCCATGTGATTTTAATAGCTTCTTAGGAGAATGACAAAAAAAAAA\n+AAAAAAAAAAAAAAAAAAAAAAA\n' 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| diff -r 000000000000 -r b6eeea872fd2 test-data/sample1.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample1.tsv Mon Jun 08 14:41:41 2020 -0400 |
| b |
| b'@@ -0,0 +1,236 @@\n+#f30a0489-ec1e-4f6e-829e-fa6d16dbee2e\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00664\t0.0\t0.0\t124.18560791015625\t122.90550231933594\t20\n+22102\tGGAAA\t2\t0.00564\t0.0\t0.0\t127.36959838867188\t130.8000030517578\t17\n+#e924b30f-22dc-4156-8e5c-ba664abbe7a7\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.0073\t0.0\t0.0\t118.83446502685547\t119.46699523925781\t22\n+22102\tGGAAA\t2\t0.0249\t0.0\t0.0\t124.0261459350586\t123.86900329589844\t75\n+#d4988330-6f34-498a-b1e3-6574d8b3dae2\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t2\t0.020249999999999997\t0.0\t0.0\t118.07210540771484\t119.5469970703125\t61\n+22102\tGGAAA\t1\t0.00531\t0.0\t0.0\t125.96463012695312\t129.28799438476562\t16\n+#0f8c0aae-a5ce-47ae-af66-a762f44a9d3a\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t4\t0.02025\t0.0\t0.0\t115.89058685302734\t116.44599914550781\t61\n+22102\tGGAAA\t5\t0.032529999999999996\t0.0\t0.0\t123.7591552734375\t123.37649536132812\t98\n+#43000cf1-c697-4e0b-8414-5aed3db85976\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00863\t0.0\t0.0\t115.45061492919922\t115.2125015258789\t26\n+22102\tGGAAA\t5\t0.03153\t0.0\t0.0\t123.54806518554688\t124.41400146484375\t95\n+#1a0779f0-4d51-4400-8b0e-29363ea9aa91\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00332\t0.0\t0.0\t121.51219177246094\t122.51849365234375\t10\n+22102\tGGAAA\t1\t0.00664\t0.0\t0.0\t127.57340240478516\t126.875\t20\n+#85462d40-9227-4f0a-ad25-c4c5abb6b7e6\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00232\t0.0\t0.0\t118.0605697631836\t117.97699737548828\t7\n+22102\tGGAAA\t3\t0.01792\t0.0\t0.0\t125.30520629882812\t124.95249938964844\t54\n+#5bf2cef1-ec1f-4b1f-bf9f-e79dccb33836\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.01129\t0.0\t0.0\t123.4063491821289\t123.86349487304688\t34\n+22102\tGGAAA\t6\t0.03785\t0.0\t0.0\t127.39415740966797\t127.95649719238281\t114\n+#db70549e-4650-4e64-904d-7929f4701b4d\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00896\t0.0\t0.0\t113.59844970703125\t113.57099914550781\t27\n+22102\tGGAAA\t2\t0.02922\t0.0\t0.0\t123.96391296386719\t123.3489990234375\t88\n+#34c8247e-6fbd-4a8c-a17e-8c740d3bfb08\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.02623\t0.0\t0.0\t116.989013671875\t117.33599853515625\t79\n+22102\tGGAAA\t4\t0.05378\t0.0\t0.0\t128.04013061523438\t128.47850036621094\t162\n+#0eb8f174-1680-41ca-a098-b762e6ee7b76\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t2\t0.017589999999999998\t0.0\t0.0\t121.86357879638672\t121.02200317382812\t53\n+22102\tGGAAA\t5\t0.030549999999999997\t0.0\t0.0\t120.92530059814453\t122.95249938964844\t92\n+#77489463-5e96-43b5-ba97-aad51f918336\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.01726\t0.0\t0.0\t115.67981719970703\t115.3905029296875\t52\n+22102\tGGAAA\t7\t0.04051\t0.0\t0.0\t125.22063446044922\t126.13650512695312\t122\n+#4e6ece57-2cb1-4f12-8410-ae9696be4e43\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t2\t0.01494\t0.0\t0.0\t118.05428314208984\t119.79900360107422\t45\n+22102\tGGAAA\t3\t0.01594\t0.00299\t0.0\t122.89998626708984\t121.07949829101562\t48\n+#578c1cbf-e9c0-47b0-b5ad-eeeec8cacaa2\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00232\t0.0\t0.0\t112.2434310913086\t111.820999'..b'.07249450683594\t50\n+#7e6a64b0-7d43-4f78-a72c-d053eaac2b71\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.01693\t0.0\t0.0\t114.24336242675781\t113.62000274658203\t51\n+22102\tGGAAA\t4\t0.01129\t0.0\t0.0\t124.12264251708984\t124.63099670410156\t34\n+#8b682e72-00ee-4a1a-98bf-362841494e57\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.01494\t0.0\t0.0\t121.48255920410156\t120.88600158691406\t45\n+22102\tGGAAA\t8\t0.05246\t0.0\t0.0\t124.7437973022461\t125.19549560546875\t158\n+#be2461c2-1165-47fc-ba73-2aadcfa12b5f\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00896\t0.0\t0.0\t119.70619201660156\t120.0780029296875\t27\n+22102\tGGAAA\t1\t0.00232\t0.0\t0.0\t129.27142333984375\t128.3769989013672\t7\n+#c395d12e-07b3-4a1d-88cc-d3f7a8603d64\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.00863\t0.0\t0.0\t119.27664947509766\t119.33699798583984\t26\n+22102\tGGAAA\t3\t0.011290000000000001\t0.0\t0.0\t122.20012664794922\t121.69549560546875\t34\n+#af037c78-1908-4828-8e39-481c69de7afc\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.02357\t0.0\t0.0\t115.24366760253906\t115.1719970703125\t71\n+22102\tGGAAA\t3\t0.01328\t0.0\t0.0\t124.0596923828125\t124.27850341796875\t40\n+#d1262e2d-f7d5-4afc-8e66-98c77bdf21b7\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t4\t0.023239999999999997\t0.0\t0.0\t114.12039947509766\t113.22699737548828\t70\n+22102\tGGAAA\t4\t0.05013\t0.0\t0.0\t123.6082763671875\t123.87899780273438\t151\n+#6b779e7d-26fb-4863-9082-04068823a29d\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00863\t0.0\t0.0\t125.01396179199219\t124.99749755859375\t26\n+22102\tGGAAA\t1\t0.00232\t0.0\t0.0\t133.4332733154297\t134.6649932861328\t7\n+#e8da2741-03f5-416a-a7f0-96250a49ddd6\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t3\t0.02358\t0.0\t0.0\t122.79644775390625\t122.7229995727539\t71\n+22102\tGGAAA\t9\t0.04183\t0.0\t0.0\t123.63143920898438\t124.23600006103516\t126\n+#484f63e8-a501-4edd-8c0e-fba261ed96e1\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00764\t0.0\t0.0\t118.35243225097656\t120.302001953125\t23\n+22102\tGGAAA\t2\t0.01095\t0.0\t0.0\t126.8102035522461\t126.19499969482422\t33\n+#0f18df3d-e006-4d83-9c00-d2b6e2b668af\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00896\t0.0\t0.0\t123.11996459960938\t123.06900024414062\t27\n+22102\tGGAAA\t1\t0.00631\t0.0\t0.0\t129.66537475585938\t131.13299560546875\t19\n+#a7b0744a-4f4a-4d45-907d-b0eed99d2e98\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00598\t0.0\t0.0\t118.61209869384766\t117.44599914550781\t18\n+22102\tGGAAA\t2\t0.01726\t0.0\t0.0\t124.54773712158203\t125.95449829101562\t52\n+#30f0513c-dc44-44d4-ac18-1bfd7a9a28bb\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t1\t0.00996\t0.0\t0.0\t115.39576721191406\t114.21499633789062\t30\n+22102\tGGAAA\t6\t0.03054\t0.0\t0.0\t124.31990051269531\t125.22949981689453\t92\n+#6057e4db-745d-407d-98bb-83a8e9a5f0ce\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22101\tAGGAA\t2\t0.04349\t0.0\t0.0\t113.60332489013672\t113.35299682617188\t131\n+22102\tGGAAA\t5\t0.05743\t0.0\t0.0\t120.23699188232422\t121.44599914550781\t173\n+#55fb9fbe-c25a-486b-9fed-b50328c70e5a\tchr\n+ref_pos\tref_kmer\tnum_events\tdwell_time\tNNNNN_dwell_time\tmismatch_dwell_time\tmean\tmedian\tnum_signals\n+22102\tGGAAA\t1\t0.00631\t0.0\t0.0\t127.09893798828125\t128.00999450683594\t19\n+#\n' |
| b |
| diff -r 000000000000 -r b6eeea872fd2 test-data/sample1.tsv.idx --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample1.tsv.idx Mon Jun 08 14:41:41 2020 -0400 |
| b |
| @@ -0,0 +1,60 @@ +ref_id ref_start ref_end read_id kmers dwell_time NNNNN_kmers mismatch_kmers missing_kmers byte_offset byte_len +chr 22101 22103 f30a0489-ec1e-4f6e-829e-fa6d16dbee2e 2 0.01228 0 0 0 0 282 +chr 22101 22103 e924b30f-22dc-4156-8e5c-ba664abbe7a7 2 0.0322 0 0 0 283 280 +chr 22101 22103 d4988330-6f34-498a-b1e3-6574d8b3dae2 2 0.025559999999999996 0 0 0 564 295 +chr 22101 22103 0f8c0aae-a5ce-47ae-af66-a762f44a9d3a 2 0.052779999999999994 0 0 0 860 295 +chr 22101 22103 43000cf1-c697-4e0b-8414-5aed3db85976 2 0.04016 0 0 0 1156 282 +chr 22101 22103 1a0779f0-4d51-4400-8b0e-29363ea9aa91 2 0.00996 0 0 0 1439 272 +chr 22101 22103 85462d40-9227-4f0a-ad25-c4c5abb6b7e6 2 0.020239999999999998 0 0 0 1712 281 +chr 22101 22103 5bf2cef1-ec1f-4b1f-bf9f-e79dccb33836 2 0.04914 0 0 0 1994 283 +chr 22101 22103 db70549e-4650-4e64-904d-7929f4701b4d 2 0.03818 0 0 0 2278 282 +chr 22101 22103 34c8247e-6fbd-4a8c-a17e-8c740d3bfb08 2 0.08001 0 0 0 2561 282 +chr 22101 22103 0eb8f174-1680-41ca-a098-b762e6ee7b76 2 0.048139999999999995 0 0 0 2844 309 +chr 22101 22103 77489463-5e96-43b5-ba97-aad51f918336 2 0.05777 0 0 0 3154 283 +chr 22101 22103 4e6ece57-2cb1-4f12-8410-ae9696be4e43 2 0.030879999999999998 1 0 0 3438 287 +chr 22101 22103 578c1cbf-e9c0-47b0-b5ad-eeeec8cacaa2 2 0.02555 0 0 0 3726 281 +chr 22101 22103 ff72f771-8174-4950-9ede-40ffb052d044 2 0.027889999999999998 0 0 0 4008 280 +chr 22101 22103 97b0f9b2-48c6-4928-b366-b1e7b8721271 2 0.02656 0 0 0 4289 282 +chr 22101 22103 136f4584-fa85-47b5-965d-2bc88fa15e4a 2 0.033190000000000004 0 0 0 4572 293 +chr 22101 22103 8a7c1cbe-453b-44a4-82aa-ad2305025760 2 0.02889 0 0 0 4866 283 +chr 22101 22103 a77db53e-9553-4045-858a-9953b6a42523 2 0.02391 0 0 0 5150 282 +chr 22101 22103 085929b9-c69c-4245-99dc-de3e01b24557 2 0.053099999999999994 0 0 0 5433 295 +chr 22101 22103 b03e37d7-1199-43e4-ad8e-90d5f65484ba 2 0.04017 0 0 0 5729 283 +chr 22101 22103 66e23a5c-4fde-4b66-9b25-ff5bade5ebf6 2 0.03719 0 0 0 6013 295 +chr 22101 22103 7931a9dc-02fd-4dfd-a8e1-92d6fe1a2e9a 2 0.00996 0 0 0 6309 281 +chr 22101 22103 679e2499-ffd9-4d91-bd03-5fa5228fb2b0 2 0.01294 0 0 0 6591 280 +chr 22101 22103 d6e01353-c2f7-4051-b49d-b77f23df84db 2 0.057769999999999995 0 0 0 6872 281 +chr 22101 22103 593e8df7-d17f-45dc-97e9-7dd9f17eccc5 2 0.07436000000000001 0 0 0 7154 284 +chr 22101 22103 6781c476-1d7d-424f-be2f-7272f2293816 2 0.01593 0 0 0 7439 282 +chr 22101 22103 24561b20-06f9-4395-bb5d-06df8c7af304 2 0.01593 0 0 0 7722 282 +chr 22101 22103 dc6b006e-8002-4f07-8ec5-e5256be95278 2 0.00896 0 0 0 8005 282 +chr 22101 22103 79f6a527-ae56-4f0c-9374-80ec5312d014 2 0.02324 0 0 0 8288 281 +chr 22101 22103 da09104c-079f-4258-8c19-7c9d5cc89538 2 0.02556 0 0 0 8570 283 +chr 22101 22103 39db71ed-6c5a-4ede-a358-e81f0e6bf313 2 0.02557 0 0 0 8854 296 +chr 22101 22103 36e065cf-3fd1-4960-a8fb-e49eab5350c1 2 0.04317 0 0 0 9151 282 +chr 22101 22103 4f330c34-6e05-41aa-b867-90bbd125e829 2 0.08267000000000001 1 0 0 9434 283 +chr 22101 22103 5454e135-40bd-416c-836f-78c02e508a3c 2 0.0385 0 0 0 9718 283 +chr 22101 22103 539baf2c-e615-463f-950e-938f9370f66d 2 0.013940000000000001 0 0 0 10002 295 +chr 22101 22103 082d338f-2d9d-48da-9308-9031ffc98e33 2 0.01959 0 0 0 10298 282 +chr 22101 22103 905dc486-7e27-423d-bd9e-1ef91f051f5e 2 0.027229999999999997 1 0 0 10581 299 +chr 22101 22103 2e0984c3-ab2e-4f67-bcdf-2f83731e9b33 2 0.01394 1 0 0 10881 285 +chr 22101 22103 ca36cae0-9b99-4bc7-b542-5ceafd7fe08e 2 0.01759 0 0 0 11167 281 +chr 22101 22103 20efbede-e82d-497d-837a-a504f23daa7a 2 0.0069700000000000005 0 0 0 11449 282 +chr 22101 22103 e33453d3-70da-4985-b718-581993fffe54 2 0.03221 0 0 0 11732 283 +chr 22101 22103 3bcf4483-16f3-4ad3-9109-67138290cca3 2 0.0176 0 0 0 12016 282 +chr 22101 22103 7bb71d53-9b4a-4571-83f3-2aebd1fcbac1 2 0.03253 0 0 0 12299 282 +chr 22101 22103 501e4486-c0c2-4d1f-938b-af2449132fb0 2 0.021580000000000002 0 0 0 12582 279 +chr 22101 22103 7e6a64b0-7d43-4f78-a72c-d053eaac2b71 2 0.028220000000000002 0 0 0 12862 283 +chr 22101 22103 8b682e72-00ee-4a1a-98bf-362841494e57 2 0.0674 0 0 0 13146 283 +chr 22101 22103 be2461c2-1165-47fc-ba73-2aadcfa12b5f 2 0.011279999999999998 0 0 0 13430 280 +chr 22101 22103 c395d12e-07b3-4a1d-88cc-d3f7a8603d64 2 0.01992 0 0 0 13711 296 +chr 22101 22103 af037c78-1908-4828-8e39-481c69de7afc 2 0.03685 0 0 0 14008 281 +chr 22101 22103 d1262e2d-f7d5-4afc-8e66-98c77bdf21b7 2 0.07336999999999999 0 0 0 14290 296 +chr 22101 22103 6b779e7d-26fb-4863-9082-04068823a29d 2 0.010950000000000001 0 0 0 14587 280 +chr 22101 22103 e8da2741-03f5-416a-a7f0-96250a49ddd6 2 0.06541 0 0 0 14868 283 +chr 22101 22103 484f63e8-a501-4edd-8c0e-fba261ed96e1 2 0.01859 0 0 0 15152 280 +chr 22101 22103 0f18df3d-e006-4d83-9c00-d2b6e2b668af 2 0.015269999999999999 0 0 0 15433 283 +chr 22101 22103 a7b0744a-4f4a-4d45-907d-b0eed99d2e98 2 0.02324 0 0 0 15717 283 +chr 22101 22103 30f0513c-dc44-44d4-ac18-1bfd7a9a28bb 2 0.0405 0 0 0 16001 283 +chr 22101 22103 6057e4db-745d-407d-98bb-83a8e9a5f0ce 2 0.10092000000000001 0 0 0 16285 285 +chr 22102 22103 55fb9fbe-c25a-486b-9fed-b50328c70e5a 1 0.00631 0 0 0 16571 212 |
| b |
| diff -r 000000000000 -r b6eeea872fd2 test-data/sample2.tsv --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample2.tsv Mon Jun 08 14:41:41 2020 -0400 |
| b |
| b'@@ -0,0 +1,401 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|
| b |
| diff -r 000000000000 -r b6eeea872fd2 test-data/sample2.tsv.idx --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample2.tsv.idx Mon Jun 08 14:41:41 2020 -0400 |
| b |
| b'@@ -0,0 +1,101 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|