From 1356c4504fb77c2de93f640d38990688fff9b938 Mon Sep 17 00:00:00 2001 From: Peter Amstutz Date: Thu, 13 Oct 2016 22:43:24 -0400 Subject: [PATCH] Add test for secondaryFiles with arrays --- v1.0/conformance_test_v1.0.yaml | 12 ++++++ .../v1.0/docker-array-secondaryfiles-job.json | 12 ++++++ v1.0/v1.0/docker-array-secondaryfiles.cwl | 38 +++++++++++++++++++ v1.0/v1.0/ref.fasta.fai | 5 +++ v1.0/v1.0/ref2.fasta | 10 +++++ v1.0/v1.0/ref2.fasta.fai | 5 +++ 6 files changed, 82 insertions(+) create mode 100644 v1.0/v1.0/docker-array-secondaryfiles-job.json create mode 100644 v1.0/v1.0/docker-array-secondaryfiles.cwl create mode 100644 v1.0/v1.0/ref.fasta.fai create mode 100644 v1.0/v1.0/ref2.fasta create mode 100644 v1.0/v1.0/ref2.fasta.fai diff --git a/v1.0/conformance_test_v1.0.yaml b/v1.0/conformance_test_v1.0.yaml index 23f5b22a2..13e281db0 100644 --- a/v1.0/conformance_test_v1.0.yaml +++ b/v1.0/conformance_test_v1.0.yaml @@ -898,3 +898,15 @@ output: {count_output: 16} tool: v1.0/count-lines10-wf.cwl doc: Test embedded subworkflow + +- job: v1.0/docker-array-secondaryfiles-job.json + output: { + "bai_list": { + "checksum": "sha1$081fc0e57d6efa5f75eeb237aab1d04031132be6", + "location": "fai.list", + "class": "File", + "size": 386 + } + } + tool: v1.0/docker-array-secondaryfiles.cwl + doc: Test secondaryFiles on array of files. \ No newline at end of file diff --git a/v1.0/v1.0/docker-array-secondaryfiles-job.json b/v1.0/v1.0/docker-array-secondaryfiles-job.json new file mode 100644 index 000000000..5d178fc63 --- /dev/null +++ b/v1.0/v1.0/docker-array-secondaryfiles-job.json @@ -0,0 +1,12 @@ +{ + "fasta_path": [ + { + "class": "File", + "location": "ref.fasta" + }, + { + "class": "File", + "location": "ref2.fasta" + } + ] +} diff --git a/v1.0/v1.0/docker-array-secondaryfiles.cwl b/v1.0/v1.0/docker-array-secondaryfiles.cwl new file mode 100644 index 000000000..4b1597563 --- /dev/null +++ b/v1.0/v1.0/docker-array-secondaryfiles.cwl @@ -0,0 +1,38 @@ +#!/usr/bin/env cwl-runner + +cwlVersion: v1.0 + +requirements: + - class: DockerRequirement + dockerPull: debian:8 + - class: InlineJavascriptRequirement + - class: ShellCommandRequirement + +class: CommandLineTool + +inputs: + fasta_path: + type: + type: array + items: File + secondaryFiles: + - .fai + +outputs: + bai_list: + type: File + outputBinding: + glob: "fai.list" + +arguments: + - valueFrom: ${ + var fai_list = ""; + for (var i = 0; i < inputs.fasta_path.length; i ++) { + fai_list += " cat " + inputs.fasta_path[i].path +".fai" + " >> fai.list && " + } + return fai_list.slice(0,-3) + } + position: 1 + shellQuote: false + +baseCommand: [] diff --git a/v1.0/v1.0/ref.fasta.fai b/v1.0/v1.0/ref.fasta.fai new file mode 100644 index 000000000..e5d66331d --- /dev/null +++ b/v1.0/v1.0/ref.fasta.fai @@ -0,0 +1,5 @@ +0$chr1$9001$11468 2567 19 2567 2568 +1$chr1$53713$55817 2204 2607 2204 2205 +2$chr1$65161$67630 2569 4832 2569 2570 +3$chr1$82792$85041 2349 7422 2349 2350 +4$chr1$98000$100116 2216 9793 2216 2217 diff --git a/v1.0/v1.0/ref2.fasta b/v1.0/v1.0/ref2.fasta new file mode 100644 index 000000000..bad272557 --- /dev/null +++ b/v1.0/v1.0/ref2.fasta @@ -0,0 +1,10 @@ +>0$chr1$9001$11468 +NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCCTAACCCTAACCCTAACCCTAACCCTAACCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCCTAACCCTAACCCTAAACCCTAAACCCTAACCCTAACCCTAACCCTAACCCTAACCCCAACCCCAACCCCAACCCCAACCCCAACCCCAACCCTAACCCCTAACCCTAACCCTAACCCTACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCCTAACCCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCCCTAACCCTAACCCTAACCCTAACCCTCGCGGTACCCTCAGCCGGCCCGCCCGCCCGGGTCTGACCTGAGGAGAACTGTGCTCCGCCTTCAGAGTACCACCGAAATCTGTGCAGAGGACAACGCAGCTCCGCCCTCGCGGTGCTCTCCGGGTCTGTGCTGAGGAGAACGCAACTCCGCCGTTGCAAAGGCGCGCCGCGCCGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGACACATGCTAGCGCGTCGGGGTGGAGGCGTGGCGCAGGCGCAGAGAGGCGCGCCGCGCCGGCGCAGGCGCAGAGACACATGCTACCGCGTCCAGGGGTGGAGGCGTGGCGCAGGCGCAGAGAGGCGCACCGCGCCGGCGCAGGCGCAGAGACACATGCTAGCGCGTCCAGGGGTGGAGGCGTGGCGCAGGCGCAGAGACGCAAGCCTACGGGCGGGGGTTGGGGGGGCGTGTGTTGCAGGAGCAAAGTCGCACGGCGCCGGGCTGGGGCGGGGGGAGGGTGGCGCCGTGCACGCGCAGAAACTCACGTCACGGTGGCGCGGCGCAGAGACGGGTAGAACCTCAGTAATCCGAAAAGCCGGGATCGACCGCCCCTTGCTTGCAGCCGGGCACTACAGGACCCGCTTGCTCACGGTGCTGTGCCAGGGCGCCCCCTGCTGGCGACTAGGGCAACTGCAGGGCTCTCTTGCTTAGAGTGGTGGCCAGCGCCCCCTGCTGGCGCCGGGGCACTGCAGGGCCCTCTTGCTTACTGTATAGTGGTGGCACGCCGCCTGCTGGCAGCTAGGGACATTGCAGGGTCCTCTTGCTCAAGGTGTAGTGGCAGCACGCCCACCTGCTGGCAGCTGGGGACACTGCCGGGCCCTCTTGCTCCAACAGTACTGGCGGATTATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN +>1$chr1$53713$55817 +NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATAGATGGAATAAATAAAATGTGAACTTAGGTAAATTATAAATTAATAAAGTATATTTTTAAAATTTCCATTTTAATTTCTGTTTAAATTAGAATAAGAAACAAAAACAACTATGTAATACGTGTGCAAAGCCCTGAACTGAGATTTGACTTTACCTTGAGCTTTGTCAGTTTACGATGCTATTTCAGTTTTGTGCTCAGATTTGAGTGATTGCAGGAAGAGAATAAATTTCTTTAATGCTGTCAAGACTTTAAATAGATACAGACAGAGCATTTTCACTTTTTCCTACATCTCTATTATTCTAAAAATGAGAACATTCCAAAAGTCAACCATCCAAGTTTATTCTAAATAGATGTGTAGAAATAACAGTTGTTTCACAGGAGACTAATCGCCCAAGGATATGTGTTTAGAGGTACTGGTTTCTTAAATAAGGTTTTCTAGTCAGGCAAAAGATTCCCTGGAGCTTATGCATCTGTGGTTGATATTTTGGGATAAGAATAAAGCTAGAAATGGTGAGGCATATTCAATTTCATTGAAGATTTCTGCATTCAAAATAAAAACTCTATTGAAGTTACACATACTTTTTTCATGTATTTGTTTCTACTGCTTTGTAAATTATAACAGCTCAATTAAGAGAAACCGTACCTATGCTATTTTGTCCTGTGATTCTCCAAGAACCTTCCTAAGTTATTCTACTTAATTGCTTTATCACTCATATGAATGGGAATTTCTTCTCTTAATTGCTGCTAATCTCCCCCATCTTCAAATACTCTACCGGGCTTCTGGAACACCACAGCTTCCTGGCTTTTTCTCCTACCTCCTGGGCAAGTCCTTCCCTGTGTCTTTTGTTGAGTGTTCCTCATCTGCTTAACTACCAATCAACCTATTGCCCCTAATTTGATCTTTGGCCTGTTTTCACTTAGATTCTATCCCTACGTATCACCCATTCCCACAGCTTTAATCACCATCTAAACACTAGGGGCTCTCAAACCTTGTATTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTCCTTTTCTTTCCTTTTCTTTCTTTCATTCTTTCTTTCTTTTTTAAGGGGCAGGGTCTCACTATGTTGCTGAGGCTGGTCTCAAACTCCTGACCTCAAGCAATCTGTCTGCTTCAGCCTCCCAAGTAGCTGAGAATACAGGGACAAGCCATTGCACCTGACCCTGGTACTATTTCTTGAGTTCCTGATCCACAGATCTAACCTCCTACTTTCCTGGATGCCACACAAGATCTTCCACTCAACAAGTCTGCAACTAAACTAGCCTTCCTCTTTTCAAACCTACTCTTCTTTCAGTGTTCTCAGTCACAATAATTTGTACCAACTAGTTACCTAGTTGCACAACCCAAAATCTGGGAAAAATAATAGATTTCTTTCTCCATAGTACCCCCAAATCAATAAATCATCAAGTCTTATTCTACCTTCCAAAGAGCCTTACATATGTTCCTTTATTTTCATCTGTAACACCACTATTCCTGTCTAAGCCTACCTATGTCATTTTTGGAAGAGAATATAGTCACCTATGCGACCTTCCCACTTAAAATCCTACTATTTACGCTTCAGTAAAAGAAAAAAAATTTTTAATCTAAGTATGTAATTCTTTTGCTGAAGACACTTCACTTGCTTCTGTGCCCTTAAACTGGTATGTTATCATGGTATAGTAGGCCATCCAAGACCTGGCTTCCTTCCTTTTTTTCAGTCTCAGAGAATAACATACTCTTTCCCTGCAACTCCAGATCCAATTTGGTTTTCTTTTACTTGCCTGGAAACTCCAAAATCTATCAACTCTGGGGCTTTCCACTAGCTAATCATTTTGTATACAATATTTGTCCTTCATGTTTTGCCTCTTAACATCTCAGCTTTCAGTTTCATCATTTTACCAGGGAGGCCTCCCAGAACCTGAGTCCAGAAGAGTTCCTTCCATTGTATATTCCTCTAGCACTACCTATTACCTCTTTTGTAAGACTAACAGCCCTCAAAATTTTTCATTCAGTGATGTCTTCCTCATTGCATTTTAAGTTCAACATGAGCAGGACTTTGTCGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN +>2$chr1$65161$67630 +NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAATCGAAGCATTATTACTTACTCTCTTGTTAACCTATCTGGATTTTAATTTTGTAACTTTATTATATTTGTTTTGCTGTGATTCTTTAAAAAGCACCTTTAGACTCAGTGAGATAGCAAAAATATCCAAATAGGCCAAAAAATTGTGGCAATGTCCTCTCACTCAGGAAAATTCTGTGTGTTTTCTCTAATGGCCAAGGGAAAACTTGTGAGACTATAAAAGTTAGTCTCAGTACACAAAGCTCAGACTGGCTATTCCCAGATCTCTTCAGGTACATCTAGTCCATTCATAAAGGGCTTTTAATTAACCAAGTGGTTTACTAAAAAGGACAATTCACTACATATTATTCTCTTACAGTTTTTATGCCTCATTCTGTGAAAATTGCTGTAGTCTCTTCCAGTTATGAAGAAGGTAGGTGGAAACAAAGACAAAACACATATATTAGAAGAATGAATGAAATTGTAGCATTTTATTGACAATGAGATGGTTCTATTAGTAGGAATCTATTCTGCATAATTCCATTTTGTGTTTACCTTCTGGAAAAATGAAAGGATTCTGTATGGTTAACTTAAATACTTAGAGAAATTAATATGAATAATGTTAGCAAGAATAACCCTTGTTATAAGTATTATGCTGGCAACAATTGTCGAGTCCTCCTCCTCACTCTTCTGGGCTAATTTGTTCTTTTCTCCCCATTTAATAGTCCTTTTCCCCATCTTTCCCCAGGTCCGGTGTTTTCTTACCCACCTCCTTCCCTCCTTTTTATAATACCAGTGAAACTTGGTTTGGAGCATTTCTTTCACATAAAGGTACAAATCATACTGCTAGAGTTGTGAGGATTTTTACAGCTTTTGAAAGAATAAACTCATTTTAAAAACAGGAAAGCTAAGGCCCAGAGATTTTTAAATGATATTCCCATGATCACACTGTGAATTTGTGCCAGAACCCAAATGCCTACTCCCATCTCACTGAGACTTACTATAAGGACATAAGGCATTTATATATATATATATTATATATACTATATATTTATATATATTACATATTATATATATAATATATATTATATAATATATATTATATTATATAATATATAATATAAATATAATATAAATTATATTATATAATATATAATATAAATATAATATAAATTATATAAATATAATATATATTTTATTATATAATATAATATATATTATATAAATATAATATATAAATTATATAATATAATATATATTATATAATATAATATATTTTATTATATAAATATATATTATATTATATAATATATATTTTATTATATAATATATATTATATATTTATAGAATATAATATATATTTTATTATATAATATATATTATATAATATATATTATATTTATATATAACATATATTATTATATAAAATATGTATAATATATATTATATAAATATATTTATATATTATATAAATATATATATTATATATAATTCTAATGGTTGAATTCCAAGAATAATCTATGGCATGAAAGATTTTACCTGTCAACAGTGGCTGGCTCTTCATGGTTGCTACAATGAGTGTGTAAGATTCTGAAGGACTCCTTTAATAAGCCTAAACTTAATGTTCAACTTAGAATAAATACAATTCTTCTAATTTTTTTTGAATAATTTTTAAAAAGTCAGAAATGAGCTTTGAAAGAATTATGGTGGTGAAGGATCCCCTCAGCAGCACAAATTCAGGAGAGAGATGTCTTAACTACGTTAGCAAGAAATTCCTTTTGCTAAAGAATAGCATTCCTGAATTCTTACTAACAGCCATGATAGAAAGTCTTTTGCTACAGATGAGAACCCTCGGGTCAACCTCATCCTTGGCATATTTCATGTGAAGATATAACTTCAAGATTGTCCTTGCCTATCAATGAAATGAATTAATTTTATGTCAATGCATATTTAAGGTCTATTCTAAATTGCACACTTTGATTCAAAAGAAACAGTCCAACCAACCAGTCAGGACAGAAATTATCTCACAATAAAAATCCTATCGTTTGTACTGTCAATGATTAGTATGATTATATTTATTACCGTGCTAAGCAGAAGAGAAATGAAGTGAATGTTCATGATTTATTCCACTATTAGACTTCTCTTTATTCTTAAAAATATTTAAGATCACTAAATTTTTATAGGACTTTAAAAACAGTAATGTGCTGCTTTGAGTGTGTAGGACTAAGAAATGGGATTCAGAGTAGTAAAGAGAAAAGTGGAATTTCCAAGCACTATGAATTACTGTTCTTTAAAAAACAGCAAAAATCAAATAACAGTATTCCTCCAAAAAAGATGGCAAGTGTAAACTCTATACCTTCATGTCTCCCGTGGAATGTTAGTGATCAATTTCCACTTCTCTCTTTTACATCTTACTTGCCCATTAACTCTTATACCTAATCCAAAGATTGTTAATATGGCTATGTCTCACTTTCAGGACACCTTTTATTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN +>3$chr1$82792$85041 +NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACTACATCCCACAGTGGGTAACAAAAATAACCTTGAAGAAGGGAAAAATTTGGTTTCCAGAATAAACACATTATAATATCCAAAATGTCCAGTTTTCAACAAAAATTAAGAAGCATGCAAATAAACACAAAACTATGGCCCATTTACAGAAGAAATAAATGAGACTCTCCCTGAGTAAGCAGATATTGAAAATATTAGACAAAAACTTTATATAACTGTCTTAAATAAACTTAAAGAGCTAAAGAAACCCAAGAGAATGACATATAAATAAATAAGAAATATGAATTTTTTTAAAGGTACAAAAAAATTCTGAGGCTGAAAAGTACAATAAGTAAAAAGTTACTTTTTACTTAGGGTTCCAATAGAAGATTTGAGCAGCTGGAAAAAAGAATCAGTGAACTTGATAGATCAAATGAAATGATTCAGTCTGAAGAGCAGGAAAATGAAAGAATGACAACAAAAAAGAATAGAGCCTAAAGACCTGTGTAACAACATCAAGAATGCCTACATACAGAATCCTGGTGGGGAGTGAGGGGCAGGAAGACTATTTGAAGAAATGTGTTTGAAAGCTTCCCAAATTTCACTAAAAACAAATATATACATTCAAAAAGCTCAGTGAACTTCATCAAGGAAATATACAAAGATATTCACACCAAGACACACTATGTTTCAAATTGTCAAAAGGCAAAGCGAATGTTTGAAAGCAGCAAGAGAAAGGCAACGCGTCATTTACAAAGGATCCTCAATAAGTTTGACAGCAGATAGTGCATTATAAGCCATGGATGCCAGAAGAGCTTAGGAAAAAGGCAACGCGTCATTTACAAAGGATCCTCAGTAAGTTTGACAGCAGAGAGCTCATTATAAACCATGGGTGCCAGAAGAGCTTAGGATGACATTTTAAAGTTCTGAAAGAAAAAAACACTGTCAACCAAAAATTCTATAACTTGGAAGATGCCCCTTCAAGTATTAAGGATAAATTACACATTCCCAGATTAAAAAAAAGAAAGAGAGAGAGAGAGAAAGAGAAAGAAAGAAAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGAGAAAGAAAGAAAGAAGAAAGAGAAAGAAAGAAAGAAAGAGAGAGAGAAAGAGAGAGAAAGAAAAAGAAGGAAAGAAAGAAAGAAAGAAAAAAGAAAGAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGCAAGCAAGCTTTAAAAGTTCATGTTTGGTAGGCTGTACTTCAAGATACACTTTTAAAAAAAAGACTCCTTCAGATACAAACTAAAAAACACTAGAAAGTAACTCAAAACCACATAAAGAAATAACTCCAGTAAAGATAACTACATAGGTAAATATAAAAGCAATTATCACATTTTTTGTAAGTCTTTTTTAATATTCTATATGTTTTAAAACAAATGTGTAAAATAATGACTATAAATCTATGTTAATGAAGCATGATGTATACAGATGTGGTTTGTGAAATTACCAACATAAAGAAATTCATAGGAAACTAAATAATAATAGAGATTTTGTATACTATTGAAGTTGTTTCAATTTACTCTAAATTGTTCCAAATTAAGAATGTTAATTGTAAATCCCCATGGTAACCACTAAGTTAATATCTTTTGAAAATACAGAAAAGGAAAGCACAGGGTAAACACAGTGATATGCTACAAAATAGCAACTAAACACAAAAGAAGGCGATAATTGAGGAAATTAGGAACAAAGGAGGTATAAGACATACAGAAAACAAAAGCAAAATGGTAGGAGTAAGCCCCTCTTTATCAGTAATTACATTAAATACAAATGAATTAAACTCTCCAATCCAAAGAAAGAGATTAACAGAATGGATTTTTTAAAAATGATCCAACTATATTGTCCACAAGATACTCACTTTAGATCAAAATACACAATGAGTTGAAATGAAAGGATGGGAGAAAATATTCCATGTAAGTAATAACCAAAGGAGATCTGAGGCAAATATACTTATATCAGACAAAATAGACTTTAAGTCAAAAACTGTTACAAAATACAAAGAACAGTATATATTGATTTCAAAATTAATTAAGAAGATATAACAATTATAAATATATGTACACCAACTAACAGGGCTCCAAAATATATAATGTAACCATTGAGAGAATTAAAGGGAGAGACAGACAATTCCACGAAAATTGTTGGGCATTTGAAAACCCAACTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN +>4$chr1$98000$100116 +NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCATGACAGGCAGAGCTCCCTGTTGAGCCACAGAGATTTAGAGAATGGCTGTTAACACAGCATAATCCAGCCCATCCTGACTAATCTGATATTAACATGTATAATAAAGAATTCTATCAATGCTGAGGGAAGATGACTAGTTAAGGTCCTAGGTTGCAAGTCTCAAAACCTCTTCTAAGGATTGTAGACAGGAAATTAAATGACTTCTAGTCCCTAGAGTTCCCAATCTCCTACCATCCCATCCTAATATGACAGAAGTAATTCCTGAGTTGCTTCTGAAACCAGAGCTTCCCTCAGAACCCTTAGCCTGCCAGATGGCTTCTTGGAGAGCCCTCACTCACTTTTCTCCTTCTGCTATTGCTGCTCATTCATTCCAGTTTTTAAAAATTCATCTTTATCCAGGAACCTCGCTTCTAGAAAAGTCATACAGGTGCTTCCAGGAGGCTACATGGGCACCCATATTTTTCTAGCCACTTTCATTAGACCAATGCAGCAGAGAAGAAAAGCCTCAATAATTATTATGACATGGCATGTTAGGATACCAAGTAAATTGCATTTGTAAAATGTGATTTTCTGTTGGTGTTCACTTCAGCTCTACTGACATTTGGTAAGTATTATTGACTGACTGACTAACTAATGTGGTCATTAGTCTTCATAAAGAAAGGCTCTCTACAAAAACGGAGGGATGCCCTTTTTCTGGCATTTAATACGTAAGAAATTGCCTCCAATAGAAACCAGAGTTGCCTGATTACTATCAGCACAGGAGAAATGTATTAATGTGCCTTTCTAGTAACAGGTTTTTAGAAAGTCAAATATAAACAAATCTGTCTATTTGTGTGTGTGCATGTGGTAGTGGGGAGGGAAGAAAAAAGGAGGGGGAGAGAAAGAGAAATAAGAACCAAGTTTATTATACTGTATTCAGGGGGAAAAAATTTTCCCAAGGTCCTAACAGAAGAGCAAAGTGCCACTGTCAATAGCCTCAGTAGTGTTAGGGTTGCTTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTTTCCTTTTTTTTCTTTCTCTTTTTTTCTTCTTTTTTTTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTGGACAGAGTCTCACACTGTCACCTGGGCTGGAGTGCATTGGTGCAATCTCGACTCACTGCAACTTCTGCCTCCCAGGTTCAAGTGATTCTCCTGCCTCAGCCGCCCAAGTAGCTGGGATTACAGGTGTCTGCCACCGTGCCTAGCTAATTTTTTTGTATTTTTAGTAGAGATGAGGTTTCACTATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCATGATCCACCCACGTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCCCCTGGCCAGGATTGCTTTTACAGCCAGTCTTCAGGTGCCCACTGTAGGAACAATGTCATTTAACCCTCGGGATTATTCTGTGCCAAATATGGATAATGACTAATATCCAACACAGATATTCTCAGCTCAGAAGAGCAATTAGCAAATTCATAAATTAAGTGCTTGCTTCCTCTTTAGTCAAATACAAACGTTTGTTAAAAGATATTATTTTGCTTTACACTTTTTCTCTCAGAAATAAGCAGATGCTTGAATTCCCACAGTGCTGCTTGAGCCTCACACCATGTCATCCTGCCAGGCACCCAGATCCAGTTCTAGAGTTTCACATGATCGTGAGTGTTGGTTAATAAGTCAATGTGAACTGGGAGGGGAGATTTTTCAGGAGTGCCACAGGGCTCTCCCTTTAATCACATACACTCCCTGCTTTCATTGGAAAGTGTATAATGATGTCAGAGTGCCCCAGAATGGAGCTAGTTGGAAGACTGCCGTCATAGGGATGCCTTAGTGAATTAATAAGGTTTTAATTTCTGGCTCTCAACTTTGTAGATGTAAAAGTTGATTTATCAATATGTGAGAAAGGATGAATCTTTCTGAAGGTTATGTCATCACACTCACTAAGCACACAGAGAATAATGTCTAGAATCTGAGTGCCATGTTATCAAATTGTACTGAGACTCTTGCAGTCACACAGGCTGACATGTAAGCATCGCCATGCCTAGTACAGACTCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN diff --git a/v1.0/v1.0/ref2.fasta.fai b/v1.0/v1.0/ref2.fasta.fai new file mode 100644 index 000000000..e5d66331d --- /dev/null +++ b/v1.0/v1.0/ref2.fasta.fai @@ -0,0 +1,5 @@ +0$chr1$9001$11468 2567 19 2567 2568 +1$chr1$53713$55817 2204 2607 2204 2205 +2$chr1$65161$67630 2569 4832 2569 2570 +3$chr1$82792$85041 2349 7422 2349 2350 +4$chr1$98000$100116 2216 9793 2216 2217