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For htsget variants source and visibilityWindow = -1 IGV get data only for one chromosome #1609

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RoadRoller opened this issue Mar 17, 2023 · 1 comment

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@RoadRoller
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igv.js version: 2.13.11

Steps to reproduce:

  1. configure variants track with htsget source and visibilityWindow = -1
{
        name: 'My variants',
        url: <URL_TO_HTSGET_SERVER>,
        type: "variant",
        format: "vcf",
        sourceType: 'htsget',
        visibilityWindow: -1,
      }
  1. Open IGV with track and select some chromosome - variants displayed as expected
  2. Switch to another chromosome - results are empty, expected variants for selected chromosome
@RoadRoller RoadRoller changed the title For htsget source variants visibilityWindow = -1 get data only for one chromosome For htsget variants source and visibilityWindow = -1 IGV get data only for one chromosome Mar 17, 2023
@jrobinso
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jrobinso commented Mar 17, 2023

Unfortunately I do not have access to an htsget server anymore, the public endpoint from GA4GH has been broken for over a year. So I'm not able to support htsget at this time.

See ga4gh/htsget-refserver#33

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