IGVweb not loading GFF compressed and index files when served from a server

[r78v10a07]

I have two files with extensions: gff.gz and gff.gz.tbi.
The files are loaded correctly if the track are defined like this:

tracks: [
    {
        name: "Genes",
        type: "annotation",
        format: "gff3",
        sourceType: "file",
        url: "./../resources/sorted_reference_genome.gff.gz",
        indexURL: "./../resources/sorted_reference_genome_index.gff.gz.tbi",
        oauthToken: `${token}`,
        removable: false,
        order: 1000000
    }
]

However, when the files are served from a server it is not loaded

Track:

tracks: [
    {
        name: "Genes",
        type: "annotation",
        format: "gff3",
        sourceType: "file",
        url: `${host}/api/data/${datasetId}/component/bgzipped_gff`,
        indexURL: `${host}/api/data/${datasetId}/component/bgzipped_gff_index`,
        oauthToken: `${token}`,
        removable: false,
        order: 1000000
    }
]

I tried these headers and it is not working:

AddType application/octet-stream gff.gz
Content-Disposition attachment; filename=sorted_reference_genome.gff.gz

AddType application/octet-stream gff.gz.tbi
Content-Disposition attachment; filename=sorted_reference_genome.gff.gz.tbi

[jrobinso]

Hi, we most defintely load many gff files from remote servers, so we need to dig deeper. Does your server include CORS headers? What is the nature of the failure?

[jrobinso]

General information on server requirements can be found here: https://igv.org/doc/igvjs/#Data-Server-Requirements/.

[r78v10a07]

The error I'm seeing in the webinterface is just a Dialog withe the message: Dataset
Here is the response header:

[jrobinso]

What does the response look like for the gff.gz file?

You might try this and compare responses carefully

                    {
                        "type": "annotation",
                        "format": "gtf",
                        "url": "https://s3.amazonaws.com/igv.broadinstitute.org/annotations/hg19/genes/gencode.v24lift37.annotation.sorted.gtf.gz",
                        "indexURL": "https://s3.amazonaws.com/igv.broadinstitute.org/annotations/hg19/genes/gencode.v24lift37.annotation.sorted.gtf.gz.tbi",
                        "name": "Gencode v24 (gtf) -- genes filtered",
                    }

[jrobinso]

Also, what is the actual response, if any? Its odd that some of the headers are listed twice (Origin for example), I don't know what the consequence of that might be.

[jrobinso]

I don't see the CORS headers, which is the likely cause of the failure. See the link I posted above.

[r78v10a07]

I have other files (decompressed FASTA with index) served from the same server and it works fine. Only the GFF file is failing.

[r78v10a07]

The FASTA sequence is loaded but not the genes.
Here is the full genome object

{
      id:datasetId,
      name: `My Genome`,
      fastaURL: `${host}/api/data/${datasetId}/component/decompressed_fasta`,
      indexURL: `${host}/api/data/${datasetId}/component/decompressed_fasta_index`,
      oauthToken: `${token}`,
      tracks: [
          {
              name: "Genes",
              type: "annotation",
              format: "gff3",
              sourceType: "file",
              url: `${host}/api/data/${datasetId}/component/bgzipped_gff`,
              indexURL: `${host}/api/data/${datasetId}/component/bgzipped_gff_index`,
              oauthToken: `${token}`,
              removable: false,
              order: 1000000
          }
      ]
  }

[r78v10a07]

I have more info.
I put the files on a public S3 bucket and it works. However, when I remove the file extension it does not work. This seems to be happening with the server as well.

File with extension works:

File without extension don't works

[jrobinso]

Are you using the latest version of igv.js? I can't reproduce your problem. I have attached a test case.

                    {
                        name: "Genes",
                        format: "gff3",
                        url: `bgzipped_gff`,
                        indexURL: `bgzipped_gff_index`
                    }

noextensions.zip

[r78v10a07]

I'm using this version

IGV-Web app version 1.3.0
igv.js version 2.6.5

[jrobinso]

That's an old version, almost 4 years old.

[r78v10a07]

Will try to use the new one