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gene2transcript error for gene LYST #80

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AnotherSimon opened this issue Sep 16, 2022 · 0 comments
Open

gene2transcript error for gene LYST #80

AnotherSimon opened this issue Sep 16, 2022 · 0 comments

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@AnotherSimon
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I'm getting a server error message when trying to retrieve the transcripts for the gene "LYST"

http://my.local.server:8000/VariantValidator/tools/gene2transcripts/LYST?content-type=application%2Fjson
{
  "message": "Internal Server Error"
}
Response headers
 connection: keep-alive  
 content-length: 36  
 content-type: application/json  
date: Fri, 16 Sep 2022 09:45:33 GMT  
server: gunicorn 

Curiously enough validation of specific transcript variants works just fine:

http://my.local.server:8000/VariantValidator/variantvalidator/GRCh37/NM_000081.4(LYST)%3Ac.2048C%3EA/NM_000081.4?content-type=application%2Fjson
{
  "NM_000081.4:c.2048C>A": {
    ...
    "hgvs_refseqgene_variant": "",
    "hgvs_transcript_variant": "NM_000081.4:c.2048C>A",
    "primary_assembly_loci": {
      "grch37": {
        "hgvs_genomic_description": "NC_000001.10:g.235972070G>T",
        "vcf": {
          "alt": "T",
          "chr": "1",
          "pos": "235972070",
          "ref": "G"
        }
      },
      ...
    "reference_sequence_records": {
      "protein": "https://www.ncbi.nlm.nih.gov/nuccore/NP_000072.2",
      "transcript": "https://www.ncbi.nlm.nih.gov/nuccore/NM_000081.4"
    },
    ...
  "flag": "gene_variant",
  "metadata": {
    "variantvalidator_hgvs_version": "2.0.2.dev1+g6ecbf8e",
    "variantvalidator_version": "2.1.1.dev2+g294fd63",
    "vvdb_version": "vvdb_2022_04",
    "vvseqrepo_db": "VV_SR_2022_02/master",
    "vvta_version": "vvta_2022_02"
  }
}

Version Info:

rest_VariantValidator

 2.0.1.dev10+g00b5072.d20220705 

[ Base URL: / ]

/swagger.json
By continuing to use this service you agree to our terms and conditions of Use

    [Terms and Conditions](https://github.com/openvar/variantValidator/blob/master/README.md)

Powered by

    [VariantValidator](https://github.com/openvar/rest_variantValidator) version 2.1.1.dev2+g294fd63
    [VariantFormatter](https://github.com/openvar/variantFormatter) version 2.1.1.dev2+g726ebad
    [vv_hgvs](https://github.com/openvar/vv_hgvs) version 2.0.2.dev1+g6ecbf8e
    [VVTA](https://www528.lamp.le.ac.uk/) release vvta_2022_02
    [vvSeqRepo](https://www528.lamp.le.ac.uk/) release VV_SR_2022_02
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