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BioinformaticsFMRP / TCGAbiolinks

TCGAbiolinks
http://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/index.html
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[BUG] Error downloading CPTAC-3 SNV data #587

Open cbravo93 opened 1 year ago

cbravo93 commented 1 year ago

Hi!

I am unable to download the CPTAC-3 SNV data:

query <- GDCquery(
    project = "CPTAC-3", 
    data.category = "Simple Nucleotide Variation",
    data.type = "Masked Somatic Mutation",
    access = "open", 
    legacy = FALSE, 
)
GDCdownload(query)
Downloading data for project CPTAC-3
GDCdownload will download 1392 files. A total of 125.350549 MB
Downloading as: Mon_Jun_26_11_09_33_2023.tar.gz
  |===============================================================================================| 100%
/bin/tar: This does not look like a tar archive

gzip: stdin: not in gzip format
/bin/tar: Child returned status 1
/bin/tar: Error is not recoverable: exiting now
Download completed

Any idea how to solve it?

Thanks!

C

cbravo93 commented 1 year ago

I have also checked the downloaded file, this is its content:

<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN">
<html><head>
<title>504 Gateway Timeout</title>
</head><body>
<h1>Gateway Timeout</h1>
<p>The gateway did not receive a timely response
from the upstream server or application.</p>
</body></html>