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Entering edit mode
14 days ago
Maryam • 0

     library(TCGAbiolinks)

data.category = "Transcriptome Profiling",
data.type = "Gene Expression Quantification",
workflow.type = "STAR - Counts", legacy = F,
experimental.strategy = "RNA-Seq")


Downloading: 260 MB     At least one of the chunks download was not correct. We will retry

There was an error in the download process (we might had a connection problem with GDC server).
Please run this function it again.
Try using method = client or setting files.per.chunk to a small number.


I also tried "client" method but I get this error:

Downloading data for project TCGA-STAD
trying URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip'

cannot open URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip'

URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip': status was 'URL using bad/illegal format or missing URL


I also tried files.per.chunk...

I really need the data and I don't know what to do. I would be grateful if you could help me. Thanks in advance.

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Entering edit mode
13 days ago

try GDCdownload(query = stadquery, method = "api", files.per.chunk = 1) and try to conect internet by ethernet cable

This worked for me Good Luck :)