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BioinformaticsFMRP / TCGAbiolinks

TCGAbiolinks
http://bioconductor.org/packages/devel/bioc/vignettes/TCGAbiolinks/inst/doc/index.html
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Error when I run the codes from tutorial #535

Closed RunzhiZ closed 1 year ago

RunzhiZ commented 1 year ago

Hi,

When I run the codes below in the tutorial

query <- GDCquery(
  project = "TCGA-ACC", 
  data.category = "Sequencing Reads",
  data.type = "Aligned Reads", 
  data.format = "bam",
  workflow.type = "STAR 2-Pass Transcriptome"
)

I got the error: Error in checkDataTypeInput(legacy = legacy, data.type = data.type) : Please set a data.type argument from the column harmonized.data.type above

Thanks!

tiagochst commented 1 year ago

@RunzhiZ Please what version of TCGAbiolinks do you have ?

I tried the latest version and it worked.

Screen Shot 2022-09-01 at 9 31 12 AM
RunzhiZ commented 1 year ago

Hi Tiago,

Thanks for you replying. I found that I used the old version. And now I used the recent version and it works.

Best, Runzhi

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From: Tiago Chedraoui Silva @.> Sent: Thursday, September 1, 2022 8:32 AM To: BioinformaticsFMRP/TCGAbiolinks @.> Cc: Zhang,Runzhi @.>; Mention @.> Subject: Re: [BioinformaticsFMRP/TCGAbiolinks] Error when I run the codes from tutorial (Issue #535)

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I tried the latest version and it worked.

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