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BioinformaticsFMRP / TCGAbiolinksGUI

TCGAbiolinksGUI code development for R/Bioconductor submission http://tcgabiolinks.fmrp.usp.br:3838/
http://bioinformaticsfmrp.github.io/TCGAbiolinksGUI
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After downloading GDC data, it stops at "prepare progress" without any progress nor error message #33

Open sky1ove opened 6 years ago

sky1ove commented 6 years ago

After downloading GDC data, it stops at "prepare progress" without any progress nor error message

sky1ove commented 6 years ago

and after waiting for a long time, it showed error in gene.location$ensembl_gene_id : $ operator

tiagochst commented 6 years ago

Which TCGAbiolinks and biomaRt versions do you have? Could you update them? You can do that by running:

devtools::install_github('BioinformaticsFMRP/TCGAbiolinks')
devtools::install_github('grimbough/biomaRt')
devtools::install_github('BioinformaticsFMRP/TCGAbiolinksGUI.data', ref = "R_3.4")
devtools::install_github('BioinformaticsFMRP/TCGAbiolinksGUI')
> packageVersion("Biomart")
[1] ‘2.35.0’
> packageVersion("TCGAbiolinks")
[1] ‘2.7.4’