Hello everyone, 

I am posting this issue for the `TCGAbiolinks` package because I'm trying to download data but it seems like the link it uses is now broken. 

https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/

The code that I ran encountering this '403 Forbidden Error' is as follows: 

library(TCGAbiolinks)

coad <- TCGAquery_maf("coad")

## Select option 1

Downloading maf file

downloaded 0 bytes

Error in download.file(url, method = method, ...) : 
  cannot download all files
In addition: Warning message:
In download.file(url, method = method, ...) :
  URL 'https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/coad/gsc/broad.mit.edu/illuminaga_dnaseq_automated/mutations/broad.mit.edu_COAD.IlluminaGA_DNASeq_automated.Level_2.1.0.0/gsc_COAD_pairs.aggregated.capture.tcga.uuid.automated.somatic.maf': status was '403 Forbidden'

This seems to be due to changes originating from the TCGA data portal. 

I am currently unable to download any data. 

Thanks, 

Marcel 

sessionInfo()
R version 3.3.0 (2016-05-03)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04 LTS

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] TCGAbiolinks_1.3.6

[truncated...]

Hi,

The problem is related to the maintenance of TCGA data portal. 

As we are not sure it will comeback, we are rewriting the code to make TCGAbiolinks use GDC database instead the old TCGA data portal.

There should be an update in the coming weeks in Bioconductor repository.

Best regards,

Tiago