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.
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_188.8.131.52/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.
R version 3.3.0 (2016-05-03)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04 LTS
 LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
 LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
 LC_PAPER=en_US.UTF-8 LC_NAME=C
 LC_ADDRESS=C LC_TELEPHONE=C
 LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
 stats graphics grDevices utils datasets methods base
other attached packages: