Hi all !

Hope everybody is ok, thanks for the guys who are active here :)

There might a problem with the TCGAdownload function at the moment.

Code that used to work before don't work anymore on my machine.

For example :

query <- TCGAquery(tumor="BRCA", level=3, platform="MDA_RPPA_Core")

TCGAdownload(query, path="rppa")

or :

TCGAdownload(query, path="rppa", samples=c("TCGA-E2-A14V-01A-21-A13E-20"))

gives me :

-=-=-=-=-=-=
| Downloading:5 folders
| Path:rppa
-=-=-=-=-=-=
  |                                                                      |   0%
Downloading:mdanderson.org_BRCA.MDA_RPPA_Core.Level_3.1.3.0.tar.gz
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100   240  100   240    0     0     40      0  0:00:06  0:00:05  0:00:01    54
100  2060  100  2060    0     0    343      0  0:00:06  0:00:05  0:00:01   343
Error in fread(paste0(root, data[i, "deployLocation"], ".md5"), header = F,  :
  Expected sep (',') but new line or EOF ends field 1 on line 33 when reading data: -->
De plus : Warning messages:
1: In fread(paste0(root, data[i, "deployLocation"], ".md5"), header = F,  :
  Unable to find 5 lines with expected number of columns (+ middle)
2: In fread(paste0(root, data[i, "deployLocation"], ".md5"), header = F,  :
  Unable to find 5 lines with expected number of columns (+   last)

Can somebody try to see if I'm dumb or it's not me.

Thanks :)

hmm this could be an explanation :

https://tcga-data.nci.nih.gov/maintenance_deploying.html