dstewar6
commented
5 months ago Hi Mincana-Huang, I am currently having the same issue when I try to use method = "client", were you ever able to find a solution to this? Thanks!
Open Mincana-Huang opened 9 months ago
dstewar6
commented
5 months ago Hi Mincana-Huang, I am currently having the same issue when I try to use method = "client", were you ever able to find a solution to this? Thanks!
GDCdownload(query_col_wxs, directory = "TCGA_DATA_DL") Downloading data for project TCGA-COAD GDCdownload will download 457 files. A total of 82.8324 MB Downloading as: Sat_Feb_17_21_15_58_2024.tar.gz Downloading: 83 MB <simpleWarning in file.create(to[okay]): cannot create file 'TCGA_DATA_DL/TCGA-COAD/Simple_Nucleotide_Variation/Masked_Somatic_Mutation/61132188-579f-4baa-891f-9c9b2b3fae1f/e37894df-0715-4171-bb88-0b175dccee7f.wxs.aliquot_ensemble_masked.maf.gz', reason 'No such file or directory'>
The same error occurred in the remaining 400+ files. I checked to make sure the directory exists and ran RStudio as administrator. Then I used the client method to download, and the error message was as follows. Downloading data for project TCGA-COAD trying URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip' Error in download.file(url, ...) : cannot open URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip' In addition: Warning message: In download.file(url, ...) : URL '/files/public/file/gdc-client_v1.6.1_Windows_x64.zip': status was 'URL using bad/illegal format or missing URL'