I couldn't download data from the TCGA database. How do I need to fix it？

[geng-lee]

I couldn't download data from the TCGA database. How do I need to fix it？

Download and load most recent junction quantification and clinical data from

TCGA/FireBrowse for Breast Cancer

data <- loadFirebrowseData(folder=folder,

• cohort="BRCA",
• data=c("clinical", "junction_quantification",
• "RSEM_genes"),
• date="2016-01-28")

Loading... | | 0% Downloading files... 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Clinical_Pick_Tier1.Level_4.2016012800.0.0.tar.gz' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Clinical_Pick_Tier1.Level_4.2016012800.0.0.tar.gz.md5' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_Clinical.Level_1.2016012800.0.0.tar.gz' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_Clinical.Level_1.2016012800.0.0.tar.gz.md5' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data.Level_3.2016012800.0.0.tar.gz' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data.Level_3.2016012800.0.0.tar.gz.md5' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2016012800.0.0.tar.gz' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2016012800.0.0.tar.gz.md5' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data.Level_3.2016012800.0.0.tar.gz' 试开URL’http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data.Level_3.2016012800.0.0.tar.gz.md5' Error in download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : cannot download any files 此外: Warning messages: 1: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Clinical_Pick_Tier1.Level_4.2016012800.0.0.tar.gz': status was 'Failure when receiving data from the peer' 2: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Clinical_Pick_Tier1.Level_4.2016012800.0.0.tar.gz.md5': status was 'Failure when receiving data from the peer' 3: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_Clinical.Level_1.2016012800.0.0.tar.gz': status was 'Failure when receiving data from the peer' 4: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_Clinical.Level_1.2016012800.0.0.tar.gz.md5': status was 'Failure when receiving data from the peer' 5: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data.Level_3.2016012800.0.0.tar.gz': status was 'Failure when receiving data from the peer' 6: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__junction_quantification__data.Level_3.2016012800.0.0.tar.gz.md5': status was 'Failure when receiving data from the peer' 7: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2016012800.0.0.tar.gz': status was 'Failure when receiving data from the peer' 8: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseqv2__illuminahiseq_rnaseqv2__unc_edu__Level_3__RSEM_genes__data.Level_3.2016012800.0.0.tar.gz.md5': status was 'Failure when receiving data from the peer' 9: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data.Level_3.2016012800.0.0.tar.gz': status was 'Failure when receiving data from the peer' 10: In download.file(missingFiles, destfile = file.path(folder, basename(missingFiles))) : URL 'http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Merge_rnaseq__illuminahiseq_rnaseq__unc_edu__Level_3__gene_expression__data.Level_3.2016012800.0.0.tar.gz.md5': status was 'Failure when receiving data from the peer'

[nuno-agostinho]

Hi @geng-lee, that is odd. Could you please try downloading again?

[nuno-agostinho]

Hi @geng-lee, did you have any luck with this issue?