Error in move(i, file.path(path, i)) : I could not find the file: 95a5d709-7454-4f76-84b0-a505c32baeb5 ; GDCdownload error
0
0
Entering edit mode
fawazfebin ▴ 60
@fawazfebin-14053
Last seen 4.3 years ago

Hi

I was analysing TNBC datasets from TCGA using TCGAbiolinks . The following error was obtained while downloading the data :

> GDCdownload(query = queryDown,
+             directory = DataDirectory)
Downloading data for project TCGA-BRCA
GDCdownload will download: 1.844745499 GB
Executing GDC client with the following command:
C:\Users\Febin\DOCUME~1\GDC-CL~1.EXE download -m gdc_manifest.txt
Error in move(i, file.path(path, i)) : 
  I could not find the file: 95a5d709-7454-4f76-84b0-a505c32baeb5
> sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: i386-w64-mingw32/i386 (32-bit)
Running under: Windows >= 8 (build 9200)

Matrix products: default

locale:
[1] LC_COLLATE=English_India.1252  LC_CTYPE=English_India.1252   
[3] LC_MONETARY=English_India.1252 LC_NUMERIC=C                  
[5] LC_TIME=English_India.1252    

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

other attached packages:
[1] TCGAbiolinks_2.7.9

loaded via a namespace (and not attached):
  [1] httr_1.3.1                  jsonlite_1.5               
  [3] GetoptLong_0.1.6            munsell_0.4.3              
  [5] latticeExtra_0.6-28         dplyr_0.7.4                
  [7] DESeq_1.30.0                pillar_1.0.1               
  [9] pkgconfig_2.0.1             R.utils_2.6.0              
 [11] compiler_3.4.3              DBI_0.7                    
 [13] lazyeval_0.2.1              hms_0.4.0                  
 [15] survMisc_0.5.4              tibble_1.4.1               
 [17] zoo_1.8-0                   R6_2.2.2                   
 [19] sva_3.26.0                  ShortRead_1.36.0           
 [21] BiocGenerics_0.24.0         BiocInstaller_1.28.0       
 [23] data.table_1.10.4-3         annotate_1.56.1            
 [25] xtable_1.8-2                circlize_0.4.3             
 [27] tools_3.4.3                 stringr_1.2.0              
 [29] rtracklayer_1.38.2          shape_1.4.3                
 [31] R.oo_1.21.0                 AnnotationDbi_1.40.0       
 [33] Biobase_2.38.0              git2r_0.20.0               
 [35] nlme_3.1-131                prettyunits_1.0.2          
 [37] foreach_1.4.4               digest_0.6.13              
 [39] GenomeInfoDb_1.14.0         codetools_0.2-15           
 [41] cmprsk_2.2-7                rvest_0.3.2                
 [43] withr_2.1.1                 stats4_3.4.3               
 [45] downloader_0.4              devtools_1.13.4            
 [47] GenomicAlignments_1.14.1    km.ci_0.5-2                
 [49] genefilter_1.60.0           scales_0.5.0               
 [51] memoise_1.1.0               stringi_1.1.6              
 [53] xml2_1.1.1                  locfit_1.5-9.1             
 [55] mgcv_1.8-22                 R.methodsS3_1.7.1          
 [57] limma_3.34.5                assertthat_0.2.0           
 [59] GlobalOptions_0.0.12        purrr_0.2.4                
 [61] GenomeInfoDbData_1.0.0      ggthemes_3.4.0             
 [63] lattice_0.20-35             bit64_0.9-7                
 [65] Rcpp_0.12.14                rjson_0.2.15               
 [67] bindrcpp_0.2                ggrepel_0.7.0              
 [69] ggplot2_2.2.1               KMsurv_0.1-5               
 [71] grid_3.4.3                  blob_1.1.0                 
 [73] GenomicRanges_1.30.0        plyr_1.8.4                 
 [75] survival_2.41-3             edgeR_3.20.5               
 [77] psych_1.7.8                 DelayedArray_0.4.1         
 [79] mnormt_1.5-5                tidyr_0.7.2                
 [81] ComplexHeatmap_1.17.1       matrixStats_0.52.2         
 [83] glue_1.2.0                  magrittr_1.5               
 [85] S4Vectors_0.16.0            selectr_0.3-1              
 [87] SummarizedExperiment_1.8.1  Biostrings_2.46.0          
 [89] gridExtra_2.3               curl_3.1                   
 [91] parallel_3.4.3              ggpubr_0.1.6               
 [93] biomaRt_2.34.1              RSQLite_2.0                
 [95] knitr_1.18                  gtable_0.2.0               
 [97] zlibbioc_1.24.0             colorspace_1.3-2           
 [99] geneplotter_1.56.0          cluster_2.0.6              
[101] aroma.light_3.8.0           XVector_0.18.0             
[103] matlab_1.0.2                RCurl_1.95-4.8             
[105] bitops_1.0-6                RColorBrewer_1.1-2         
[107] progress_1.1.2              Matrix_1.2-12              
[109] foreign_0.8-69              bit_1.1-12                 
[111] GenomicFeatures_1.30.0      hwriter_1.3.2              
[113] readr_1.1.1                 doParallel_1.0.11          
[115] IRanges_2.12.0              bindr_0.1                  
[117] broom_0.4.3                 reshape2_1.4.3             
[119] ConsensusClusterPlus_1.42.0 XML_3.98-1.9               
[121] survminer_0.4.1             EDASeq_2.12.0              
[123] iterators_1.0.9             splines_3.4.3              
[125] rlang_0.1.6                 BiocParallel_1.12.0        
[127] RMySQL_0.10.13              Rsamtools_1.30.0           

 

Any possible solution please ? Thanks in advance.

 

 

tcgabiolinks gdcdownload tcga-brca • 1.1k views
ADD COMMENT

Login before adding your answer.

Traffic: 868 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6