Question: Error in move(i, file.path(path, i)) : I could not find the file: 95a5d709-7454-4f76-84b0-a505c32baeb5 ; GDCdownload error
0
gravatar for fawazfebin
21 months ago by
fawazfebin30
fawazfebin30 wrote:

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.

 

 

ADD COMMENTlink written 21 months ago by fawazfebin30
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