Hello,

I'm attempting to use refseq genes for plotting with Gviz and I am having trouble creating a txdb from UCSC to begin the process, but I'm getting an error:

> library(GenomicFeatures)
> hg19.refseq.db<-makeTxDbFromUCSC(genome="hg19", table="refGene")
Download the refGene table ... Error: Bad Request
> sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

Matrix products: default

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                           LC_TIME=English_United States.1252    

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] GenomicFeatures_1.30.0 AnnotationDbi_1.40.0   Biobase_2.38.0         GenomicRanges_1.30.1   GenomeInfoDb_1.14.0   
[6] IRanges_2.12.0         S4Vectors_0.16.0       BiocGenerics_0.24.0    biomaRt_2.34.1        

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.14               pillar_1.0.1               compiler_3.4.3             XVector_0.18.0            
 [5] prettyunits_1.0.2          bitops_1.0-6               tools_3.4.3                progress_1.1.2            
 [9] zlibbioc_1.24.0            digest_0.6.13              bit_1.1-12                 RSQLite_2.0               
[13] memoise_1.1.0              tibble_1.4.1               lattice_0.20-35            rlang_0.1.6               
[17] Matrix_1.2-12              DelayedArray_0.4.1         DBI_0.7                    yaml_2.1.16               
[21] GenomeInfoDbData_1.0.0     rtracklayer_1.38.2         stringr_1.2.0              httr_1.3.1                
[25] Biostrings_2.46.0          bit64_0.9-7                grid_3.4.3                 R6_2.2.2                  
[29] BiocParallel_1.12.0        RMySQL_0.10.13             XML_3.98-1.9               blob_1.1.0                
[33] magrittr_1.5               matrixStats_0.52.2         GenomicAlignments_1.14.1   Rsamtools_1.30.0          
[37] SummarizedExperiment_1.8.1 assertthat_0.2.0           stringi_1.1.6              RCurl_1.95-4.10    

Thanks,

James Dalgleish

This was recently "fixed" in devel and now I have ported it to release, rtracklayer version 1.38.3.