Hi everyone,
I am trying to get a FaFile from AnnotationHub - It fails with the
following error
library(AnnotationHub)
ah =AnnotationHub()
ah = query(ah , c("Homo sapiens", "org", "GRCH37", "FASTA","75"))
hg37_rna = ah[["AH10879"]]
> hg37_rna = ah[["AH10879"]]
require(“Rsamtools”)
Error: failed to load 'AnnotationHub' resource
name: AH10879
title: Homo_sapiens.GRCh37.75.ncrna.fa
reason: require(“Rsamtools”) failed: multiple methods tables found
for ‘relistToClass’
> sessionInfo()
R Under development (unstable) (2015-10-15 r69519)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 14.04.2 LTS
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats4 parallel stats graphics grDevices utils datasets
[8] methods base
other attached packages:
[1] GenomeInfoDb_1.7.3 IRanges_2.5.18 S4Vectors_0.9.15
[4] AnnotationHub_2.3.6 BiocGenerics_0.17.2
loaded via a namespace (and not attached):
[1] Rcpp_0.12.2 AnnotationDbi_1.33.3
[3] magrittr_1.5 zlibbioc_1.17.0
[5] xtable_1.8-0 R6_2.1.1
[7] stringr_1.0.0 httr_1.0.0
[9] tools_3.3.0 Biobase_2.31.3
[11] DBI_0.3.1 htmltools_0.2.6
[13] digest_0.6.8 interactiveDisplayBase_1.9.0
[15] shiny_0.12.2 curl_0.9.4
[17] RSQLite_1.0.0 mime_0.4
[19] stringi_1.0-1 BiocInstaller_1.21.2
[21] httpuv_1.3.3
--
Thanks and Regards,
Sonali
Office: C2-169
http://tinyurl.com/sonali-hb-calendar
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