reference genome problem

Hi,

Not sure if this is a problem with seqplots or whether I am doing something wrong - I'm afraid I'm very new to R... When I try to upload a file there are no options for genome selection in the dropdown box. If I go to manage reference genomes, there are no genomes available as default and if I try to install one from the available genomes menu. the installation fails. I get the follwing in the R terminal:

Starting...

Data loaction: \icnas4.cc.ic.ac.uk\gaughey/SeqPlots_data

Listening on http://127.0.0.1:3883 2016-09-16 13:13:38 -> Running at http://127.0.0.1:3883, 127.0.0.1 [I10M0SVxgHuqCVyZypuU/w==] BioC_mirror: https://bioconductor.org Using Bioconductor 3.2 (BiocInstaller 1.20.3), R 3.2.4 Revised (2016-03-16 r70336). Installing package(s) ‘BSgenome.Dmelanogaster.UCSC.dm6’ installing the source package ‘BSgenome.Dmelanogaster.UCSC.dm6’

trying URL 'https://bioconductor.org/packages/3.2/data/annotation/src/contrib/BSgenome.Dmelanogaster.UCSC.dm6_1.4.1.tar.gz' Content type 'application/x-gzip' length 34147677 bytes (32.6 MB) downloaded 32.6 MB

'\icnas4.cc.ic.ac.uk\gaughey\SeqPlots_data' CMD.EXE was started with the above path as the current directory. UNC paths are not supported. Defaulting to Windows directory.

installing source package 'BSgenome.Dmelanogaster.UCSC.dm6' ... * R * inst * preparing package for lazy loading * help * installing help indices * building package indices * testing if installed package can be loaded * arch - i386 Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) : there is no package called 'BSgenome.Dmelanogaster.UCSC.dm6' Error: loading failed Execution halted *\ arch - x64 Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) : there is no package called 'BSgenome.Dmelanogaster.UCSC.dm6' Error: loading failed Execution halted ERROR: loading failed for 'i386', 'x64'
removing '\icnas4.cc.ic.ac.uk/gaughey/SeqPlots_data/genomes/BSgenome.Dmelanogaster.UCSC.dm6' Warning: running command '"C:/PROGRA~1/R/R-32~1.4RE/bin/x64/R" CMD INSTALL -l "\icnas4.cc.ic.ac.uk\gaughey\SeqPlots_data\genomes" C:\Users\gaughey\AppData\Local\Temp\RtmpCWHxJX/downloaded_packages/BSgenome.Dmelanogaster.UCSC.dm6_1.4.1.tar.gz' had status 1 Warning in install.packages(pkgs = doing, lib = lib, ...) : installation of package ‘BSgenome.Dmelanogaster.UCSC.dm6’ had non-zero exit status

The downloaded source packages are in ‘C:\Users\gaughey\AppData\Local\Temp\RtmpCWHxJX\downloaded_packages’

I've tried multiple genomes with the same outcome. Very sorry if this is a trivial issue that is a result of my inexperience. This looks like just the tool I was looking for, so I am very keen to get it working properly! Thanks.

Przemol / seqplots

reference genome problem #18