[Bioc-devel] error about Display environment/ biomart for the build of my package

Martin, Tiphaine tiphaine.martin at kcl.ac.uk
Thu Oct 16 19:56:48 CEST 2014


I have a type of warning message by bioconductor package tracker on Linux and Mac that I don't have when I did that  on my computers. So I don't know to correct or to check it on my computers. I think that it is related to the package trackViewer, which need to have tcl/tk package.

Error on Mac OS (check and BiocCheck steps)

** testing if installed package can be loaded
Warning in fun(libname, pkgname) :
  no display name and no $DISPLAY environment variable

Error on Linus (BiocCheck step)

* Installing package...
Warning in fun(libname, pkgname) :
  no DISPLAY variable so Tk is not available

I have an error message on window to connect to Biomart. In my package, I create Gviz's annotation tracks that connect to UCSC and ENSEMBL via Biomart connection.

This connection worked on Linux and Mac. So I would like to know if other people observed the biomart connection more difficulty under windows than under Mac and Linux or if it is just unlucky event.



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