Re: [Bioc-devel] Non-ASCII in datase from Biomart EMBL via Gviz package

2014-10-13 Thread Martin, Tiphaine
both methods work well. Thanks, Tiphaine From: Hahne, Florian Sent: 13 October 2014 08:46 To: Vincent Carey; Martin, Tiphaine Cc: bioc-devel@r-project.org Subject: Re: [Bioc-devel] Non-ASCII in datase from Biomart EMBL via Gviz package Hi Tiphaine, You

Re: [Bioc-devel] Non-ASCII in datase from Biomart EMBL via Gviz package

2014-10-13 Thread Hahne, Florian
Hi Tiphaine, You can follow Vince¹s advice and transform all the data into proper ASCII character. Or you can just get rid of the culprit (being the @biomart slot of the object) before serialising. The easiest way to do that is: foo@biomart <- NULL The slot is only present to cache the BiomaRt conn

Re: [Bioc-devel] Non-ASCII in datase from Biomart EMBL via Gviz package

2014-10-12 Thread Vincent Carey
I don't know exactly how you are triggering this warning. If you have the ability to prefilter your content before serializing, that may be best. The following is from the gwascat package. You have very little chance, I believe, of getting an institutional guarantee that only ascii will go into t

[Bioc-devel] Non-ASCII in datase from Biomart EMBL via Gviz package

2014-10-12 Thread Martin, Tiphaine
Hi, I need to create dataset BiomartGeneRegionTrack via Gviz package to run examples in my packages. But when I run "R CMD check coMET", i have warning message for the checking : checking data for non-ASCII characters ... WARNING Warning: found non-ASCII strings '[alpha cell,acidophil ce