Re: [Bioc-devel] class name collision in cache: igvR and Gviz

I pushed a fix into R devel. On Wed, May 9, 2018 at 8:56 AM, Paul Shannon < paul.thurmond.shan...@gmail.com> wrote: > Hi Michael, > > Thank you for this work and the explanation. It’s good to know that my > problem will feed back into improvements in the methods package. > > I opted for a

Re: [Bioc-devel] class name collision in cache: igvR and Gviz

Hi Michael, Thank you for this work and the explanation. It’s good to know that my problem will feed back into improvements in the methods package. I opted for a simpler workaround, for now, renaming my abstract class to avoid the collision. - Paul > On May 8, 2018, at 8:25 AM, Michael

Re: [Bioc-devel] class name collision in cache: igvR and Gviz

Thanks Paul. I've made improvements to the methods package so that there will no longer be any messages about AnnotationTrack being duplicated, but I'll need to work through some failures this is causing in tests. The first issue is interesting though. Since Gviz defines an initialize() for

Re: [Bioc-devel] class name collision in cache: igvR and Gviz

Hi Michael, > On May 4, 2018, at 1:36 PM, Michael Lawrence > wrote: > > Do you have a reproducible example of this? It's probably a bug in the > methods package. > Sorry I did not get to this sooner. Here are two symptoms of the cache class name collision:

Re: [Bioc-devel] class name collision in cache: igvR and Gviz

Do you have a reproducible example of this? It's probably a bug in the methods package. Thanks, Michael On Fri, May 4, 2018 at 10:52 AM, Paul Shannon < paul.thurmond.shan...@gmail.com> wrote: > I just discovered a class name collision - AnnotationTrack, in Gviz and my > new package igvR. wish

Re: [Bioc-devel] class name collision in cache: igvR and Gviz

Hi Paul, Luckily you caught this only 3 days after the release so renaming the class now is probably ok and shouldn't be disruptive. Cheers, H. On 05/04/2018 10:52 AM, Paul Shannon wrote: I just discovered a class name collision - AnnotationTrack, in Gviz and my new package igvR. wish to