Re: [Bioc-devel] Spurious errors unit testing on R CMD check

There were two small utility classes with finalizers defined. They seem to be the culprits. I've removed those finalizers and haven't seen errors so far. Thanks! Hector On Mon, May 2, 2016 at 1:18 AM, Hervé Pagès wrote: > Hi Michael, Hector, > > On 04/29/2016 01:11 PM,

Re: [Bioc-devel] Spurious errors unit testing on R CMD check

Hi Michael, Hector, On 04/29/2016 01:11 PM, Michael Lawrence wrote: No, those aren't reference classes. There are some reference classes in GenomicFeatures (like TxDb) and BSgenome. I don't think they set explicit finalize methods though. No reference classes in IRanges, GenomicRanges, or

Re: [Bioc-devel] Spurious errors unit testing on R CMD check

No, those aren't reference classes. There are some reference classes in GenomicFeatures (like TxDb) and BSgenome. I don't think they set explicit finalize methods though. On Fri, Apr 29, 2016 at 12:58 PM, Hector Corrada Bravo wrote: > I've removed all finalizers on these

Re: [Bioc-devel] Spurious errors unit testing on R CMD check

I've removed all finalizers on these classes for this version and are still seeing it. I'll try with gctorture on and see if I can track it down. Any finalizers on GenomicRanges? GNCList or GRanges? On Fri, Apr 29, 2016 at 3:42 PM, Michael Lawrence wrote: > I don't

Re: [Bioc-devel] Spurious errors unit testing on R CMD check

I can look into it. I guess it fails sporadically because of the garbage collector. Activating GC torture might make this easier to reproduce. On Fri, Apr 29, 2016 at 12:06 PM, Hector Corrada Bravo wrote: > I've seen this type of error for a while and have really struggled to

[Bioc-devel] Spurious errors unit testing on R CMD check

I've seen this type of error for a while and have really struggled to track it down. I have a package with unit tests that sporadically fail on R CMD check with errors of this type: --- > test_check("epivizrData") 1. Error: new creates a proper object (@test-creation.R#17)