Re: [Bioc-devel] Problem with saveHDF5SummarizedExperiment in HDF5Array package

2018-04-17 Thread Elizabeth Purdom
Yes, thanks. That also fixed it for me; only DelayedArray had a different version number. I have 0.17.42 of S4Vectors because there were also a fix in that package that I need which are also not yet available from bioCLite (the question of duplicated class names creating messages was breaking

Re: [Bioc-devel] Problem with saveHDF5SummarizedExperiment in HDF5Array package

2018-04-17 Thread Peter Hickey
Hi Elizabeth, Aaron and I were hit by this same error message. As a workaround, installing DelayedArray and HDF5Array from the git(hub) repo fixed the issue (https://github.com/Bioconductor/HDF5Array/issues/6). But this needs to be propagated to the versions made available via BiocLite().

[Bioc-devel] Problem with saveHDF5SummarizedExperiment in HDF5Array package

2018-04-17 Thread Elizabeth Purdom
Hello, When I try to run the example code in the saveHDF5SummarizedExperiment function, I get the error "Error: C stack usage 7969416 is too close to the limit”. I am working with development R and have incorporated HDF5 functionality in my package. I did so many weeks ago on earlier versions