I submitted a question to the support site, but thought it might be useful to post here as well. My apologies for the cross-posting.
---------- Forwarded message --------- From: Lance Parsons [bioc] <nore...@bioconductor.org> Date: Wed, Nov 14, 2018 at 2:39 PM Subject: [bioc] DEXSeqHTML getListElement GRanges error To: <la...@lanceparsons.net> Activity on a post you are following on support.bioconductor.org User Lance Parsons <https://support.bioconductor.org/u/7336/> wrote Question: DEXSeqHTML getListElement GRanges error <https://support.bioconductor.org/p/115115/>: When running DEXSeqHTML, I got the following error: Fatal error: An undefined error occured, please check your input carefully and contact your administrator. converting counts to integer mode Warning message: In DESeqDataSet(rse, design, ignoreRank = TRUE) : some variables in design formula are characters, converting to factors using supplied model matrix using supplied model matrix using supplied model matrix Error in getListElement(x, i, ...) : GRanges objects don't support [[, as.list(), lapply(), or unlist() at the moment Calls: DEXSeqHTML ... tryCatch -> tryCatchList -> tryCatchOne -> This was run using the Galaxy wrapper <https://toolshed.g2.bx.psu.edu/view/iuc/dexseq/f89c9b25feb4>. However, the error appears to be coming from the DEXSeqHTML function and I can't quite tell where in that function it's failing. Another user on Biostars ran into the same error <https://www.biostars.org/p/347443/>. Any help tracking down the source of the problme would be much appreciated. ------------------------------ Post tags: dexseq, software error, bug You may reply via email or visit https://support.bioconductor.org/p/115115/ [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
