Re: [Bioc-devel] GenomicFeatures::makeTxDbFromGFF leads to a S4Vectors error

2017-01-30 Thread Leonardo Collado Torres
Awesome, thanks Hervé! On Mon, Jan 30, 2017 at 12:22 PM, Hervé Pagès wrote: > Hi Leonardo, > > You need the latest version of rtracklayer: 1.35.3. Unfortunately this > version didn't propagate because of an issue that is not related to > this: > > > https://bioconductor.org/checkResults/3.5/bioc-

Re: [Bioc-devel] GenomicFeatures::makeTxDbFromGFF leads to a S4Vectors error

2017-01-30 Thread Hervé Pagès
Hi Leonardo, You need the latest version of rtracklayer: 1.35.3. Unfortunately this version didn't propagate because of an issue that is not related to this: https://bioconductor.org/checkResults/3.5/bioc-LATEST/rtracklayer/malbec2-checksrc.html In the mean time you can fetch and install rtrac

[Bioc-devel] GenomicFeatures::makeTxDbFromGFF leads to a S4Vectors error

2017-01-30 Thread Leonardo Collado Torres
Hi, I think that a recent change in S4Vectors broke GenomicFeatures::makeTxDbFromGFF(). I ran this code about a week ago without problems, but it's failing now. Best, Leo ## Unevaluated code library('GenomicFeatures') library('devtools') txdb <- makeTxDbFromGFF('ftp://ftp.sanger.ac.uk/pub/genc