Re: [Bioc-devel] Flagme creating vignettes ERROR

2015-07-02 Thread Dan Tenenbaum
- Original Message - > From: "Riccardo Romoli" > To: bioc-devel@r-project.org > Sent: Thursday, July 2, 2015 2:55:41 AM > Subject: [Bioc-devel] Flagme creating vignettes ERROR > > Hi, last night I received an automatic message regardless the flagme > package (I'm the co-author and the m

Re: [Bioc-devel] SNPlocs.Hsapiens.dbSNP142.GRCh37

2015-07-02 Thread Hervé Pagès
Salut Frédéric, As I said, this is available in the new versions of BSgenome (1.36.2 in release, 1.37.3 in devel) which will propagate to the public repos in a couple of hours. So make sure to run biocLite() (with no arguments) in a couple of hours to get any update that will become available tod

Re: [Bioc-devel] SNPlocs.Hsapiens.dbSNP142.GRCh37

2015-07-02 Thread COMMO Frederic
Salut Hervé, It sounds great, but according to the man page, snpsById() requires an 'XtraSNPlocs' object, and the only one availble on bioconductor is 'XtraSNPlocs.Hsapiens.dbSNP141.GRCh38' I need to work with GRCh37 annotations. Is there a trick to transform a 'SNPlocs' object, such as 'SNPloc

[Bioc-devel] Flagme creating vignettes ERROR

2015-07-02 Thread Riccardo Romoli
Hi, last night I received an automatic message regardless the flagme package (I'm the co-author and the manteiner): o ERROR for 'R CMD build' on zin2. See the details here: http://bioconductor.org/checkResults/3.1/bioc-LATEST/flagme/zin2-buildsrc.html I followed the link above and I see the