Re: [Bioc-devel] topGO and cat() and print() statements in program code

ls to cat() > and nested paste() statements with a single call to message(). > > Martin > > > From: Bioc-devel on behalf of Witold E > Wolski > Sent: Friday, February 5, 2016 5:50 AM > To: Dan Tenenbaum; henrik.bengts...@g

Re: [Bioc-devel] topGO and cat() and print() statements in program code

February by h.bengtsson are merged. AFAIK all is working OK (checks pass and my code using topGO is still working) Witold On 4 February 2016 at 11:56, Witold E Wolski wrote: > Hi Dan, > > Excellent suggestion. This is very similar to how I am plan to do the > refactoring. Writ

Re: [Bioc-devel] topGO and cat() and print() statements in program code

wrote: > Another dirty hack is to redefine cat() in your own code to do nothing: > > cat <- function() {} > > Dan > > > - Original Message - >> From: "James W. MacDonald" >> To: "Witold E Wolski" >> Cc: "bioc-devel

Re: [Bioc-devel] topGO and cat() and print() statements in program code

or github mirror > https://github.com/Bioconductor-mirror/topGO; for the latter you cannot > submit a 'pull' request to the mirror, but you could point me to your > repository. > > Martin > > ________ > From: Bioc-devel on beha

[Bioc-devel] topGO and cat() and print() statements in program code

Hi, I am using the very usefull package topGO to generate a report (R markdown). There is not much to complain about topGO (on the contrary) except that the package uses cat instead of message to display progress information. which ruins the report. Also the bioconductor package guidelines state:

[Bioc-devel] topGO - BPontology Building most specific GOs ..... ontology: BP colnames Entry GO CC BP MF PE ( 2631 GO terms found. ) Build GO DAG topology .......... There are no adj nodes for node: G

I am trying to run topGO but new("topGOdata", relatively frequently produces this kind of errors for some selectedSet and backgroundSet. MF ontology Building most specific GOs . ontology: MF colnames Entry GO CC BP MF PE ( 725 GO terms found. ) Build GO DAG topology .. There are no

[Bioc-devel] Problem with git svn rebase

I do follow the instruction in Scenario 2: Set Up Your Own GitHub Repository http://www.bioconductor.org/developers/how-to/git-mirrors/ And have a problem at the moment with: git svn rebase Authentication realm: The bioconductor Subversion Repository Password for

Re: [Bioc-devel] Bug tracking for packages

heers On 4 August 2015 at 17:19, Dan Tenenbaum wrote: > > > - Original Message ----- > > From: "Witold E Wolski" > > To: bioc-devel@r-project.org > > Sent: Tuesday, August 4, 2015 5:28:55 AM > > Subject: [Bioc-devel] Bug tracking for packages >

[Bioc-devel] Bug tracking for packages

Bug/issue tracking needed. Does bioconducotor provides any for the packages hosted? best -- Witold Eryk Wolski [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel