Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Hervé Pagès
Martin, Just to make sure we are on the same page, we are talking about the message we get when we source http://bioconductor.org/biocLite.R (as Simon suggested), not the message we get when loading the BiocInstaller package and/or everytime we use biocLite(). So it's a one time thing. IMO it

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Simon Anders
Hi Martin good to see that Herve agrees with me, and I reiterate my point, because I consider this issue very important. The average user does _not_ expect that a function like 'biocLite', which has the express purpose of downloading and installing packages, does not pull the newest

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Diego Diez
Hi I second improving the awareness of users about new Bioc releases and also personally do not mind loud messages while I am installing/upgrading packages, even if it is each time I source/run biocLite(). Indeed for old releases that I maintain for old projects very rarely have to install a new

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Robert Castelo
Martin, Herve, Simon, et al, i see a straightforward approach without the need to change biocLite() or BiocInstaller behavior. what about every package deciding in loading time to tell or not the user whether he/she should be using the latest version of the package, if he/she is not using it?

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Wolfgang Huber
Hi, there is benefit in having newest versions, but I think we shouldn't get carried away, and find Martin's suggestion reasonable. I don't want to be told to go get an iPhone 5 every time I update an app on my iPhone 4 - even if that same app would work much better there. People may have

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-20 Thread Diego Diez
Hi however unlike an iphone Bioconductor is only (as far as I know) supported for the current release. We all do our best to help users when they find problems and in most cases when I have suggested they upgrade they have done so- solving their problems. If they were more aware of being using an

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-19 Thread Martin Morgan
On 06/19/2013 03:01 PM, Simon Anders wrote: Hi On 19/06/13 23:44, Martin Morgan wrote: As a message (not warning or error), how about New features are available in Bioconductor version 2.12, R version 3.0.1. See http://bioconductor.org/install and if the instructions / dire

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-19 Thread Hervé Pagès
Hi Martin, On 06/19/2013 05:21 PM, Martin Morgan wrote: On 06/19/2013 03:01 PM, Simon Anders wrote: Hi On 19/06/13 23:44, Martin Morgan wrote: As a message (not warning or error), how about New features are available in Bioconductor version 2.12, R version 3.0.1. See

Re: [Bioc-devel] biocLite should warn when called from a non-current R version

2013-06-19 Thread Martin Morgan
On 06/19/2013 09:15 PM, Hervé Pagès wrote: Hi Martin, On 06/19/2013 05:21 PM, Martin Morgan wrote: On 06/19/2013 03:01 PM, Simon Anders wrote: Hi On 19/06/13 23:44, Martin Morgan wrote: As a message (not warning or error), how about New features are available in Bioconductor version