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 legitimate reasons to 
run an 'old' R, and we are not the version police.

Simon, I very much sympathise with your frustration about thoughtless or 
ignorant user questions, and I suppose you hope that this proposed change will 
provide a quick fix. I would have said something different above if I shared 
that hope, but I am not sure it would make much difference to them in practice: 
many would not follow that message even it were in ALL CAPS ALL ACROSS THEIR 
SCREEN. And at the same time shouting at people who know what they're doing is 
not a desirable approach.

        Best wishes
        Wolfgang
 
On Jun 20, 2013, at 9:03 am, Simon Anders <and...@embl.de> wrote:

> 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 package. I know that to you, as an an experienced Bioc person, this 
> has become second nature, but believe me: It is unusual and very surprising 
> for anybody used to other systems.
> 
> The message hence has to very clearly and unambiguously state the following 
> fact: "The biocLite function will NOT install the most recent released 
> versions of Bioconductor packages."
> 
> I insist that this should be mentioned in this direct manner. Your 
> formulation may imply it to the careful reader but not to a user in a hurry. 
> Merely mentioning that there are newer versions will _not_ bring across the 
> point that calling the biocLite installation script will not install these!
> 
> I really do not see the problem with saying clearly that biocLite will not 
> pull the newest version. Is this something we are ashamed of and don't want 
> to admit straight out?
> 
> And I frankly see no need to warn users already in this message that updates 
> can break existing workflows. Everybody who has ever used any software knows 
> this.
> 
>  Simon
> 
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