[Bioc-devel] Bioconductor's GIT transition

Dear Bioconductor Developers, Big news! We are planning to migrate from SVN to git. This is a major change in our version control model. We understand this may be disruptive to some developers and are working to make the transition as smooth as possible. The end goal is to provide a

Re: [Rd] Control statements with condition with greater than one should give error (not just warning) [PATCH]

On Fri, Mar 3, 2017 at 9:55 AM, Hadley Wickham wrote: >> But, how you propose a warning-to-error transition should be made >> without wreaking havoc? Just flip the switch in R-devel and see CRAN >> and Bioconductor packages break overnight? Particularly Bioconductor >>

Re: [Rd] Control statements with condition with greater than one should give error (not just warning) [PATCH]

On Fri, Mar 3, 2017 at 9:22 AM, Martin Maechler wrote: >> Henrik Bengtsson >> on Fri, 3 Mar 2017 00:52:16 -0800 writes: > > > I'd like to propose that the whenever the length of condition passed > > to an if or a while

[Rd] Trouble installing packages when history mechanism is modified by user profile

I tried installing the 'ks' package from my interactive R session, it failed with the following Erreur dans .External2(C_loadhistory, file) : aucun mécanisme d'historique des commandes disponible Calls: Exécution arrêtée second line is french for "no command history mechanism available",

Re: [Rd] Control statements with condition with greater than one should give error (not just warning) [PATCH]

> Henrik Bengtsson > on Fri, 3 Mar 2017 00:52:16 -0800 writes: > I'd like to propose that the whenever the length of condition passed > to an if or a while statement differs from one, an error is produced > rather than just a warning as today:

Re: [Rd] Bug in nlm()

> Boehnstedt, Marie > on Fri, 3 Mar 2017 10:23:12 + writes: > Dear all, > I have found a bug in nlm() and would like to submit a report on this. > Since nlm() is in the stats-package, which is maintained by the R Core team, bug reports

Re: [Bioc-devel] any interest in a BiocMatrix core package?

On Fri, Mar 3, 2017 at 10:22 AM, Vincent Carey wrote: > > > On Fri, Mar 3, 2017 at 10:07 AM, Kasper Daniel Hansen < > kasperdanielhan...@gmail.com> wrote: > >> Some comment on Aaron's stuff >> >> One possibility for doing things like this is if your code can be done

Re: [Bioc-devel] any interest in a BiocMatrix core package?

On Fri, Mar 3, 2017 at 10:07 AM, Kasper Daniel Hansen < kasperdanielhan...@gmail.com> wrote: > Some comment on Aaron's stuff > > One possibility for doing things like this is if your code can be done in > C++ using a subset of rows or columns. That can sometimes give the > necessary speed up.

Re: [Bioc-devel] any interest in a BiocMatrix core package?

Some comment on Aaron's stuff One possibility for doing things like this is if your code can be done in C++ using a subset of rows or columns. That can sometimes give the necessary speed up. What I mean is this Say you can safely process 1000 cells (not matrix cells, but biological cells, aka

[Rd] Bug in nlm()

Dear all, I have found a bug in nlm() and would like to submit a report on this. Since nlm() is in the stats-package, which is maintained by the R Core team, bug reports should be submitted to R's Bugzilla. However, I'm not a member of Bugzilla. Could anyone be so kind to add me to R's Bugzilla

Re: [Bioc-devel] any interest in a BiocMatrix core package?

Kylie, thanks for reminding us of matter -- I saw you speak about this at the first Bioconductor Boston Meetup, but it went like lightning. For developers contemplating an approach to representing high-volume rectangular data, where there is no dominant legacy format, it is natural to wonder

[Rd] Control statements with condition with greater than one should give error (not just warning) [PATCH]

I'd like to propose that the whenever the length of condition passed to an if or a while statement differs from one, an error is produced rather than just a warning as today: > x <- 1:2 > if (x == 1) message("x == 1") x == 1 Warning message: In if (x == 1) message("x == 1") : the condition has

Re: [Bioc-devel] any interest in a BiocMatrix core package?

Dear Aaron Thank you. I think it's an important simplification of a potential API when you are saying that what you mostly need are accessors m[i, ] and m[, i] with i scalar or a short contiguous range, such that the value of that could be a relatively small ordinary matrix. (Compared to