OK, thanks. Will wait until it becomes Thursday over there :-)
On Thu, 31-03-2016, at 08:22, Dan Tenenbaum wrote:
> There will be an answer tomorrow (Thursday Seattle time).
> Dan
>
>
> - Original Message -
>> From: "Ramon Diaz-Uriarte"
>> To: "bioc-devel"
>> Cc: "ramon diaz"
>> Sent
There will be an answer tomorrow (Thursday Seattle time).
Dan
- Original Message -
> From: "Ramon Diaz-Uriarte"
> To: "bioc-devel"
> Cc: "ramon diaz"
> Sent: Wednesday, March 30, 2016 11:17:17 PM
> Subject: [Bioc-devel] R-beta, windows, and Rtools version
> Dear All,
>
> To have a lo
Dear All,
To have a local build machine as similar as possible to the one of BioC to
check packages locally:
1. Will the new, upcoming builds, use the new R-beta (as in, e.g.,
https://cran.r-project.org/bin/windows/base/rtest.html) [the link is for
Windows, but this question also applies to Linu
Hi,
on a related note, is the SPB windows machine already
running the new gcc-4.9.3-based toolchain for the release of R-3.3.0 ?
That should help fixing any toolchain-related issues
coming up before the upcoming BioC release.
Yours,
Steffen
On Mi, 2016-03-30 at 15:25 -0700, Dan Tenenbaum wrot
Yes. There will be an announcement about this new toolchain tomorrow (Thursday).
Dan
- Original Message -
> From: "Steffen Neumann"
> To: "Dan Tenenbaum"
> Cc: "bioc-devel"
> Sent: Wednesday, March 30, 2016 11:00:48 PM
> Subject: Re: [Bioc-devel] No report from automated single packag
That would work, but R is not going to be happy about redundant
imports. Interactively, users would balk at symbol qualification.
There are two classes of conflict:
1) Same semantics, where a common generic would arbitrate, or one
package could depend on the other, and
2) Different semantics, in w
In the cases of having conflicting names, is it not appropriate then to use
the "package::function" form for calling a particular function?
On Wed, Mar 30, 2016 at 11:14 PM Michael Lawrence
wrote:
> I can't find the hash function in IRanges. Are you sure it has one?
>
> On Wed, Mar 30, 2016 at 8
I can't find the hash function in IRanges. Are you sure it has one?
On Wed, Mar 30, 2016 at 8:07 PM, Zhu, Lihua (Julie)
wrote:
> Michael,
>
> I have the same user case as Kasper. Another example is that both IRanges
> and hash packages have hash. I need to use the hash from the hash package
> ins
Michael,
I have the same user case as Kasper. Another example is that both IRanges and
hash packages have hash. I need to use the hash from the hash package instead
of the one from IRanges.
Best,
Julie
On Mar 30, 2016, at 7:57 PM, Kasper Daniel Hansen
mailto:kasperdanielhan...@gmail.com>> wr
For this particular use case I think we might just make Biobase depend on
matrixStats and then go forward.
On Wed, Mar 30, 2016 at 8:22 PM, Michael Lawrence wrote:
> Thanks. If we can identify specific conflicts between popular
> packages, we might be able to work around them. I think S4Vectors
Thanks. If we can identify specific conflicts between popular
packages, we might be able to work around them. I think S4Vectors is
coming to depend on matrixStats, so those conflicts will start
happening a lot more often now.
Michael
On Wed, Mar 30, 2016 at 4:56 PM, Kasper Daniel Hansen
wrote:
>
My usecase is when I import() two packages who has a conflict in a name.
For example, both Biobase and matrixStats has both anyMissing and
rowMedians. I am happy to get all of these two packages, but I need to
resolve the conflict. Since I want to keep the ones from matrixStats I
know need to figu
I've resubmitted it.
Dan
- Original Message -
> From: "Monther Alhamdoosh"
> To: "bioc-devel"
> Sent: Wednesday, March 30, 2016 3:22:27 PM
> Subject: [Bioc-devel] No report from automated single package builder
> Hi,
>
> I submitted a modified version of my package to the issue tracke
Hi,
I submitted a modified version of my package to the issue tracker yesterday
and haven't received the automated builder report so far. Any clue on this?
Do I have to resubmit it?
Cheers,
Monther
[[alternative HTML version deleted]]
___
Bioc
I'm curious about which symbols you wouldn't want to import, and why.
On Wed, Mar 30, 2016 at 12:19 PM, Zhu, Lihua (Julie)
wrote:
> Hi,
>
> Is there a function to import all the exported objects from a package except
> a few named ones in NAMESPACE file?
>
> For example, I would like to import a
Kasper,
Thanks so much for such a quick response!
It would be very nice to have importFromExcept especially for some of the
packages with tons of exported objects.
Best,
Julie
From: Kasper Daniel Hansen
mailto:kasperdanielhan...@gmail.com>>
Date: Wednesday, March 30, 2016 2:22 PM
To: Lihua
No, as far as I know. I asked about this on R-devel a long time ago; would
be nice to have importFromExcept()
Best,
Kasper
On Wed, Mar 30, 2016 at 3:19 PM, Zhu, Lihua (Julie)
wrote:
> Hi,
>
> Is there a function to import all the exported objects from a package
> except a few named ones in NAME
Hi,
Is there a function to import all the exported objects from a package except a
few named ones in NAMESPACE file?
For example, I would like to import all the functions in S4Vectors except fold.
Is there a way to specify this without listing all other functions using
importFrom?
Many thank
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