e presence of the package in the
corresponding functions.
--
Alexey
On Fri, Apr 19, 2024 at 2:18 PM Hervé Pagès
wrote:
> Hi Alex,
> On 4/19/24 09:53, Alexey Sergushichev wrote:
>
> Hi,
>
> Our package "phantasus" requires the "unix" package to properly work on
>
Hi,
Our package "phantasus" requires the "unix" package to properly work on
*nix systems, but works well without it on Windows and Mac OS (actually we
depend on the opencpu package, which requires it). I've tried to put this
package into suggest field, but now the package failed Bioc checks on
gt; Department of Biostatistics & Bioinformatics
>
> Elm & Carlton Streets
>
> Buffalo, New York 14263
> --
> *From:* Bioc-devel on behalf of Lluís
> Revilla
> *Sent:* Wednesday, September 27, 2023 7:39 PM
> *To:* Alexey Sergushic
Hi,
I have a problem that I only receive e-mail notifications from
support.bioconductor.org for my watched tags (e.g. "fgsea") with the
answers and comments but not for the post itself. So I never learn about
the unanswered questions unless I go directly to
apture 1/combination(100, 50).
I don't have time to provide a fix, at least not now, but I think this
behavior (good absolute error, but poor relative error for small values)
should at least be mentioned in the manual of the methods psmirnov and/or
ks.test
Best,
Alexey Sergushichev
[[alte
Hi,
This issue was fixed by Sean Davis in 2.63.1 (
https://github.com/seandavi/GEOquery/commit/08ff9c3524) and I believe he
has back-ported it into 2.62.1 as well. So you can install the latest
version and try again.
Best,
Alexey
On Wed, Dec 1, 2021 at 11:06 PM array chip via Bioc-devel <
Hi,
I'm interested in keeping BioNet package being available in Bioconductor.
Is it possible to make me a substitute maintainer? I think I've fixed the
build errors here: https://github.com/assaron/BioNet
Best,
Alexey
On Thu, Sep 3, 2020 at 4:39 PM Shepherd, Lori
wrote:
> Please see the
I think one of the major changes recently is setting stringsAsFactors
option to FALSE by default.
Best,
Alexey
On Fri, Mar 20, 2020 at 12:48 AM Charles Warden wrote:
> Hi Lori,
>
> Thank you very much.
>
> If I use R-4.0 (instead of R-3.6), then I can reproduce the error message.
>
> I will
Martin,
> Having said that, I'll note that specifying R as a dependency, and a
version of R as a criterion for your package, is really a mis-nomer for a
Bioconductor package -- of course it uses R, and the version of R in use
determines the Bioconductor version(s) that can be used! So a rational
ether I do some manual tests, as unit tests are
running regularly by BioConductor automatically.
--
Alexey
On Mon, Feb 19, 2018 at 9:03 PM, Vincent Carey <st...@channing.harvard.edu>
wrote:
>
>
> On Mon, Feb 19, 2018 at 11:27 AM, Alexey Sergushichev <alserg...@gmail.com
>
> There has been some discussion of the devel Mac binaries on the R-SIG-Mac
> mailing list. That list would be the best place to ask this question.
>
> https://stat.ethz.ch/pipermail/r-sig-mac/2018-January/thread.html
>
> Valerie
>
>
>
> On 02/19/2018 08:32
Valerie,
Are there any estimates on how often CRAN OS X builds happen? There are
still no builds for rsvg and other packages...
Thanks,
Alexey
On Wed, Feb 7, 2018 at 8:09 PM, Obenchain, Valerie <
valerie.obench...@roswellpark.org> wrote:
> Hi Kevin,
>
> CRAN binaries for El Capitan in devel
ensure this.
> > In other words, this only refers to the version of R that the developer
> > should have installed on their own machine. It does not request users to
> > make R-devel a _requirement_ of their package.
> >
> > I hope this addresses your question better, and I am cu
discussion here as
> a branch to the original repository https://github.com/csoneson/iS
> EE/pull/124 and here as a fork https://github.com/mdshw5
> /iSEE/commit/6fb98192a635a6222491b66fb0474dc38f922495
>
> I hope this helps.
>
> Best wishes,
> Kevin
>
>
> On Mon, Feb 19,
y be this check could be removed?
Best,
Alexey Sergushichev
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Hello all,
I'm using travis for checking my project build and found something that
looks like a bug in how biocLite installs package dependencies. It appears
that at some point biocLite started to install them in an alphabet order,
not topological, and specifically on OS X.
I've made a small
Hi,
Recently something happened that broke Travis builds for Bioconductor devel
version on OS X. I found several packages affected by it:
https://travis-ci.org/GuangchuangYu/GOSemSim/jobs/174744022
https://travis-ci.org/ctlab/fgsea/jobs/177261385
xey
On Tue, Aug 30, 2016 at 3:08 PM, Martin Morgan <
martin.mor...@roswellpark.org> wrote:
> On 08/30/2016 06:56 AM, Alexey Sergushichev wrote:
>
>> Martin,
>>
>> Won't it be easier to include actually installation for each package in
>> the build script, but
Martin,
Won't it be easier to include actually installation for each package in the
build script, but into a separate temp folder? Thus every package will be
isntalled and citation() should work fine.
Best,
Alexey
On Tue, Aug 30, 2016 at 1:17 AM, Martin Morgan <
martin.mor...@roswellpark.org>
On Sat, Jan 18, 2014 at 7:18 AM, Alexey Sergushichev
alserg...@gmail.com wrote:
Hi,
Which is the best way to use unit tests as examples for documentation?
I use testthat, but if there is a good way to do this, for example,
only with RUnit, it'd still be good to know.
Unit-tests are usually
Hi,
Which is the best way to use unit tests as examples for documentation?
I use testthat, but if there is a good way to do this, for example,
only with RUnit, it'd still be good to know.
Unit-tests are usually simple and concise, so they are good candidates
for example code, but I don't want to
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