Hi,
I also would add that it could make sense to rename your fork. I understand
this is a normal practice in open source software, that you start a new
project by forking an old one, but unless you have an explicit permission
to use the original package name, I'm not sure using it is ethically or
de to check for the 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
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
Win
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 Sergushi
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
https://support.bioconductor.org/mytags/
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 <
bioc-d
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 supp
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 wor
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
c
ge against it; or whether 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
wrote:
>
>
> On Mon, Feb 19, 2018 at 11:27 AM, Alexey Sergushichev > wrote:
>
>> Kevin,
>>
>
; Hi,
>
> 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 are
ion of R, and that developers should
> > be working with R-devel to 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 pack
ituation can be found in the 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,
ing? Or may be this check could be removed?
Best,
Alexey Sergushichev
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ry packages immediately after their installation and
> (2) the source packages are installed in topological order after
> all the binary packages have been installed.
>
> Cheers,
> H.
>
>
> On 03/23/2017 02:14 PM, Alexey Sergushichev wrote:
>
>> Hello all,
>>
>&
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 dumm
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
https://travis-ci.org/Przemol/seqplots/jobs/1729873
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,
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> wr
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