Hi Shraddha,
Note that we only see this error for the release version of netDx:
https://bioconductor.org/packages/3.13/netDx
The devel version does not have it:
https://bioconductor.org/packages/3.14/netDx
With the release version, I get:
> library(netDx)
Attaching package:
lternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-p
Proteínas e Peptídeos
(LQFPP/CBB/UENF - RJ/Brazil)/
/Personal website: /https://almeidasilvaf.github.io
*De:* Hervé Pagès
*Enviado:* segunda-feira, 23 de agosto de 2021 18:53
*Para:* Fabricio de Almeida ;
bioc-devel@r
://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Proteínas e Peptídeos
(LQFPP/CBB/UENF - RJ/Brazil)/
/Personal website: /https://almeidasilvaf.github.io
----
*De:* Hervé Pagès
*Enviado:* segunda-feira, 23 de agosto de 2021 16:57
*Para:* Fabricio de Almeida ;
bioc-devel@r
.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
tinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
On 12/10/2021 14:24, Hervé Pagès wrote:
Probably the build/ folder that doesn't belong to a package source tree.
You removed it today (commit 546e727eb21be2f1da8cd063f431a227345847da)
but that was after the builds started so this will only be reflected on
Wednesday's build report.
I meant
, Herve! It makes sense to me now. I imported R2jags in
my package, which depends on rjags.
Regards,
Zhi Yang
On Tue, Oct 12, 2021 at 1:14 PM Hervé Pagès <mailto:hpages.on.git...@gmail.com>> wrote:
Hmm.. so a new version of rjags (4-11) got published on CRAN on Sept 24:
https
been modified" error
but shouldn't you be doing '!any(idx)' instead of 'length(idx) == 0L' here?
Best,
H.
return(gr)
sort(c(
gr[! idx],
`strand<-`(gr[idx], value = "+"),
`strand<-`(gr[idx], value = "-")))
}
--
Hervé Pagè
mcmc-jags/files
Execution halted
ERROR: lazy loading failed for package 'HiLDA'
* removing 'D:/biocbuild/bbs-3.14-bioc/meat/HiLDA.buildbin-libdir/HiLDA'
Regards,
Zhi Yang
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing
/
If not, would it be possible to send those results to the package RSS
feed?
We'll add this.
Best,
H.
Regards,
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman
mediately by e-mail and
delete this email message from your computer. Thank you.
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Biocondu
Hi Shraddha,
I don't think you want to start the business of building and
distributing Mac binary packages from other people to your users. Even
if you were doing this, BiocManager::install() would not know about
these binaries, and I'm not sure that there would be a simple way to
make your
://bioconductor.org/developers/rss-feeds/ shortly.
Cheers,
H.
On 21/10/2021 09:36, Hervé Pagès wrote:
On 20/10/2021 22:40, Pierrick Roger wrote:
It seems the results of the long tests are not sent to the package RSS
feed. Am I missing something? Is there another feed?
We only have RSS feeds
=
{pname = 0x1, value = 0x0, internal = 0x0}, listsxp = {carval = 0x1,
cdrval = 0x0, tagval = 0x0}, envsxp = {frame = 0x1, enclos = 0x0,
hashtab = 0x0}, closxp = {formals = 0x1, body = 0x0, env = 0x0}, promsxp
= {value = 0x1, expr = 0x0, env = 0x0}}}
(gdb)
_
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
and Statistical Computing
Genentech, A Member of the Roche Group
Office +1 (650) 225-7760
micha...@gene.com
Join Genentech on LinkedIn | Twitter | Facebook | Instagram | YouTube
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mai
NH1nVdRr9SsFOtMYhC%2BaXpdZiC7Nm%2BaUt37NvDWBfCg%3D=0>
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
"r@nFeatures", nrow(measurements))
measurements <- matrix(1:100, ncol = 10)
r@nFeatures # Still the value from empty constructor.
[1] 10 20 30 40 50 60 70 80 90 100
--
Dario Strbenac
University of Sydney
Camperdown NSW 2050
Australia
.protection.outlook.com/?url=http%3A%2F%2Fwww.uhn.ca%2F=02%7C01%7Ctao.qing%40yale.edu%7Ce130a2d3267b46a945ab08d79f7660ad%7Cdd8cbebb21394df8b4114e3e87abeb5c%7C0%7C0%7C637153203084204675=NH1nVdRr9SsFOtMYhC%2BaXpdZiC7Nm%2BaUt37NvDWBfCg%3D=0>
[[alternative HTML ver
on the Bioconductor website at all? It would have been useful to find
out sooner.
Best,
Chris
-Original Message-
From: Bioc-devel On Behalf Of Chris Eeles
Sent: October 15, 2021 1:10 PM
To: Hervé Pagès ; bioc-devel@r-project.org
Subject: Re: [Bioc-devel] Best Practices for Renaming S4
Chris Eeles mailto:christopher.ee...@outlook.com>>
*Cc:* Hervé Pagès mailto:hpages.on.git...@gmail.com>>; bioc-devel@r-project.org
<mailto:bioc-devel@r-project.org>
*Subject:* Re: [Bioc-devel] Best Practices for Renaming S4 Slots
__ __
I will defer to Herve
,
H.
I plan to put in the work so that those using accessors shouldn't notice a
difference.
Best,
Chris
-Original Message-
From: Hervé Pagès
Sent: October 15, 2021 12:39 PM
To: Chris Eeles ; bioc-devel@r-project.org
Subject: Re: [Bioc-devel] Best Practices for Renaming S4 Slots
Hi
g mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
g mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
ML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org ma
/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
at 4:21 PM Hervé Pagès <mailto:hpages.on.git...@gmail.com>> wrote:
Hi,
Are you using the same settings as the build machines as explained in
the rectangular box on the following page?
http://bioconductor.org/checkResults/devel/bioc-LATEST/HPiP/
<http://bioc
deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing li
but it
should turn green on Wednesday. Let us know if it doesn't.
Best,
H.
On 30/08/2021 09:56, Hervé Pagès wrote:
Hi,
It's still on my list to reforge BSgenome.Mmusculus.UCSC.mm10.masked. I
reforged BSgenome.Mmusculus.UCSC.mm10 back in June after the UCSC folks
updated the mm10 genome
s in each
organisation.
--
Dario Strbenac
University of Sydney
Camperdown NSW 2050
Australia
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor
/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Department of Pediatrics and Human Development
Secchia Center, room 732
15 Michigan St. NE
Grand Rapids, MI 49503
+1(616) 617-1746
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/l
!
-Ursprüngliche Nachricht-
Von: Hervé Pagès
Gesendet: Dienstag, 26. Oktober 2021 21:53
An: Felix Ernst ; bioc-devel@r-project.org
Betreff: Re: [Bioc-devel] Windows specific error during CHECK
Hi Felix,
On 26/10/2021 12:10, Felix Ernst wrote:
Hi Bioc-Team,
I have got a problem with an error on Windows
.
Cheers,
H.
Best regards,
Felix
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git
ter. Thank you.
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
__
compiler_4.1.1
On 03/11/2021 15:15, Nicolas Delhomme wrote:
Hej!
The easyRNASeq package fails with the following error on nebbiolo2:
easyRNASeq RUnit Tests - 20 test functions, 1 error, 0 failures
ERROR in test_getAnnotation_BiomaRt: Error in h(simpleError(msg, call)) :
error in eval
021 at 20:42, Hervé Pagès <mailto:hpages.on.git...@gmail.com>> wrote:
Hi Nico,
This looks like the usual flakiness of the Ensembl Mart service. I see
these errors on the build report every day for various packages. The
exact set of packages varies.
I can reproduce on
ount of memory used by the examples. Any volunteer to
request this feature on the R-devel mailing list?
Hope this helps,
H.
Very best,
Wanding
On Nov 29, 2021, at 12:15 PM, Hervé Pagès <mailto:hpages.on.git...@gmail.com>> wrote:
Hi Wanding,
A process cannot allocate more than 3Gb of memor
have any questions about this.
Best,
H.
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Hi Brian,
Note that Rsamtools does not relies on any CLI tools. It contains C/C++
code that is _compiled_ and _linked_ against Rhtslib rather than relying
on the standalone `samtools` and `tabix` commands.
Installing MAGMA at package installation time in the package
installation folder of
On 12/12/2021 03:49, Philipp A. wrote:
I think the easiest fix was to just switch to HTML vignettes, then destiny
is no longer dependent on Bioconductor’s LaTeX environment staying stable.
Let’s see in the next build if it worked.
Just in case someone is watching this thread and wondering
confidential and/or
> privileged information and may be legally protected from disclosure.
> If you are not the intended recipient, you are hereby notified
> that any use, dissemination, copying, or storage of this message or
> its attachments is strictly prohibited.
>
>> On 13. D
stinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Today's results for rrvgo:
https://bioconductor.org/checkResults/3.15/bioc-LATEST/rrvgo/
The vignette error is gone. There are still some errors but they are
different (org.Pf.plasmo.db was deprecated in BioC 3.14 and got removed
from BioC 3.15).
H.
On 11/01/2022 09:28, Hervé Pagès
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r
. of Biostatistics & Bioinformatics
Elm St. & Carlton St.
Buffalo, New York 14263
This email message may contain legally privileged and/or...{{dropped:4}}
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Her
n
(normally 1.20.1).
Cheers,
H.
> Best,
>
> Matteo
>
> *From: *Hervé Pagès
> *Date: *Tuesday, 22 March 2022 at 21.23
> *To: *Matteo Tiberti , bioc-devel@r-project.org
>
> *Subject: *Re: [Bioc-devel] macOS auto build fails with "graphics API
> version mismatch
ish Cancer Society
>
> [cid:image001.png@01D9FB90.6FE2D7A0]<https://www.cancer.dk/?utm_source=email_medium=medarbejderemail_campaign=medarbejderemail_content=cancerdk>
>
>
>
> www.cancer.dk<https://www.cancer.dk/international/> | Our privacy
> policy<https://w
Addressed in S4Vectors 0.40.1. Today's builds have started already so
the fix won't be reflected on tomorrow's report (Thursday), only on Friday.
Sorry again for the inconvenience.
Best,
H.
On 10/25/23 15:34, Hervé Pagès wrote:
>
> Hi Tulip,
>
> I think this is caused by a
_____
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
.
On 10/31/23 09:44, Hervé Pagès wrote:
>
> On 10/31/23 07:22, Wolfgang Huber wrote:
>
>> Dear Christian
>>
>> If your vignette attaches another package that exports a “results” function,
>> after it attached SNPhood which defines its own results function, then t
me day be in a similar place. For now, I am content with submitting
> packages for 3.19. :)
>
>> On Oct 31, 2023, at 4:49 PM, Hervé Pagès
>> wrote:
>>
>> Hmm.. so I was curious and did a little bit more investigation about
>> this.
>>
>> The other pa
) after they've loaded
SNPhood, which would also break results(). I'll leave this to the
authors/maintainers of SNPhood and/or DESeq2 to open an issue on the
BiocGenerics repo to request this if they are interested.
On 10/31/23 13:49, Hervé Pagès wrote:
>
> Hmm.. so I was curious and did a
Package is all green today on the 3.18 report:
https://bioconductor.org/checkResults/3.18/bioc-LATEST/groHMM/
Cheers,
H.
On 10/25/23 16:11, Hervé Pagès wrote:
>
> Addressed in S4Vectors 0.40.1. Today's builds have started already so
> the fix won't be reflected on tomorrow's report
is taken that causes the error?
>>
>> Any pointers?
>>
>>
>> Best
>>
>> Christian
>>
>>
>> [[alternative HTML version deleted]]
>>
>> ___
>> Bioc-devel@
RY: processing the following file failed:
> ‘scaleSim_vignette.Rmd’
>
> Error: Vignette re-building failed.
> Execution halted
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.
L2 | 10 | 10 | 1 / 1
> - secondary alignment... L3 | 7801 | 4085 | 1.91 / 9
> o record is unmapped L4 | 0 | 0 | NA / NA
>
>
> Looks good ?
Looks good. Thanks Martin!
H.
>
> Regards,
> Martin
>
>
>
> Postboks 3490 Ytre Sandviken, 5045 Bergen, Norway
> roger.biv...@nhh.no
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Co
own%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C=nb01Mwqu7SY%2FDc7Bbc1PAKyTKtGoe%2FjV7oovbvfNaNg%3D=0<https://urldefense.com/v3/__https://stat.ethz.ch/mailman/listinfo/bioc-devel__;!!PxiZbSOawA!KyRp-e3er_j2IaXihvGE890iBaVn3BQgG6xwKWyaQaInWDt2geeRyBxA
__
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
rce=email_medium=medarbejderemail_campaign=medarbejderemail_content=cancerdk>
www.cancer.dk <https://www.cancer.dk/international/> | Our privacy
policy <https://www.cancer.dk/om-os/privatlivspolitik/>
*From: *Hervé Pagès
*Date: *Wednesday, 11 October 2023 at 19.30
*To: *Matteo Tibe
it offline.
H.
>
>
> On Thu, 12 Oct 2023 at 20:37, Robert Castelo
> wrote:
>
> Hi,
>
> one of the kind of tools that Hervé is referring to is the package
> BiocPkgTools:
>
> https://bioconductor.org/packages/BiocPkgTools
>
> section "7 Depe
Reina C.
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
[[alternative HTML
0 Madison Ave, 6th Floor
> New York, NY 10029
> tel: 1- 212-824-9253
> Email:tiphaine.mar...@mssm.edu<mailto:tiphaine.mar...@mssm.edu>
>
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing
o your package doesn't work.
>
> Cheers,
> Ogan
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pa
le downloaded via
> ExperimentHub. This does not happen in any of the other platforms.
> Should we do anything about this?
>
> Thanks!
>
> robert.
>
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
[[alternative HTML version deleted]]
___
t; Thank you so much, atena builds and checks cleanly now on kunpeng2 too!!
>
> https://bioconductor.org/checkResults/3.18/bioc-LATEST/atena
>
> cheers,
>
> robert.
>
> On 10/23/23 20:46, Hervé Pagès wrote:
>>
>> On 10/23/23 11:45, Martin Grigorov wrote:
>&
http://bioconductor.org/packages/stats/bioc/ReadqPCR/
>
> Not sure if this is related to the previous issue, i.e. problems
> accessing the
> latest CloudFront log files on S3 but I've used this thread anyway.
>
> Cheers,
>
> Jim
>
> On Thu, 1
the Windows builds. So
any Windows-related issue only gets detected once a contributed package
is added to the daily builds.
H.
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch
ion deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
On 28/09/2022 16:03, Hervé Pagès wrote:
Hi Burak,
Based on your description of what the package does, this is really a
software package in nature, so is in the wrong repository. We need to
fix this.
In 4 steps:
1. Please remove the ExperimentData term from the biocViews field as
well
arvesh
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
f Biostatistics and Bioinformatics
> Duke University School of Medicine
> 2424 Erwin Road, Suite 1102 Hock Plaza Box 2721
> Durham, NC 27710, USA
>
>
>
> On Wed, Oct 19, 2022 at 10:29 PM Hervé Pagès
> wrote:
>
> Hi Jason,
>
> On 19/10/2022 19:10, Jaso
Box 2721
Durham, NC 27710, USA
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
available before*.*
Thanks and best,
Sarvesh
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
g mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
kage less
vulnerable to these sorts of clash. Many of those "loaded via a
namespace" packages are actually a consequence of SPONGE itself
importing many many things (it imports the full tidyverse!), so there's
probably some room for improvement on that side too.
Best,
H.
On 20
Profiler and SPONGE reports?
Best,
H.
>
> Regards,
> Junpeng
>
> Hervé Pagès 于2022年9月21日周三 10:42写道：
>
> Looks like there's a nasty clash between dbplyr (CRAN) and the devel
> version of clusterProfiler:
>
> > library(clusterProfiler)
> > l
On 21/09/2022 07:57, Hervé Pagès wrote:
Just a workaround and not a real solution but maybe try to switch the
order of the clusterProfiler and SPONGE reports?
Oops, I meant "imports", not "reports".
But, again, reducing the huge number of dependencies of both miRsponge
__
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Hi Ramon,
FWIW here's what I get when I run code chunk fdfmutex2 from the
OncoSimulR.Rmd vignette on kjohnson (Mac arm64):
> set.seed(1)
> s2fd <- oncoSimulIndiv(afe4,
+ muEF = mtfd,
+ model = "McFL",
+ onlyCancer = FALSE,
+
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r
this helps,
H.
Cheers, Óscar
On 12/10/2022, 20:07, "Hervé Pagès" wrote:
Hi Óscar,
On 12/10/2022 01:09, Lapuente Santana, Oscar via Bioc-devel wrote:
> Dear Bioconductor developers/maintainers,
>
> My package ‘easier’ checks with WARNING in bo
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bi
ailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
Hi Ran,
First of all, please note that direct calls to external commands via
system() or system2() are not ideal so should only be used when there is no
other alternative. For example, if a CRAN or Bioconductor package already
provides the functionality that you are after, you should use that
ge in error, please notify the sender immediately by e-mail and
delete this email message from your computer. Thank you.
[[alternative HTML version deleted]]
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
On 05/01/2023 18:52, Vincent Carey wrote:
>
>
> On Thu, Jan 5, 2023 at 7:08 PM Vincent Carey
> wrote:
>
>
>
> On Thu, Jan 5, 2023 at 1:44 PM Hervé Pagès
> wrote:
>
> Hi Martin,
>
> Linux runs on many architectures, ARM64 is just on
Hi,
On 06/12/2022 22:10, Hervé Pagès wrote:
...
Anyways, the version of the Bioconductor package would need to be
bumped to 1.1.1. However you won't be able to push this bump to
git.bioconductor.org because we don't allow this kind of version bump.
So we'll take care of it. We'll let you know
FWIW the compilation error for SIMLR looks like a real error to me, not
a warning-induced one:
tsne.cpp:883:11: error: too few arguments to function ‘void dgemm_(...
It seems to be caused by a change in R-devel. We see it on all platforms
on the daily builds for BioC 3.17 and I also get it
. But that's because of an issue with an upstream
package on this platform that will hopefully be resolved soon. (Note
that BioC 3.17 users can still install the package from source on Windows.)
Cheers,
H.
On 07/12/2022 21:54, Hervé Pagès wrote:
Hi,
On 06/12/2022 22:10, Hervé Pagès wrote:
...
Anyways
.
Thanks,
H.
On 09/12/2022 14:47, Hervé Pagès wrote:
Hi,
IFAA now passes BUILD and CHECK on all platforms on the BioC 3.17
build report:
https://bioconductor.org/checkResults/3.17/bioc-LATEST/IFAA/
The package is now available in BioC 3.17 via BiocManager::install():
https
ou know when it's done.
Best,
H.
Thanks,
Zhigang
https://sites.google.com/view/zlab
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
_
______
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
___
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
701 - 800 of 838 matches
Mail list logo
