The Bioconductor contributions guide says:
> Licenses restricting use, e.g., to academic or non-profit
> researchers, are not suitable for Bioconductor.
but we have several packages with restrictive licenses:
- RankProd: free for non-commercial users. Non-academic users MUST
have requested
Dear Vilhelm,
If you need to use/share (reasonably large) MS data, you could consider
contributing data to the MsDataHub package [1], that is superseding msdata and
makes use of ExperimentHub. Feel free to get in touch (ideally opening a
GitHub) if this is of interest to you.
Best wishes,
Packages that use ExperimentHub to distribute date can use createHubAccessors()
- here's the relevant section from `?createHubAccessors`:
‘createHubAccessors(pkgname, titles): ’ This helper is intended to
be used by ExperimentHub package developers in their .onLoad()
function in
cloned the repo from git.bioconductor.org and it's also present there (with
all the figures)
Thank you anyway!
[1] https://github.com/lgatto/RforProteomics/tree/master/vignettes/figures
From: Oleksii Nikolaienko
Sent: 28 April 2023 16:53
To: Laurent Gatto
Cc
I am puzzled by this error:
The vignette fails because it can't find a figure
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building ‘RProtVis.Rmd’ using rmarkdown
Quitting from lines 607-608 (RProtVis.Rmd)
Error: processing vignette
This is only a warning, and you can safely ignore it.
Best wishes,
Laurent
(Note that the message mentions the support forum, not the devel mailing list.)
From: Bioc-devel on behalf of TYLER H
WINTERMUTE via Bioc-devel
Sent: 15 March 2023 17:18
To:
Dear Matteo,
Not a direct answer to your question, but here's another angle to it, from a
software development perspective.
Once Moonlight2R will be available, would you consider MoonlightR to still be a
viable alternative? If not, then you should also plan the deprecation of
MoonlightR. In
Dear Bioconductor developer,
The Bioconductor classes and methods working group [1] is going to reflect on
what classes should be considered 'official' [2] and thus re-used in newly
submitted packages, and to what extend this should possibly be enforced during
review.
If you would like to
Would it be possible to give Lisa Breckels write access to
the pRolocGUI git repo, as she will be taking over maintenance of the package.
Thank you in advance.
Laurent
___
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t; >
> >
> > Lori Shepherd
> >
> > Bioconductor Core Team
> >
> > Roswell Park Comprehensive Cancer Center
> >
> > Department of Biostatistics & Bioinformatics
> >
> > Elm & Carlton Streets
> >
> > Buffalo, New York 14263
> >
The Package Guidelines for Developers and Reviewers say that:
A package name should be descriptive and should not already exist as a current
package (case-insensitive) in Bioconductor nor CRAN.
The sentences says current packages - does that imply that names of packages
that have been archived
Dear Kelsey,
Speaking of my own experience, GitHub remains the main development platform
after my packages are added to Bioconductor (see for example several packages
in [1]). Whenever new features or bugs are ready, the new version gets pushed
to the Bioconductor git server, which is simply
Yes, that would be a sensible way, I think.
Laurent
From: Fabricio de Almeida
Sent: 01 July 2021 19:42
To: Laurent Gatto; bioc-devel@r-project.org
Subject: RE: Question on copyright in Bioc vignette
Hi, Laurent.
Thank you for your suggestion. How would
Dear Fabrício,
As far as I know, there's no explicit license on the documentation of a
package, and I'm not sure the the package/software licence applies to
documentation. I would explicitly mention that the figure (and possibly the
vignette) is released under a CC-BY (or any alternative) to
propagate today
(later this evening your time). Sorry for the inconvenience.
Best regards,
Marcel
On 3/10/21 10:10 AM, Laurent Gatto wrote:
> Thank you Robert and Nitesh for your input.
>
> The workshops at EuroBioc were using devel (as far as I can remember at
> least) which is wh
From: Robert Castelo
Sent: 10 March 2021 15:36
To: Nitesh Turaga; Laurent Gatto; bioc-devel@r-project.org
Subject: Re: [Bioc-devel] bioconductor_docker:devel missing MAE and GenomeInfoDb
hi,
a possible workaround is to install directly from the repo using the
syntax "Bioconductor/pk
I am setting up a repo/docker for the coming Bioc2021 workshops, and apparently
packages ‘GenomeInfoDb’, ‘MultiAssayExperiment’ are not available for this
version of R [1] (they indeed fail on devel). Surprisingly, they seemed to be
available earlier in the day - my action failed for a
I just realised that the scp package
(http://bioconductor.org/packages/release/bioc/html/scp.html) DOI
(https://doi.org/doi:10.18129/B9.bioc.scp) is broken.
Any idea why?
Thanks in advance.
Laurent
___
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I can trigger a new installation to get a new binary built against Rcpp 1.0.5,
which should sort out that warning (which is harmless by the way).
A note about xcmsSet objects though: you are using an outdated xcmsSet class;
it is strongly suggested to change from the old xcms user interface
Thank you both - issue has just been opened.
Merci Hervé for pointing out the direct use of the `List()` constructor.
Laurent
From: Michael Lawrence
Sent: 21 October 2020 19:13
To: Pages, Herve
Cc: Laurent Gatto; bioc-devel@r-project.org
Subject: Re
When merging DFrame instances, the *List types are lost:
The following two instances have NumericList columns (y and z)
d1 <- DataFrame(x = letters[1:3], y = List(list(1, 1:2, 1:3)))
d2 <- DataFrame(x = letters[1:3], z = List(list(1:3, 1:2, 1)))
d1
## DataFrame with 3 rows and 2 columns
##
Thank you for these instructive, although somewhat disheartening clarifications.
Laurent
From: Henrik Bengtsson
Sent: 12 August 2020 19:01
To: Laurent Gatto
Cc: bioc-devel@r-project.org
Subject: Re: [Bioc-devel] sapply and vapply
FWIW,
> sappl
Dear all,
I have a quick question regarding the usage of vapply and sapply. The former is
recommended to insure that the output is always a vector of a specific type.
For example:
> df1 <- data.frame(x = 1:3, y = LETTERS[1:3]) ## OK test
> df2 <- data.frame(x = 1:3, y = Sys.time() + 1:3)
FYI - I can reproduce this on linux with R Under development (unstable)
(2020-03-19 r78011)
From: Bioc-devel on behalf of Vincent Carey
Sent: 16 March 2020 23:52
To: bioc-devel
Subject: [Bioc-devel] proper way to define an S4 method for 'plot'
I just
Dear all,
Assume we have a SummarizedExperiment object `se` that contains raw count data,
and a method `doProcess` that processes the data to produce a matrix of
identical dimensions (for example log-transformation, normalisation,
imputation, ...). What are the opinions in favour or against
TXczYDUsZRCDZgrAxxgjqacXbRhp%2FOmIULkag%3Dreserved=0=
>
> it should not be hard to have it do the same for all other
> packages in principle.
>
> "The other R Core" Martin
>
> Martin Maechler
> ETH Zurich
>
>
> > What is your experience with pkgdown?
man pages (which can easily be overwhelming
for large packages) are readily available to read and search.
Laurent
From: Martin Morgan
Sent: 25 September 2019 23:10
To: Laurent Gatto; Ludwig Geistlinger; bioc-devel@r-project.org
Subject: Re: [Bioc-devel
I think this would be very useful. This is one of the reasons I create pkgdown
sites for my packages: manual pages, news and html vignettes are readily
available for all (including me) to browse.
Best wishes,
Laurent
From: Bioc-devel on behalf of
No worries at all. Thank you for letting me know.
Laurent
From: Pages, Herve
Sent: 28 May 2019 22:24
To: Laurent Gatto; bioc-devel@r-project.org
Subject: Re: [Bioc-devel] index of Bioc repository unavailable
Hi Laurent,
This is temporary. We're
Travis recently started to fail for Bioc devel (see [0] and [1] for another
possibly related report), which seems to related to a warning in
BiocManager::available():
> BiocManager::version()
[1] ‘3.10’
> str(BiocManager::available())
Warning: unable to access index for repository
I would appreciate some background about the following:
> suppressPackageStartupMessages(library("SummarizedExperiment"))
> set.seed(1L)
> m <- matrix(rnorm(16), ncol = 4, dimnames = list(letters[1:4], LETTERS[1:4]))
> rowdata <- DataFrame(X = 1:4, row.names = letters[1:4])
> se1 <-
amespace (and not attached):
[1] BiocManager_1.30.4 compiler_3.6.0 tools_3.6.0
From: Laurent Gatto
Sent: 05 May 2019 04:36
To: bioc-devel@r-project.org
Subject: Possible bug in showAsCell,character
Example code to reproduce the bug report:
> DataFrame(a = 'foo', b = NA_c
Example code to reproduce the bug report:
> DataFrame(a = 'foo', b = NA_character_)
DataFrame with 1 row and 2 columns
Error in if (nchar(x) > n) paste0(paste(strsplit(x, "")[[1]][1:n], collapse =
""), (from reduce.R#6) :
missing value where TRUE/FALSE needed
Suggested patch:
gt; This email message may contain legally privileged and/or confidential
> information. If you are not the intended recipient(s), or the employee or
> agent responsible for the delivery of this message to the intended
> recipient(s), you are hereby notified that any disclosure,
Dear Bioc admins,
I am trying to push the latest changes from my github master branch to
Bioconductor's upstreas/master (called devel below), but can't due to
duplicated commits:
lg390@elyacin [12:56:09] [~/dev/ProteomicsAnnotationHubData] [devel]
-> % git push
Counting objects: 622, done.
For those that have BiocStickers, what are your toughts on license and
requiring attributions, as they seem to limit reuse possibilities.
See
https://github.com/Bioconductor/BiocStickers/issues/54
for details.
Best wishes,
Laurent
___
o
remotes/upstream. Could you force push for me, please.
Thanks
Laurent
> Best,
>
> Nitesh
>
>> On Mar 20, 2018, at 10:36 AM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>>
>>
>> On 20 March 2018 01:58, Turaga, Nitesh wrote:
>>
>>> Hi Lauren
t.com/questions/426394/how-to-check-if-a-rsa-public-private-key-pair-matched)
>
> Also check point #15 on http://bioconductor.org/developers/how-to/git/faq/.
>
>
> Best,
>
> Nitesh
>
>> On Mar 19, 2018, at 8:17 PM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>>
&g
uld it be a configuration issue?
Thank you in advance.
Best wishes,
Laurent
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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ical Engineering, IIT Bombay.
>
>
>
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
Laurent Gatto | @lgatt0
http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
On 17 January 2018 18:26, Turaga, Nitesh wrote:
> The problem is not a separate branch from your primary repository. Its
> the branch coming from a “remote” which is not the primary repository
> (i.e Bioconductor).
>
> “rebase" is essentially doing what you do in two separate steps, so
> that
;
> I’ve enabled you to push to your repository, so this does not hold up
> your development.
Thank you.
Best wishes,
Laurent
> Best,
>
> Nitesh
>
>> On Jan 16, 2018, at 10:15 AM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>>
>>
>> Dear all,
>>
>
Dear all,
There are duplicated commit in the Bioconductor commit history of the
qcmetrics package, which stop me from pushing additional changes. Here
is an illustration of the problem:
$ git clone g...@git.bioconductor.org:packages/qcmetrics.git
Cloning into 'qcmetrics'...
cd remote: Counting
ion deleted]]
>
> _______
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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.md
Best wishes,
Laurent
> Best regards,
> Arman
>
>
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
owizard in mzR? is it required in its entirety, or
>> can it be more selectively included? I agree that mzR is often problematic
>> because of the excessive compilation time.
>>
>
> mzR uses Rcpp modules to directly call/use the C++ code from
> proteowizard to read
<https://stat.ethz.ch/mailman/listinfo/bioc-devel>
> stat.ethz.ch
> Your email address: Your name (optional): You may enter a privacy password
> below. This provides only mild security, but should prevent others from
> messing with ...
>
>
>
>>
>>
>>
>> This email message may contain legally privileged and/or confidential
>> information. If you are not the intended recipient(s), or the employee or
>> agent responsible for the delivery of this message to the intended
>> recipient(s), you are hereby notified that any disclosure, copying,
>> distribution, or use of this email message is prohibited. If you have
>> received this message in error, please notify the sender immediately by
>> e-mail and delete this email message from your computer. Thank you.
>> ___
>> Bioc-devel@r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> Bioc-devel Info Page - ETH
> Zurich<https://stat.ethz.ch/mailman/listinfo/bioc-devel>
> stat.ethz.ch
> Your email address: Your name (optional): You may enter a privacy password
> below. This provides only mild security, but should prevent others from
> messing with ...
>
>
>
>>
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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route we decided to go in the end, so no need
to move export() and import() for us at the moment.
Thanks again for your input.
Best wishes,
Laurent
> H.
>
>
> On 09/18/2017 11:28 PM, Laurent Gatto wrote:
>>
>> Out of curiosity, do you also have an import() function?
gy
>> Division of Public Health Sciences
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N, M1-B514
>> P.O. Box 19024
>> Seattle, WA 98109-1024
>>
>> E-mail: hpa...@fredhutch.org
>> Phone: (206) 667-5791
>> Fax:(206) 667-1319
&
>>
>>> On Tue, Sep 12, 2017 at 4:28 PM, Michael Lawrence
>>> <lawrence.mich...@gene.com
>>>> wrote:
>>>
>>>> I think I'm going to vote for the policy that methods with identical
>>>> signatures are currently unsupported by the me
notationDbi
> and make the method in rols work on GO ids. The code would just need
> to detect whether the strings in the supplied character vector start
> with the "GO:" prefix and delegate to the code in AnnotationDbi (this
> means that rols would need to be able to call that
to find an inherited method for function ‘Ontology’ for signature
‘"character"’
> getMethod("Ontology", "character")
Error in getMethod("Ontology", "character") :
no method found for function 'Ontology' and signature character
> getMethod(&q
Dear all,
It appears that at least two packages, AnnotationDbi and rols, define
the Ontology generic with the same signature
setGeneric("Ontology", function(object) standardGeneric("Ontology"))
Could it be moved to BiocGenerics, please?
Best wishes,
Laurent
--
Lau
On 30 August 2017 12:04, Turaga, Nitesh wrote:
> Hi Laurent,
>
> Please try again and let me know.
Thank you Nitesh, pushed successfully now.
Laurent
>> On Aug 29, 2017, at 5:51 PM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>>
>>
>> On 29 August 2017
e looking into it.
>
> Nitesh
>
>
>> On Aug 29, 2017, at 4:43 PM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>>
>>
>> Dear Bioc devel,
>>
>> I am having issues pushing code to the latest release. I currently have
>> the following branches
>>
tream/master works.
Any help greatly appreciated.
Laurent
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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Dear Bioconductor admins,
When using the search box on www.bioconductor.org, I systematically get
the following error
A timeout or invalid search term resulted in an error.
Best wishes,
Laurent
--
Laurent Gatto | @lgatt0
http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io
endencies, ... developers and users shouldn't notice the change at
all. The pwiz backend has been available for many years, but was just
not the default.
Let's see what the practice says...
Laurent
> On Tue, May 23, 2017 at 9:10 AM Laurent Gatto <lg...@cam.ac.uk> wrote:
>
or details. Please do
raise any concerns or problems in that issue.
Best wishes,
Laurent
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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SeqArray. Given the
> increasingly widespread use of VCF files, it seems likely that other
> packages may want to use them in future also.
>
> Stephanie
>
> _______
> Bioc-devel@r-project.org mailing list
> https://stat.ethz
Dear all,
What is the equivalent of this URL
http://www.bioconductor.org/packages/3.5/bioc/VIEWS
for data/experiment packages?
Thank you in advance.
Laurent
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he law and
> subject the violator to civil or criminal penalties. If you believe you have
> received this message in error, please notify the sender and delete the email
> immediately.
>
> [[alternative HTML version deleted]]
>
> _________
b5dad0 and modified in Add automatic repair
> for "m/z sort assumption violated !" error in findPeaks (centWave). Version
> Add automatic repair for "m/z sort assumption violated !" error in findPeaks
> (centWave) of R/xcmsRaw.R left in tree.
> error: Failed to merge in the changes.
> Patch failed at 0001 Add automatic repair for "m/z sort assumption violated
> !" error in findPeaks (centWave)
> The copy of the patch that failed is found in: .git/rebase-apply/patch
>
> When you have resolved this problem, run "git rebase --continue".
> If you prefer to skip this patch, run "git rebase --skip" instead.
> To check out the original branch and stop rebasing, run "git rebase --abort".
>
> rebase refs/remotes/git-svn-devel: command returned error: 128
--
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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er/lastBuild/consoleText
Is there anything I can do here or is it a server side issue? Could it
be that libnetcdf or libnetcdf-dev is missing?
Thank you in advance.
Best wishes,
Laurent
--
Laurent Gatto | @lgatt0
http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
On 23 December 2016 16:36, Laurent Gatto wrote:
> Dear all,
>
> I'm following up re my online references suggestion with my recent
> experience with Hadley's pkgdown package
>
> https://github.com/hadley/pkgdown
>
> It doesn't address the cross-package issue (which is
/
Best wishes,
Laurent
On 23 December 2016 18:14, Laurent Gatto wrote:
> Dear Sean and Robert,
>
> On 23 December 2016 17:24, Robert M. Flight wrote:
>
>> Yes, this seems like a time where using a non-standard site directory
>> on Github is useful, or as Sean said,
cshttps://
> itsalocke.com/
> auto-deploying-documentation-better-change-tracking-artefacts/
>
> HTH
Thanks, Robert, I will explore this solution too.
Laurent
> Robert
>
> On Fri, Dec 23, 2016 at 1:14 PM Laurent Gatto <lg...@cam.ac.uk> wrote:
>
>
>
s you to set the branch for the docs directory if I
> recall.
> > Perhaps a separate branch with a docs directory (not master) is a
> viable
> > way to go?
> >
> > Sean
> >
> > > On Dec 23, 2016, at 12:16 PM, Laurent Gatto <lg.
is a viable way to go?
>
> Sean
>
> > On Dec 23, 2016, at 12:16 PM, Laurent Gatto <lg...@cam.ac.uk>
> wrote:
> >
> >
> > There's actually another side-effect for Bioconductor. The
> package
> > website is (by defa
that the docs directory (which is about 5.5M for
MSnbase) ends up on hedgehog. It is easy for it not to be part of the
package build artefact using .Rbuildignore, but I am not sure how to
easily push it to github but not hedgehog when using git-svn.
Laurent
On 23 December 2016 16:36, Laurent Gatto wrote
The implementation suggestions above are just a sketch and
> could be quite misguided. If there's interest then probably we
> should set up a hangout to discuss in a little more detail.
>
> Martin
>
>
>
nstead.
>
> Kind regards,
> Nadine Hoffmann___
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http://lgatto.github.io/
_
d...
>
> [[alternative HTML version deleted]]
>
> ___
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http://lgatto.github.io/
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Dear all,
Kasper gave this recent advice not to call new() in the prototype (or at
least that was how it was interpreted)
You (and everyone else) should not construct new instances by using
new() together with prototype.
This could be handled by setting the version in the initialize
ptable solution for MSnbase, I
will submit an RMassBank patch that will sort the error (and other
things resulting from MSnbase improvements) out. What would be the best
way to submit a patch - email, a pull request to a github repo?
Best wishes,
Laurent
> On 07.10.2016 22:34, Laurent Ga
",
+ "download.file", "head", "packageDescription", "read.delim",
+ "read.table", "setTxtProgressBar", "tail", "txtProgressBar",
+ "write.table", "zip")
+
+importFrom("
lso the other 3
>>> involved in trying to fix this on our side...
>>> Just to make sure that all have the respective email addresses to try speed
>>> up the debugging...
>>>
>>> Thanks!
>>> Emma
>>> ___
> deadline to pass build without error, are we able to have a little leeway if
> needed? It's taken us the whole day to get the right binaries to actually
> have a chance to start fixing...
> Can someone also check or explain why we no longer receive the emails
> reporting error
gt;
>> Yours,
>> Steffen
>>
>> --
>> IPB HalleAG Massenspektrometrie & Bioinformatik
>> Dr. Steffen Neumann http://www.IPB-Halle.DE
>> Weinberg 3 Tel. +49 (0) 345 5582 - 1470
>> 06120 Halle
s kind of problems ?
>
>
> Thanks very much in advance,
>
>
> Andrea
>
> [[alternative HTML version deleted]]
>
> ___________
> Bioc-devel@r-project.org mailing list
> http
t
[1] https://github.com/sneumann/mzR/issues/52
> Best,
> Kasper
>
> On Thu, Sep 22, 2016 at 10:10 AM, Laurent Gatto <lg...@cam.ac.uk> wrote:
>
>>
>> On 22 September 2016 14:12, Thomas Lawson wrote:
>>
>> > Hi All,
>> >
>> > Than
t;> >>> ERROR
>>> >>>
>>> >>> *** caught segfault ***
>>> >>> address 0x0, cause 'memory not mapped'
>>> >>>
>>> >>> Traceback:
>>> >>> 1: .External(list(name = "CppMethod__invoke_notvoid",
>>> [[alternative HTML version deleted]]
>>>
>>> ___
>>> Bioc-devel@r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>>
>>>
>>
>> This email mess
ail: etienne.theve...@cea.fr<mailto:etienne.theve...@cea.fr>
> Workflow4metabolomics.org<http://workflow4metabolomics.org/>
> Réseau Francophone de Métabolomique et Fluxomique<http://www.rfmf.fr/>
>
>
> [[alternative HTML version deleted]]
>
> ___
e and continue discussion for fixes there,
> I can also test and upload any suggested patches to the SinglePackageBuilder.
>
> Thanks for any help,
> yours,
> Steffen
--
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On 15 April 2016 20:59, Leonardo Collado Torres wrote:
> Hi,
>
> I looked at https://guides.github.com/activities/citable-code/ after
> reading http://biorxiv.org/content/early/2016/04/15/048744 (Laurent
> Gatto is the 2nd author).
>
> It got me thinking that maybe with the
I do see the same problem for rols. I assume this will clear up at some
point, although any suggestion on how to avoid such glitches would be
helpful.
Laurent
On 25 March 2016 16:42, Zach Skidmore wrote:
> Hi All,
>
> Maybe i'm missing something but I don't quite understand why the "test
>
,
Laurent
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http://cpu.sysbiol.cam.ac.uk/
http://lgatto.github.io/
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good suggestion.
I suspect similar ones will creep up more and more in the future.
Best wishes,
Laurent
> Best,
> ~G
> On Mar 10, 2016 4:22 PM, "Laurent Gatto" <lg...@cam.ac.uk> wrote:
>
>>
>> Dear all,
>>
>> There have been some substant
Dear all,
There have been some substantial changes in Rstudio's DT package
recently [1], in particular with respect to selecting rows in a
table. One problem is that these updates currently only live on github
(version 0.1.45) while CRAN is stuck at version 0.1 since September
2015. This has
Dear all,
I find the http://www.rdocumentation.org/ site very useful to refer to
nicely formatted online man pages individually. Unfortunately, this
resource is terribly outdated and not maintained anymore.
I was wondering if Bioconductor had any interest in serving an html
version of
Dear all,
I am querying the PSICQUIC resource using the identically names
Bioconductor package. The query described in the vignette works as
expected.
> options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient',
> show.error.locations=TRUE)
>
re, copying,
>> distribution, or use of this email message is prohibited. If you have
>> received this message in error, please notify the sender immediately by
>> e-mail and delete this email message from your computer. Thank you.
>> _
Dear all,
We are pleased to announce that that European Bioconductor Developers
Conference will take place in Cambridge, England from 7th-8th December
2015.
The meeting is aimed at bioinformaticians, programmers and software
engineers who contribute to the Bioconductor project, or are
Dear all,
The Bioconductor build/check results page [1] labels Bioconductor 3.2 as
devel. Shouldn't 3.2 be release?
Laurent
[1] http://bioconductor.org/checkResults/
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On 28 August 2015 20:42, Dan Tenenbaum wrote:
- Original Message -
From: Kasper Daniel Hansen kasperdanielhan...@gmail.com
To: Laurent Gatto lg...@cam.ac.uk
Cc: bioC-devel bioc-de...@stat.math.ethz.ch
Sent: Wednesday, August 26, 2015 2:36:08 PM
Subject: Re: [Bioc-devel
://stat.ethz.ch/mailman/listinfo/bioc-devel
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http://cpu.sysbiol.cam.ac.uk/
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Dear Stefano,
On 28 April 2015 16:50, Berri, Stefano wrote:
Hi.
I need a very reproducible way of creating a R builds with a series of
CRAN and Bioconductor packages.
I want to be able to download a specific version or R, a specific
version of all packages and then install them in the
On 23 March 2015 10:17, Wolfgang Huber wrote:
I wonder whether it’d possible to have the website understand URLs like
http://www.bioconductor.org/pkgname
This could resolve to
http://www.bioconductor.org/packages/release/bioc/html/pkgname.html
or
/listinfo/bioc-devel
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