Hello,
I supposed that my new package called "IMMAN" be included in the next nigthly
'devel' build on Wednesday. However, I did not find it on the list. I wanted to
know whether there is problem with my package or not.
Bests,
Minoo
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I'm surprised that DelayedMatrix inherits from DataTable. Originally
at least, DataTable was meant to represent a data.frame-like object,
not a matrix-like object. Since rbind2() and cbind2() assume that
DataFrame is a valid default implementation of DataTable, they will
coerce the matrix to a Data
Yes that does get around the problem, thanks!
I would note, though, that for me at least, its a workaround and not ideal
functionality, since to use it in my function means that I now I have to have
two different code snippets depending on whether my input object (here
`testhdf`) is a matrix o
Does `rbind(testhdf, DelayedArray(testdata))` give you what you want?
On Wed, 4 Apr 2018 at 14:58 Elizabeth Purdom
wrote:
> Hello,
>
> I am trying to do a rbind a normal (in memory) matrix with a HDF5Matrix
> object or DelayedArray object and I am hitting problems. I’m using the
> development ve
Hello,
I am trying to do a rbind a normal (in memory) matrix with a HDF5Matrix object
or DelayedArray object and I am hitting problems. I’m using the development
version of R and bioconductor (as of 2 weeks ago) and HDF5Array_1.7.9,
DelayedArray_0.5.23 — see sessionInfo at end of email.
Basi
Kenneth,
I agree with Kasper. I generally like the approach of getting the software
out there sooner rather than later. Especially if the paper you are talking
about is a method paper about the software algorithm, rather than a result
paper. In that case, getting it into a public, DOI'ed repositor
Perhaps my newly submitted package times out because no web browser is
available on the build systems?
https://github.com/paul-shannon/IGV
The build times out on linux and OS X at the “creating vignettes” stage. But
since the package is a wrapper around igv.js running in the browser, no
vig
Hi all,
Thanks for your replies. I had a look at the greta package
(https://github.com/greta-dev/greta) on CRAN that uses tensorflow,
which seemingly exports the install_tensorflow function but still
requires the user to call it, so it looks like that's the best way to
go for now. I'll submit our
Hi Hervé,
Some recent changes in bioc-devel are causing trouble with
SummarizedExperiment objects if the rowRanges slot inherits from
GRangesList. Please see example below.
Thanks in advance for your help.
Leonard
--
> library(SGSeq)
>
> ## SGVariants object inherits from GRangesList
> is(sgv
Dear All,
A package I maintain (ADaCGH2) is giving an error during build
(http://bioconductor.org/checkResults/devel/bioc-LATEST/ADaCGH2/merida2-buildsrc.html)
because Cairo is not available. A quick look at other packages that depend
on Cairo shows the same problem there.
What should we do?
B
This is a subjective question. As a paper reviewer I like to see the
package accepted. That increases trust. As a package reviewer I like some
idea of what the package actually does, so a statement like "we implement X
which is described in (XX, in preparation), is also irritating.
Unless you're
Hi Gabe & Levi,
Here is my current plan:
1 - complete the requirements checklist (
http://www.bioconductor.org/developers/package-submission/)
2 - get feedback the in-house NGS team, and then from the rest of in-house
bioinformatics (others who use R more may spot some issues)
3 - set up pull req
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