On 5 April 2021 at 18:27, xiaoyan yu wrote:
| Thank you all for your help.
| We embedded R in our program and found the memory in the process
| accumulated while our expectation is that the memory will go down after
| each R evaluation.
| I started to write a test program with only a few lines
I just noticed the following:
(Within the help file for methods::is).
supers <- extends("PythonInterface")
superRelations <- extends("PythonInterface", fullInfo = TRUE)
I was wondering:
Could we please *not* have python-based examples within core help files.
Furthermore, this example has no
Thank you all for your help.
We embedded R in our program and found the memory in the process
accumulated while our expectation is that the memory will go down after
each R evaluation.
I started to write a test program with only a few lines of R embedded codes
and found the memory never went down
Thanks for your quick response. It is also surprising for us to notice the
memory accumulation when running our program since it has been years since
we developed our program.
Here is the memory status I observed from 15384k to 234208k to 242024k
without decreasing when running the test program.
Dear Bioc team,
my package has started to fail during the build check (
http://bioconductor.org/checkResults/devel/bioc-LATEST/ramr/). I tried to
figure out why and it appears that I somehow make GRanges object
non-subsettable. Could anyone from "GenomicRanges" developers look at my
issue and
Hi Oleksii,
It looks like we have a long-standing bug in the rbind() method for
DataFrame objects that is somehow surfacing now. Here is a simple example:
library(IRanges)
DF1 <- DataFrame(A=I(list(11:12, 21:23)))
DF2 <- DataFrame(A=IntegerList(31:34, 41:45, 51:56))
DF3 <- rbind(DF1,
We are in process of making some major updates to the caching in BiocFileCache,
AnnotationHub, and ExperimentHub. Namely, the default caching location will
change from using rappdirs::user_cache_dir to using tools::R_user_dir
eventually relieving the dependency on rappdirs. To avoid
Hi Tim,
This package should be fixed now. I've synced your github repo with the one on
git.bioconductor.org.
Please check to make sure everything is as expected including the size.
Best,
Nitesh
On 4/1/21, 6:22 AM, "Bioc-devel on behalf of Triche, Tim"
wrote:
Hi all,
This is fixed in S4Vectors 0.29.13:
https://github.com/Bioconductor/S4Vectors/commit/6d79932910af9618465d5f932df5864d0a270e11
This new version of S4Vectors should propagate to the build machines and
become available via BiocManager::install() in the next 48h or so.
Cheers,
H.
On 4/5/21 3:40
DifferentialDNA3DStructure has been added to the devel list of biocViews terms
and will be carried through in future releases. It will be available once
biocViews version 1.59.3 propagates on the build system
Cheers,
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer
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