Hi Vince,
It looks like Michael took care of this in devel (thanks Michael):
https://github.com/Bioconductor/GenomicRanges/issues/11
H.
On 10/3/18 08:20, Hervé Pagès wrote:
> Hi Vince,
>
> This issue was reported here a couple of weeks ago:
>
>
Thank you for the info Martin and Michael!
In the particular situation with recount and the xts warning,
re-installing data.table 1.11.8 worked with xts 0.11.2. Details are
further below.
Best,
Leo
On Mon, Nov 5, 2018 at 6:49 PM Michael Lawrence
wrote:
>
> For the general problem of
Hi all,
I have pushed some changes to a package DrugVsDisease but after 2 builds on
bioconductor it is not showing any updates to the package. Any suggestions?
Thanks
Clare
dhcp-10-248-132-213:DrugVsDisease clare$ git commit -m "add import From"
[master c8faca2] add import From
1 file
After a push is made it can take up to 48 hours for it to appear on the build
report and landing pages - i.e. we do one pull, build, check, propagate in 24
hours - so if your commit was after the pull for the day it wont be until the
following day.
The version we have in git and that is building on devel is 2.25.1 which was
pushed on November 4th. If you made any additional changes please make sure
they are pushed to g...@git.bioconductor.org:packages/DrugVsDisease.git
There have been no pushes to the RELEASE_3_8 branch.
Lori Shepherd
And as Nitesh said additional pushes can take up to 48 hours to appear -
They also would need a valid version bump in order to be picked up by the
builders.
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Hi all,
our package got a check warning on tokay1 and I cannot figure out where it
is coming from. The Warning:
* checking whether package 'SIAMCAT' can be installed ... WARNING
Found the following significant warnings:
Rd warning:
Dear Bioc Core Team
I have created many Bioconductor packages, but it is always hard to pass the R
CMD CHECK/BiocCheck.
Especially, it is still difficult to construct the identical environment of
single/daily package builder in the local machine.
Sometimes the error is caused by the
Similarly answered here:
https://stat.ethz.ch/pipermail/bioc-devel/2018-October/014139.html
I think there is a reference here
https://stackoverflow.com/questions/48430093/how-do-i-resolve-rd-warning-missing-file-link-when-building-packages-in-rstudio
So for example:
Where the actual name of
Thanks for the comments.
A docker image doesn't help with differences between operating systems.
A docker image wouldn't be practical for the build system, where there are
1000's of packages installed.
A docker image would need to be updated daily, since that is what the build
system does;
In my experience, if I aggressively update my development installation of
Bioconductor (including occasional updates of R-devel when appropriate) I
can usually replicate most-all failures on the build server which has the
same OS as my local machine. It does require aggressive updating though.
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