Hi Michael,
Thanks for reporting. This has been fixed in the latest version of
BiocCheck (1.41.9).
Best regards,
Marcel
On 7/26/24 5:29 AM, Michael Shapiro wrote:
> We are currently working through the submission of a new package, CatsCradle
> (issue #3452). We get a build error from the
https://secure-web.cisco.com/1sueUdsK2Nz46WceAI1X6J67uFFM4_-u2jsnjTzB4mkwMvdEsSqAd2dQ2-C_PTyi1dXgO7I1PdRSWM1TSOkP8ieQ2xCOa036oa-ucQTY65o6nSR__aVhVG5mI0HkLQOX7ihiKsmVFswSw_ghYaSi8hBnVRfafVS6G7TxPRtg4knMhWV7DDnO7bNGhPjPXxAqMVoJJkH0URd9lH2NIGtfNC8LmoeJ1htzSq3Tn_z2gmPSV1UtK_2fAe3Z_ixAeq1eYzWU7nfZ-5_l23cQyeOpSY0B9R6DH_eKA2v8ziUsBhVIrBLPYvODWunlR3ZXqIcvN/https%3A%2F%2Fwww.cancer.dk%2Fom-os%2Fprivatlivspolitik%2F>
>
> *From: *Ramos Perez, Marcel
&
Hi Matteo,
I was also able to reproduce on Bioc 3.18 on Windows with a traceback (see
below).
It may be that there are symbol clashes between parallel runs in the
`foreach:::.foreachGlobals` environment as described in
https://stackoverflow.com/a/67497500
Clearing the symbols in that
Hi Daniel,
Thanks for posting.
Hervé has asked on the R-devel mailing list:
https://stat.ethz.ch/pipermail/r-devel/2024-March/083265.html
I don't think you will have to do anything in your package.
Once fixed, the messages will go away.
Best regards,
Marcel
On 3/13/24 5:09 PM, Daniel
Hi Shraddha,
It looks like Michael has fixed this on GitHub:
https://github.com/lawremi/rtracklayer/commit/86407bbef2d02455053b7b7c96afe9c5ce6949e7
but the fix hasn't been pushed to Bioconductor devel.
In the meantime, you can install the GH version with
Hi Marek,
Thanks for pointing this out in release.
I have applied the patch to BiocCheck version 1.38.1.
FWIW, this issue was first opened here
https://github.com/Bioconductor/BiocCheck/issues/135
Best regards,
Marcel
On 1/25/24 9:24 AM, Marek Gierlinski (Staff) wrote:
> Yes, it must be this.
Hi Zhigang,
AFAICT, I don't see `crossprod` as an exported symbol in `MatrixExtra`.
> library(MatrixExtra)
> ls("package:MatrixExtra")
Did you mean Matrix:: or base:: crossprod?
Best regards,
Marcel
On 1/16/24 10:14 AM, Zhigang Li wrote:
Hi There,
It seems that the error says :
"
**
Hi Boyi,
This has been resolved in BiocCheck version 1.39.12.
https://github.com/Bioconductor/BiocCheck/issues/205
Best regards,
Marcel
On 1/10/24 2:53 PM, Boyi Guo wrote:
Hi,
I had the same problem (
https://bioconductor.org/spb_reports/tpSVG_buildreport_20240109095309.html).
* Checking
Hi Nick,
Git blame says the 'molecules' method and generic have been in
SpatialExperiment for at least 2 years.
It looks like the maintainers of MoleculeExperiment should import the molecules
generic and export only their method.
The other option is to have a separate package with only
Thank you for the fix.
I have updated the package.
Best,
Marcel
On 9/21/23 7:12 PM, Ali Sajid Imami wrote:
I'll take a look. I rely on KEGGREST a lot.
Regards,
Dr. Ali Sajid Imami
LinkedIn
Thank you Martin for providing the link.
I misread the changes on the release branch.
It looks like the DESCRIPTION file should be modified by removing the merge
commit tag and
following the bug fix instructions here:
Hi Matineh,
It looks like there was some extra text in the DESCRIPTION at commit 83ab252 :
>>> 509b8e4 (version bump)
The next build of the release branch will happen tomorrow. It should be cleared
up by then based on the changes you've made.
Best regards,
Marcel
On 4/4/23 2:59 PM,
-write an existing resource? I think the best practice would be to create
> a new resource, with updated curateTCGAData package & version bump. Martin
>
> On 3/4/19, 2:31 PM, "Bioc-devel on behalf of Ramos Perez, Marcel"
> marcel.ramospe...@roswellpark.org> wrote
Hi Steffen,
I haven't played with it yet but Travis CI has an Artifacts addon that
will trigger
in the `after_script` or `after_failure` stages of the build and upload
log files to an AWS bucket.
You can see the details here:
https://docs.travis-ci.com/user/uploading-artifacts/
Best regards,
Hi Martin,
I suspect that this is due to caching because I'm unable to reproduce
including after deleting my hub cache.
hb <- ExperimentHub::ExperimentHub()
#> snapshotDate(): 2019-01-25
unlink(
AnnotationHub::hubCache(hb),
recursive = TRUE,
force = TRUE
)
suppressMessages({
Hi Leonardo,
Keep in mind that GitHub and the Bioconductor git server are two
different animals.
You should be pushing your changes to the git server as you would with
software
packages ( `g...@git.bioconductor.org:packages/derfinderData` ).
My guess is that the hook is looking at the version
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