lshep

[BUG] Add non standard directories and files to a .gitignore

9

We try to have the minimum basic package structure. It seems like in creation at least a `dev` folder with various templates/functions gets created. This should not be in a...

I would like to use the get_versions function for just a specific file in a given bucket rather than returning all the results of the bucket. Is this possible without...

Default to Bioc devel for R-devel

9

Currently BiocManager would not work with the devel version of R. While the current Bioc works with 4.2 for release and devel, shouldn't BiocManager default to the current Bioc devel...

checking for already installed does not respect lib argument

4

So I'm testing locally and I have an environment variable set up to specify a different installation path: ``` > .libPaths() [1] "/home/shepherd/R-Libraries/4.2-Bioc3.15" [2] "/home/shepherd/R-Installs/bin/R-devel/library" ``` I need biocViews to...

question about pubyear

1

Just thinking ahead... right now the pubyear is 2017. When we change to 2018, will all the DOI be regenerated for pubyear 2018 when this happens or will the already...

At risk of removal from Bioconductor

9

We have tried to contact the maintainer email in the package. The package is currently failing across all platforms in devel and will soon start to fail across all platforms...

package at risk of deprecation from bioconductor

1

Your package has been failing in devel across all platforms for over 6 weeks. It is at risk of deprecation and removal from Bioconductor. Please fix as soon as possible...

LoriTestPkg

1

Update the following URL to point to the GitHub repository of the package you wish to submit to _Bioconductor_ - Repository: https://github.com/lshep/LoriTestPkg Confirm the following by editing each check box...

release_proteomics and devel_proteomics docker fail - Deprecate docker?

1

The release proteomics fails to build as does the devel_proteomics. From the tags it doesn't look like we have had a working image since Bioc 3.8. If the docker image...

The TCGAWorkflow has been failing since the last release in both release and devel. Please fix the package in the next two weeks to avoid deprecation. The dependent package rGADEM...