Build and push Docker image not working

[lwaldron]

E.g. see https://github.com/waldronbios2/cunybios2/runs/6498265129?check_suite_focus=true

I am having difficulties, @jwokaty can you help?

[lwaldron]

Related to problems I have had with waldronlab/curatedMetagenomicDataAnalyses#35

[jwokaty]

I'll look into these.

[jwokaty]

@lwaldron I made some changes, but the deployment likely failed because it's expecting your credentials. Could I ask you to try running the action?

[jwokaty]

@lwaldron Can you run the workflow https://github.com/waldronbios2/cunybios2/actions/workflows/build.yaml to see if that clears the insufficient_scope permissions error?

[lwaldron]

Thank you @jwokaty , running at https://github.com/waldronbios2/cunybios2/actions/runs/2831100806. I also just gave you admin access to this repository to hopefully allow you to do anything I could do.

[jwokaty]

@lwaldron Thank you. I noticed it still failed, so I will continue investigating.

Note (to @jwokaty): See docker/build-push-action#160. May need to change the tag.

[jwokaty]

@lwaldron What should Ncpus=max(1, parallel::detectCores(), na.rm=TRUE) be doing?

I'm getting the following error on build:

#10 [6/7] RUN Rscript -e "devtools::install('.', dependencies=TRUE, build_vignettes=FALSE, Ncpus=max(1, parallel::detectCores(), na.rm=TRUE))"
#10 41.11 Error: JSON: EXPECTED value GOT <
#10 41.11 Execution halted
#10 41.11 Warning message:
#10 41.11 1 components of `...` were not used.
#10 41.11 
#10 41.11 We detected these problematic arguments:
#10 41.11 * `Ncpus`
#10 41.11 
#10 41.11 Did you misspecify an argument? 
#10 ERROR: process "/bin/sh -c Rscript -e \"devtools::install('.', dependencies=TRUE, build_vignettes=FALSE, Ncpus=max(1, parallel::detectCores(), na.rm=TRUE))\"" did not complete successfully: exit code: 1

[lwaldron]

Huh, trying to automatically set number of cores for compiling packages, but it's really not necessary you could just get rid of that argument. They're probably all installed from binaries anyway.