Dockerfile Cleaning

[AlexAxthelm]

Cleaning up the Dockerfile!

The biggest structural change here is in the block that writes Rprofile.site. That now uses the builtin TARGETPLATFORM build arg (more info) to determine if we should be pulling Binaries (for Ubuntu Jammy) or building packages from source (everything else).

The other notable change is cleaning up the LABEL instructions, which in conjunction with RMI-PACTA/actions#85 provides up to date labels, including revision and version.

Smaller Changes:

• Don't use root as user
• hardcoding the image tag for the base image, rather than having be a build arg
• fully qualifying the base image (docker.io/rocker/r-ver, rather than rocker/r-ver)
• Moving the DEBIAN_FRONTEND from build args to inline envvar
• Adding more R options to control behavior of pak and pkgload
• copying package source code to /workflow.pacta instead of system root dir.

• Depends on Add ref.name and version to Docker labels actions#85

Closes #55
Closes #46

[github-actions]

Docker build status

commit_time	git_sha	image
2024-05-23T09:23:18Z	5514c02	ghcr.io/rmi-pacta/workflow.pacta:pr-60

[cjyetman]

FYI... the audit file is the first thing written, so I suspect something with the output paths is not right with 2022Q4 GENERAL and 2023Q4 GENERAL builds (errors in the latest CI/CD)

https://github.com/RMI-PACTA/workflow.transition.monitor/blob/033729aefe26a134d15acdd1cf3a506b917ac5de/web_tool_script_1.R#L126-L134

https://github.com/RMI-PACTA/workflow.pacta/actions/runs/9205271961/job/25320684835?pr=60#step:7:104

DEBUG [2024-05-23 09:12:00] Exporting audit information.
Error in file(file, ifelse(append, "a", "w")) :
cannot open the connection
Calls: ... -> export_audit_graph_json -> write -> cat -> file
In addition: Warning message:
In file(file, ifelse(append, "a", "w")) :
cannot open file '/home/workflow-pacta/output_dir/coveragegraphlegend.json': Permission denied
Execution halted
Error: Process completed with exit code 1.

[AlexAxthelm]

@cjyetman I think cleaning up some of the bind mounts is probably the next thing on the list for this one, as part of specifying the default/inherited configs.