Additional environment vars corresponding to CLI options that didn't have them

[tclose]

• Adds envvar options to remaining CLI args for stage, transfer and upload
• Add prefix for each commands env var so that the namespaces are separate between the commands

[codecov]

Codecov Report

Attention: Patch coverage is 35.71429% with 27 lines in your changes are missing coverage. Please review.

Project coverage is 73.85%. Comparing base (c9354f4) to head (87e87b3).
Report is 2 commits behind head on main.

Files	Patch %	Lines
xnat_ingest/cli/upload.py	28.94%	27 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main       #4      +/-   ##
==========================================
+ Coverage   73.78%   73.85%   +0.06%     
==========================================
  Files          14       14              
  Lines        1110     1109       -1     
==========================================
  Hits          819      819              
+ Misses        291      290       -1     

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