Feature/test singularity

[creisle]

Improvements

• Add tests for using singularity to the PR build
• Add resource settings to Snakefile
• Lint markdown docs
• Remove unused functions

Note: I've run this on the full tutorial data on our SLURM cluster. Once this is merged to master we can publish as v3.0.0-alpha and work on validation

[codecov[bot]]

Codecov Report

Merging #248 (027c403) into develop_v3 (078846f) will increase coverage by 0.30%. The diff coverage is 71.42%.

@@              Coverage Diff               @@
##           develop_v3     #248      +/-   ##
==============================================
+ Coverage       86.36%   86.66%   +0.30%     
==============================================
  Files              53       53              
  Lines            8871     8842      -29     
  Branches         2246     2234      -12     
==============================================
+ Hits             7661     7663       +2     
+ Misses            744      719      -25     
+ Partials          466      460       -6     

Flag	Coverage Δ
unittests	86.66% <71.42%> (+0.30%)	:arrow_up:

Flags with carried forward coverage won't be shown. Click here to find out more.

Impacted Files	Coverage Δ
src/mavis/summary/summary.py	54.22% <0.00%> (ø)
src/mavis/util.py	80.19% <75.00%> (+3.27%)	:arrow_up:
src/mavis/config.py	71.23% <100.00%> (+0.39%)	:arrow_up:
src/mavis/breakpoint.py	91.26% <0.00%> (+0.64%)	:arrow_up:
src/mavis/validate/call.py	87.16% <0.00%> (+0.95%)	:arrow_up:
src/mavis/pairing/pairing.py	77.39% <0.00%> (+1.36%)	:arrow_up:
src/mavis/validate/main.py	90.69% <0.00%> (+2.90%)	:arrow_up:

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[creisle]

requires this update: https://github.com/bcgsc/mavis_config/pull/3