augur {read,write}-file

[tsibley]

Add commands to read and write files using Augur's conventions. This allows external programs to do i/o like Augur by piping from/to augur read-file or augur write-file. In some simple testing, the overhead of passing text i/o thru Python vs. not is minimal for our use cases and worth the cost of consistent compression and newline handling.

I'll be using this to allow SQLite to read/write files like Augur.

Checklist

• Automated checks pass
• Check if you need to add a changelog message
• Check if you need to add tests
• Check if you need to update docs

[codecov]

Codecov Report

Attention: Patch coverage is 71.42857% with 10 lines in your changes missing coverage. Please review.

Project coverage is 70.22%. Comparing base (2c88298) to head (54ebcf3).
Report is 127 commits behind head on master.

Files with missing lines	Patch %	Lines
augur/read_file.py	63.63%	8 Missing ⚠️
augur/write_file.py	84.61%	2 Missing ⚠️

Additional details and impacted files

@@           Coverage Diff           @@
##           master    #1562   +/-   ##
=======================================
  Coverage   70.22%   70.22%           
=======================================
  Files          74       76    +2     
  Lines        7952     7987   +35     
  Branches     1945     1947    +2     
=======================================
+ Hits         5584     5609   +25     
- Misses       2082     2092   +10     
  Partials      286      286           

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[genehack]

no tests?

[tsibley]

no tests?

Ha… yeah… I'm mostly a "tests optional" sort of person naturally. I like integration tests and unit tests for tricky or brittle behaviour, but am not a test maximalist. I've seen way too many large test suites made mostly of useless tests. But, I'll adhere to project/team expectations if Augur/we are "tests for new additions"!

[genehack]

no tests?

Ha… yeah… I'm mostly a "tests optional" sort of person

Fair enough.