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[WIP] add lca convert command #2000

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[WIP] add lca convert command #2000

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ctb
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@ctb ctb commented Apr 26, 2022

Fixes #1961.

May update to tackle #1959 and/or #1964, too.

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codecov bot commented Apr 26, 2022

Codecov Report

Merging #2000 (92f2fcd) into add/sqlite_index (9e616dd) will increase coverage by 7.35%.
The diff coverage is 61.42%.

@@                 Coverage Diff                  @@
##           add/sqlite_index    #2000      +/-   ##
====================================================
+ Coverage             83.99%   91.35%   +7.35%     
====================================================
  Files                   129      100      -29     
  Lines                 14937    10714    -4223     
  Branches               2079     2087       +8     
====================================================
- Hits                  12547     9788    -2759     
+ Misses                 2095      629    -1466     
- Partials                295      297       +2     
Flag Coverage Δ
python 91.35% <61.42%> (-0.21%) ⬇️
rust ?

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

Impacted Files Coverage Δ
src/sourmash/lca/command_convert.py 35.48% <35.48%> (ø)
src/sourmash/index/sqlite_index.py 90.92% <44.44%> (-0.81%) ⬇️
src/sourmash/cli/lca/convert.py 85.71% <85.71%> (ø)
src/sourmash/cli/lca/__init__.py 100.00% <100.00%> (ø)
src/sourmash/lca/__init__.py 100.00% <100.00%> (ø)
src/sourmash/lca/command_index.py 89.60% <100.00%> (-0.30%) ⬇️
src/sourmash/lca/lca_db.py 93.43% <100.00%> (+0.15%) ⬆️
src/core/src/ffi/storage.rs
src/core/src/index/search.rs
src/core/src/sketch/nodegraph.rs
... and 28 more

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This looks good to me!

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mr-eyes commented Apr 26, 2022

I haven't noticed tests for lca_convert, though.

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@mr-eyes mr-eyes self-requested a review April 26, 2022 23:25
Base automatically changed from add/sqlite_index to latest April 26, 2022 23:40
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add an lca convert command
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