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pirovc / ganon

ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
https://pirovc.github.io/ganon/
MIT License
86 stars 13 forks source link

Feature/performance build by sequence #248

Closed pirovc closed 1 year ago

pirovc commented 1 year ago
codecov-commenter commented 1 year ago

Codecov Report

Merging #248 (08d0d65) into dev (af00a99) will increase coverage by 9.33%. The diff coverage is 86.76%.

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@@            Coverage Diff             @@
##              dev     #248      +/-   ##
==========================================
+ Coverage   77.66%   86.99%   +9.33%     
==========================================
  Files          22       23       +1     
  Lines        2512     3307     +795     
==========================================
+ Hits         1951     2877     +926     
+ Misses        561      430     -131
Impacted Files Coverage Δ
...classify/hierarchical_interleaved_bloom_filter.hpp 0.00% <0.00%> (ø)
src/ganon-build/include/ganon-build/Config.hpp 64.51% <60.37%> (+19.06%) :arrow_up:
...c/ganon-classify/include/ganon-classify/Config.hpp 70.19% <77.77%> (+20.19%) :arrow_up:
src/ganon/tax_util.py 81.25% <81.25%> (ø)
src/ganon/config.py 79.38% <83.03%> (+1.42%) :arrow_up:
src/ganon/build_update.py 83.54% <83.55%> (+18.06%) :arrow_up:
src/ganon/classify.py 86.84% <85.29%> (-7.28%) :arrow_down:
src/ganon-classify/GanonClassify.cpp 89.07% <86.03%> (+6.25%) :arrow_up:
src/ganon-classify/CommandLineParser.cpp 88.46% <87.09%> (+6.41%) :arrow_up:
src/ganon/ganon.py 88.88% <88.00%> (-5.06%) :arrow_down:
... and 9 more

... and 2 files with indirect coverage changes

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