magicDGS / ReadTools

A Universal Toolkit for Handling Sequence Data from Different Sequencing Platforms
https://magicdgs.github.io/ReadTools/
MIT License
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Use quoted split pattern for barcodes #526

Closed magicDGS closed 5 years ago

magicDGS commented 5 years ago

This commit separates the pattern for split barcodes sequences/qualities from the default String for the separator by quoting the java property (or default) argument. This have several advantages:

Closes #525

codecov[bot] commented 5 years ago

Codecov Report

Merging #526 into master will increase coverage by 0.011%. The diff coverage is 100%.

Impacted file tree graph

@@               Coverage Diff               @@
##              master      #526       +/-   ##
===============================================
+ Coverage     93.682%   93.693%   +0.011%     
+ Complexity      1077      1076        -1     
===============================================
  Files            103       103               
  Lines           2833      2838        +5     
  Branches         301       301               
===============================================
+ Hits            2654      2659        +5     
  Misses           133       133               
  Partials          46        46
Impacted Files Coverage Δ Complexity Δ
...s/readtools/utils/fastq/FastqReadNameEncoding.java 77.193% <100%> (ø) 16 <0> (ø) :arrow_down:
...n/java/org/magicdgs/readtools/RTHelpConstants.java 88.889% <100%> (+0.517%) 13 <0> (ø) :arrow_down:
...org/magicdgs/readtools/utils/read/RTReadUtils.java 98.413% <100%> (+0.039%) 51 <0> (-1) :arrow_down: