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Remove default arguments from rules

Merged Remove default arguments from rules
remove_defaults into dev
Merged BIOPZ-Katsantoni Maria requested to merge remove_defaults into dev
  1. Mar 22, 2021
    • BIOPZ-Katsantoni Maria's avatar
      Remove default parameters from Snakefile. · ca379a63
      BIOPZ-Katsantoni Maria authored 
      These were accidentally not omitted in the previous commit
 star_rpm: --outWigNorm (default RPM was used)
 star_rpm: --outWigStrand (default Stranded was used)
 rename_star_rpm_for_alfa: orientation in params is redundant (Fixes #152)
      ca379a63
  3. Mar 19, 2021
    • BIOPZ-Katsantoni Maria's avatar
      Remove extra parameters, that had or should have the default values · cc20aac9
      BIOPZ-Katsantoni Maria authored 
      and are therefore not required in the rules.
- Snakefile
 star_rpm: --outWigNorm (default RPM was used)
 star_rpm: --outWigStrand (default Stranded was used)
 rename_star_rpm_for_alfa: orientation in params is redundant (Fixes #152)
- single_end.snakefile.smk
 map_genome_star: outFilterMismatchNoverLmax
 map_genome_star: outFilterScoreMinOverLread
 map_genome_star: outFilterMatchNminOverLread
 quantification_salmon: --writeUnmappedNames
- paired_end.snakefile.smk
  pe_map_genome_star: outFilterMismatchNoverLmax
  pe_map_genome_star: outFilterScoreMinOverLread
  pe_map_genome_star: outFilterMatchNminOverLread
  quantification_salmon: --writeUnmappedNames
      cc20aac9
  5. Mar 11, 2021