fix all cran comments

[RichardHooijmaijers]

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[codecov-commenter]

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Codecov Report

Attention: Patch coverage is 75.00000% with 1 line in your changes missing coverage. Please review.

Project coverage is 82.31%. Comparing base (d529260) to head (4c613cf).
Report is 15 commits behind head on master.

Files with missing lines	Patch %	Lines
R/run_nmx.r	50.00%	1 Missing ⚠️

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Additional details and impacted files

@@           Coverage Diff           @@
##           master      #44   +/-   ##
=======================================
  Coverage   82.31%   82.31%           
=======================================
  Files          27       27           
  Lines        1510     1510           
=======================================
  Hits         1243     1243           
  Misses        267      267           

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