Warnings
@lmcneill - these are warnings that i get when running check().
checking Rd \usage sections ... WARNING Undocumented arguments in documentation object 'auto_crop_fast' ‘channel3_string’ ‘channel2_string’ ‘channel1_string’ ‘file_ext’ ‘third_channel’
Undocumented arguments in documentation object 'count_foci' ‘channel2_string’ ‘channel1_string’ ‘file_ext’
Undocumented arguments in documentation object 'crop_single_object_fast' ‘channel3_string’ ‘channel2_string’ ‘channel1_string’ ‘file_ext’ ‘third_channel’
Undocumented arguments in documentation object 'get_pachytene' ‘annotation’ ‘channel2_string’ ‘channel1_string’ ‘file_ext’
Undocumented arguments in documentation object 'measure_distances' ‘channel2_string’ ‘channel1_string’ ‘file_ext’
Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual.