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which rounded them. Arguments (like minhetfreq) that were in range (0, 1) were
rounded to 0 and hence always assigned default values during later checks
(BS-SNPer.pl:48-55 @ master)
(BS-SNPer.pl:48-55 @ master) 0 was interpreted as False and the default value
was used in such cases.
after GetOptions. What makes sense is checking for files, as there are no
default values for them. Although for output files it might be good idea
to just construct them based on input filename by adding predefined suffixes,
i.e. if $bam == file.bam, $methcg would be file.bam.methcg