Commit e1b4ccdf authored by Mathieu Giraud's avatar Mathieu Giraud

vidjil.cpp: clarify help on -z and -A

parent 945e896e
......@@ -183,8 +183,11 @@ void usage(char *progname)
<< "Limits to report a clone" << endl
<< " -R <nb> minimal number of reads supporting a clone (default: " << MIN_READS_CLONE << ")" << endl
<< " -% <ratio> minimal percentage of reads supporting a clone (default: " << RATIO_READS_CLONE << ")" << endl
<< " -z <nb> maximal number of clones reported (0: no limit) (default: " << MAX_CLONES << ")" << endl
<< " -A reports all clones (-r 0 -R 1 -% 0 -z 0), to be used only on very small datasets" << endl
<< endl
<< "Limits to segment a clone" << endl
<< " -z <nb> maximal number of clones to be segmented (0: no limit, do not use) (default: " << MAX_CLONES << ")" << endl
<< " -A reports and segments all clones (-r 0 -R 1 -% 0 -z 0), to be used only on very small datasets" << endl
<< endl
<< "Fine segmentation options (second pass, see warning in doc/README)" << endl
......
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