Commit 0c28aeb4 authored by Mathieu Giraud's avatar Mathieu Giraud

vidjil.cpp: update help, clarifying -d

parent a969e65e
......@@ -145,7 +145,7 @@ void usage(char *progname)
<< "Germline databases" << endl
<< " -V <file> V germline multi-fasta file" << endl
<< " -D <file> D germline multi-fasta file (automatically implies -d)" << endl
<< " -D <file> D germline multi-fasta file (implies -d)" << endl
<< " -J <file> J germline multi-fasta file" << endl
<< " -G <prefix> prefix for V (D) and J repertoires (shortcut for -V <prefix>V.fa -D <prefix>D.fa -J <prefix>J.fa) (basename gives germline code)" << endl
<< " -g <path> multiple germlines (experimental)" << endl
......@@ -182,7 +182,7 @@ void usage(char *progname)
<< endl
<< "Fine segmentation options (second pass, see warning in doc/algo.org)" << endl
<< " -d segment into V(D)J components instead of VJ " << endl
<< " -d segment into V(D)J components instead of VJ (and resets -m, -M and -w options)" << endl
<< " -f <string> use custom Cost for fine segmenter : format \"match, subst, indels, homo, del_end\" (default "<<VDJ<<" )"<< endl
<< endl
......
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