Commit 447496a7 authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

vidjil.cpp: clarify -s/-k relationship in help message

parent 9e068cde
...@@ -145,10 +145,14 @@ void usage(char *progname) ...@@ -145,10 +145,14 @@ void usage(char *progname)
<< "Window prediction" << endl << "Window prediction" << endl
#ifndef NO_SPACED_SEEDS #ifndef NO_SPACED_SEEDS
<< " (use either -s or -k option, but not both)" << endl
<< " -s <string> spaced seed used for the V/J affectation" << endl << " -s <string> spaced seed used for the V/J affectation" << endl
<< " (default: #####-#####, ######-######, #######-#######, depends on germline)" << endl << " (default: #####-#####, ######-######, #######-#######, depends on germline)" << endl
#endif #endif
<< " -k <int> k-mer size used for the V/J affectation (default: 10, 12, 13, depends on germline)" << endl << " -k <int> k-mer size used for the V/J affectation (default: 10, 12, 13, depends on germline)" << endl
#ifndef NO_SPACED_SEEDS
<< " (using -k option is equivalent to set with -s a contiguous seed with only '#' characters)" << endl
#endif
<< " -w <int> w-mer size used for the length of the extracted window (default: " << DEFAULT_W << ")(default with -d: " << DEFAULT_W_D << ")" << endl << " -w <int> w-mer size used for the length of the extracted window (default: " << DEFAULT_W << ")(default with -d: " << DEFAULT_W_D << ")" << endl
<< endl << endl
......
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