Complain if -M argument is less than one

ksahlin · Jul 25, 2023 · b74eb4b · b74eb4b
1 parent e55dc50
commit b74eb4b
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Showing 2 changed files with 8 additions and 1 deletion.
diff --git a/src/aln.hpp b/src/aln.hpp
@@ -66,6 +66,12 @@ struct MappingParameters {
     CigarOps cigar_ops{CigarOps::M};
     bool output_unmapped { true };
     bool details{false};
+
+    void verify() const {
+        if (max_tries < 1) {
+            throw BadParameter("max_tries must be greater than zero");
+        }
+    }
 };
 
 class i_dist_est {

diff --git a/src/main.cpp b/src/main.cpp
@@ -178,6 +178,7 @@ int run_strobealign(int argc, char **argv) {
     map_param.cigar_ops = opt.cigar_eqx ? CigarOps::EQX : CigarOps::M;
     map_param.output_unmapped = opt.output_unmapped;
     map_param.details = opt.details;
+    map_param.verify();
 
     log_parameters(index_parameters, map_param, aln_params);
     logger.debug() << "Threads: " << opt.n_threads << std::endl;
@@ -331,7 +332,7 @@ int main(int argc, char **argv) {
     try {
         return run_strobealign(argc, argv);
     } catch (BadParameter& e) {
-        logger.error() << "A mapping or seeding parameter is invalid: " << e.what() << std::endl;
+        logger.error() << "A parameter is invalid: " << e.what() << std::endl;
     } catch (const std::runtime_error& e) {
         logger.error() << "strobealign: " << e.what() << std::endl;
     }