performance-avoid-endl

src/load_OTUs.cpp

@@ -98,5 +98,5 @@ auto read_otu_table (std::unordered_map<std::string, struct OTU> &OTUs,
     {
       parse_each_otu(OTUs, line, n_samples);
     }
-  std::cout << "done, " << OTUs.size() << " entries" << std::endl;
+  std::cout << "done, " << OTUs.size() << " entries\n";
 }

src/load_matches.cpp

@@ -110,5 +110,5 @@ auto read_match_list (std::unordered_map<std::string, struct OTU> &OTUs,
           .hit_id = hit}
         );  // no need to reserve(10)?
     }
-  std::cout << "done" << std::endl;
+  std::cout << "done\n";
 }

src/merge_OTUs.cpp

@@ -69,7 +69,7 @@ auto merge_OTUs (std::unordered_map<std::string, struct OTU> &OTUs) -> void {
     OTUs[root].is_root = true;
     OTUs[root].sum_reads += OTUs[OTU_id].sum_reads;
   }
-  std::cout << "done" << std::endl;
+  std::cout << "done\n";
 }
 
 
@@ -84,5 +84,5 @@ auto update_spread_values (std::unordered_map<std::string, struct OTU> &OTUs) ->
     auto has_reads = [](const auto n_reads) { return n_reads > 0; };
     OTUs[OTU_id].spread = static_cast<unsigned int>(std::ranges::count_if(OTUs[OTU_id].samples, has_reads));
   }
-  std::cout << "done" << std::endl;
+  std::cout << "done\n";
 }

src/search_parent.cpp

@@ -193,7 +193,7 @@ auto search_parent (std::unordered_map<std::string, struct OTU> &OTUs,
     // read-only)
     test_parents(OTUs, OTUs[OTU_id], OTU_id, parameters, log_file);
   }
-  std::cout << "done" << std::endl;
+  std::cout << "done\n";
 }
 
 

src/sort_matches.cpp

@@ -39,5 +39,5 @@ auto sort_matches (std::unordered_map<std::string, struct OTU> &OTUs) -> void {
 
     std::ranges::sort(OTUs[OTU_id].matches, std::ranges::greater{});
   }
-  std::cout << "done" << std::endl;
+  std::cout << "done\n";
 }