Add a warning message about temp file size. Decrease the temp file doubling threshold to 850. (3b55bd45) · Commits · github_fork / Chromap

src/chromap.h

+8 −4

Original line number	Diff line number	Diff line
		@@ -458,9 +458,11 @@ void Chromap::MapSingleEndReads() {
		mappings_on_diff_ref_seqs,
		temp_mapping_file_handles);

		if (temp_mapping_file_handles.size() > 900
		&& temp_mapping_file_handles.size() % 10 == 1) // every 10 temp files, double the temp file size
		if (temp_mapping_file_handles.size() > 850
		&& temp_mapping_file_handles.size() % 10 == 1) { // every 10 temp files, double the temp file size
		max_num_mappings_in_mem <<= 1;
		std::cerr << "Used " << temp_mapping_file_handles.size() << "temp files. Double the temp file volume to " << max_num_mappings_in_mem << "\n" ;
		}
		num_mappings_in_mem = 0;
		}
		}
		@@ -1020,9 +1022,11 @@ void Chromap::MapPairedEndReads() {
		mapping_writer.OutputTempMappings(num_reference_sequences,
		mappings_on_diff_ref_seqs,
		temp_mapping_file_handles);
		if (temp_mapping_file_handles.size() > 900
		&& temp_mapping_file_handles.size() % 10 == 1) // every 10 temp files, double the temp file size
		if (temp_mapping_file_handles.size() > 850
		&& temp_mapping_file_handles.size() % 10 == 1) { // every 10 temp files, double the temp file size
		max_num_mappings_in_mem <<= 1;
		std::cerr << "Used " << temp_mapping_file_handles.size() << "temp files. Double the temp file volume to " << max_num_mappings_in_mem << "\n" ;
		}
		num_mappings_in_mem = 0;
		}
		} // end of omp task to handle output