hide some cache-related options in the developmental options section (aaa0a809) · Commits · github_fork / Chromap

src/chromap_driver.cc

+6 −6

Original line number	Diff line number	Diff line
		@@ -77,13 +77,9 @@ void AddMappingOptions(cxxopts::Options &options) {
		cxxopts::value<double>(),
		"FLT")("t,num-threads", "# threads for mapping [1]",
		cxxopts::value<int>(), "INT")
		("cache-size", "number of cache entries [4000003]", cxxopts::value<int>(), "INT")
		("cache-update-param", "value used to control number of reads sampled [0.01]", cxxopts::value<double>(), "FLT")
		("debug-cache", "verbose output for debugging cache used in chromap")
		("frip-est-params", "coefficients used for frip est calculation, separated by semi-colons",
		cxxopts::value<std::string>(), "STR")
		("turn-off-num-uniq-cache-slots", "turn off the output of number of cache slots in summary file")
		("k-for-minhash", "number of values stored in each MinHash sketch [250]", cxxopts::value<int>(), "INT");
		("turn-off-num-uniq-cache-slots", "turn off the output of number of cache slots in summary file");
		}

		void AddInputOptions(cxxopts::Options &options) {
		@@ -155,7 +151,11 @@ void AddDevelopmentOptions(cxxopts::Options &options) {
		"INT")("allocate-multi-mappings", "Allocate multi-mappings")(
		"PAF", "Output mappings in PAF format (only for test)")(
		"skip-barcode-check",
		"Do not check whether too few barcodes are in the whitelist");
		"Do not check whether too few barcodes are in the whitelist")
		("cache-size", "number of cache entries [4000003]", cxxopts::value<int>(), "INT")
		("cache-update-param", "value used to control number of reads sampled [0.01]", cxxopts::value<double>(), "FLT")
		("debug-cache", "verbose output for debugging cache used in chromap")
		("k-for-minhash", "number of values stored in each MinHash sketch [250]", cxxopts::value<int>(), "INT");
		}

		void AddPeakOptions(cxxopts::Options &options) {

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