diff --git a/src/main/java/CommandLineInterface.java b/src/main/java/CommandLineInterface.java index 5040a8c..add4116 100644 --- a/src/main/java/CommandLineInterface.java +++ b/src/main/java/CommandLineInterface.java @@ -96,7 +96,7 @@ public class CommandLineInterface { Integer[] populations; String outputFilename = line.getOptionValue("o"); Integer numWells = Integer.parseInt(line.getOptionValue("w")); - Double dropoutRate = Double.parseDouble(line.getOptionValue("err")); + Double dropoutRate = Double.parseDouble(line.getOptionValue("d")); if (line.hasOption("random")) { //Array holding values of minimum and maximum populations Integer[] min_max = Stream.of(line.getOptionValues("random")) @@ -367,7 +367,8 @@ public class CommandLineInterface { .hasArgs() .argName("number [number]...") .build(); - Option dropoutRate = Option.builder("err") //add this to plate options + Option dropoutRate = Option.builder("d") //add this to plate options + .longOpt("dropout-rate") .hasArg() .desc("The sequence dropout rate due to amplification error. (0.0 - 1.0)") .argName("rate")