Commit b0608696 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fixed style

parent f7e873b0
......@@ -66,7 +66,7 @@ object VcfToTsv extends ToolCommand {
opt[String]("list_separator") maxOccurs (1) action { (x, c) =>
c.copy(listSeparator = x)
} text ("Optional list separator. By default, lists are separated by a comma")
opt[Int]("max_decimals") maxOccurs(1) action { (x, c) =>
opt[Int]("max_decimals") maxOccurs (1) action { (x, c) =>
c.copy(maxDecimals = x)
} text ("Number of decimal places for numbers. Default is 2")
}
......@@ -101,7 +101,6 @@ object VcfToTsv extends ToolCommand {
buffer.toSet[String]
}
val sortedFields = sortFields(fields, samples.toList)
val writer = if (commandArgs.outputFile != null) new PrintStream(commandArgs.outputFile)
......@@ -164,7 +163,6 @@ object VcfToTsv extends ToolCommand {
new DecimalFormat(patternString)
}
/**
* This fields sorts fields, such that non-info and non-sample specific fields (e.g. general ones) are on front
* followed by info fields
......@@ -182,7 +180,7 @@ object VcfToTsv extends ToolCommand {
fields.toList.sortWith((a, b) => {
(fieldType(a), fieldType(b)) match {
case ('g','g') => {
case ('g', 'g') => {
val ai = defaultFields.indexOf(a)
val bi = defaultFields.indexOf(b)
if (bi < 0) true else ai <= bi
......
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