broadwick.phylo

Class NewickTreeParserTest

java.lang.Object

broadwick.phylo.NewickTreeParserTest

public class NewickTreeParserTest
extends Object

Test cases for broadwick.phylo.NewickTreeParserTest class.

Field Summary

Fields

Modifier and Type	Field and Description
static org.junit.rules.TestRule	classWatchman
private static String	testFileName
org.junit.rules.TestRule	watchman

Constructor Summary

Constructors

Constructor and Description
NewickTreeParserTest()

Method Summary

Modifier and Type	Method and Description
private void	checkTree(Tree<PhyloNode,Edge<PhyloNode>> tree) Several of the methods here generate the same tree (using different optional braces etc in the Newick format), this method tests the outcomes.
private void	checkTreeWithBranchName(Tree<PhyloNode,Edge<PhyloNode>> tree)
private void	checkTreeWithNestedBranches(Tree<PhyloNode,Edge<PhyloNode>> tree)
private void	checkTreeWithNoBranchLengths(Tree<PhyloNode,Edge<PhyloNode>> tree)
private void	checkTreeWithOnlyRootNode(Tree<PhyloNode,Edge<PhyloNode>> tree)
private void	checkTreeWithWithBranchNamesWithoutBranchLengths(Tree<PhyloNode,Edge<PhyloNode>> tree)
void	setUp()
static void	setUpClass()
void	tearDown()
static void	tearDownClass()
void	testParse()
void	testParseWithArg()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

classWatchman

public static org.junit.rules.TestRule classWatchman

watchman

public org.junit.rules.TestRule watchman

testFileName

private static String testFileName

Constructor Detail

NewickTreeParserTest

public NewickTreeParserTest()

Method Detail

setUpClass

public static void setUpClass()

tearDownClass

public static void tearDownClass()

setUp

public void setUp()

tearDown

public void tearDown()

testParse

public void testParse()

testParseWithArg

public void testParseWithArg()

checkTree

private void checkTree(Tree<PhyloNode,Edge<PhyloNode>> tree)

Several of the methods here generate the same tree (using different optional braces etc in the Newick format), this method tests the outcomes.

Parameters:

tree -

checkTreeWithBranchName

private void checkTreeWithBranchName(Tree<PhyloNode,Edge<PhyloNode>> tree)

checkTreeWithOnlyRootNode

private void checkTreeWithOnlyRootNode(Tree<PhyloNode,Edge<PhyloNode>> tree)

checkTreeWithNoBranchLengths

private void checkTreeWithNoBranchLengths(Tree<PhyloNode,Edge<PhyloNode>> tree)

checkTreeWithWithBranchNamesWithoutBranchLengths

private void checkTreeWithWithBranchNamesWithoutBranchLengths(Tree<PhyloNode,Edge<PhyloNode>> tree)

checkTreeWithNestedBranches

private void checkTreeWithNestedBranches(Tree<PhyloNode,Edge<PhyloNode>> tree)