/* @Test
public void searchContentTest() throws IOException {
System.out.println("Search");
textbuddy.searchContent("textfile.txt");
}*/
public boolean testIfFilesAreTheSame(File file1, File file2) {
BufferedReader file1Reader = null;
BufferedReader file2Reader = null;
boolean equals = true;
;
try {
file1Reader = new BufferedReader(new FileReader(file1));
file2Reader = new BufferedReader(new FileReader(file2));
String linefromfile1;
String linefromfile2;
while (((linefromfile1 = file1Reader.readLine()) != null)
&& ((linefromfile2 = file2Reader.readLine()) != null)) {
if (!linefromfile1.equals(linefromfile2)) {
equals = false;
break;
}
}
} catch (IOException e) {
e.printStackTrace();
} finally {
try {
file1Reader.close();
file2Reader.close();
} catch (IOException e) {
e.printStackTrace();
}
}
return equals;
}
// @Test
public void validateDoubfulRanks() {
try {
BufferedReader bufferedReader =
new BufferedReader(
new FileReader(new File("/home/alext/Downloads/NCBI/taxdump/nodes.dmp")));
String line;
while ((line = bufferedReader.readLine()) != null) {
String[] split = line.split("\t\\|\t");
if (split[2].equals("forma")) {
System.out.println(line);
// break;
}
}
bufferedReader.close();
} catch (FileNotFoundException e) {
e
.printStackTrace(); // To change body of catch statement use File | Settings | File
// Templates.
} catch (IOException e) {
e
.printStackTrace(); // To change body of catch statement use File | Settings | File
// Templates.
}
}
public List<String> linesThat(Matcher<? super String> matcher) {
try {
BufferedReader reader = new BufferedReader(new FileReader(this));
try {
List<String> lines = new ArrayList<String>();
String line;
while ((line = reader.readLine()) != null) {
if (matcher.matches(line)) {
lines.add(line);
}
}
return lines;
} finally {
reader.close();
}
} catch (IOException e) {
throw new RuntimeException(e);
}
}
@Test
public void testSave() {
List<String> values = new ArrayList<String>();
values.add("one");
values.add("two");
values.add("three");
String[] mutex = new String[] {"testArg", "testArg2"};
p.setProgramName("Test");
p.setProgramDescription("Test Program");
p.addArg("one", Arg.DataType.STRING, "");
p.getArg("one").setRestrictedValues(values);
p.addArg("two", Arg.DataType.INTEGER, "This is a test.");
p.addNamedArg("testArg", Arg.DataType.STRING, "", "test1", 't');
p.addNamedArg("testArg2", Arg.DataType.STRING, "", "three");
p.getArg("testArg2").setRestrictedValues(values);
p.addNamedArg("testArg3", Arg.DataType.STRING, "NamedDescrip", "one", 'c');
p.getArg("testArg3").setRestrictedValues(values);
p.addMutualExclusion(mutex);
p.setNamedArgToRequired("testArg3");
x.save(p, "./build/tmp/testSave.xml");
// read in xml file as string and test against known string
String actualXMLOutput = "";
String expectedXLMOutput =
"<?xml version=\"1.0\" encoding=\"UTF-8\" standalone=\"no\"?><arguments> <programname>Test</programname> <programdescription>Test Program</programdescription> <mutualexclusion>testArg, testArg2</mutualexclusion><positional> <position>1</position> <name>one</name> <type>string</type> <restrictedvalues>one, two, three</restrictedvalues></positional><positional> <position>2</position> <name>two</name> <type>integer</type> <description>This is a test.</description></positional><named> <name>testArg</name> <type>string</type> <shortname>t</shortname> <default>test1</default></named><named> <name>testArg2</name> <type>string</type> <restrictedvalues>one, two, three</restrictedvalues> <default>three</default></named><named> <name>testArg3</name> <type>string</type> <restrictedvalues>one, two, three</restrictedvalues> <description>NamedDescrip</description> <shortname>c</shortname> <required>true</required> <default>one</default></named></arguments>";
String currentLine = null;
try {
FileReader r = new FileReader("./build/tmp/testSave.xml");
BufferedReader b = new BufferedReader(r);
while ((currentLine = b.readLine()) != null) actualXMLOutput += currentLine;
b.close();
} catch (Exception e) {
e.printStackTrace();
}
assertEquals(expectedXLMOutput, actualXMLOutput);
}