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Commit 4d74c658 authored by tjc's avatar tjc
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optimise and format 

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@2144 ee4ac58c-ac51-4696-9907-e4b3aa274f04
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uk/ac/sanger/artemis/util/StringVector.java
+ 147
− 115
View file @ 4d74c658
......@@ -20,13 +20,13 @@
* along with this program; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
*
* $Header: //tmp/pathsoft/artemis/uk/ac/sanger/artemis/util/StringVector.java,v 1.1 2004-06-09 09:53:11 tjc Exp $
* $Header: //tmp/pathsoft/artemis/uk/ac/sanger/artemis/util/StringVector.java,v 1.2 2004-12-20 15:18:57 tjc Exp $
*/
package uk.ac.sanger.artemis.util;
import java.util.Vector;
import java.util.StringTokenizer;
//import java.util.StringTokenizer;
import java.util.Collections;
import java.util.Collection;
import java.util.Comparator;
......@@ -35,105 +35,118 @@ import java.util.Comparator;
* This class implements a Vector of String objects.
*
* @author Kim Rutherford
* @version $Id: StringVector.java,v 1.1 2004-06-09 09:53:11 tjc Exp $
* @version $Id: StringVector.java,v 1.2 2004-12-20 15:18:57 tjc Exp $
**/
public class StringVector {
public class StringVector
{
/** Storage for String objects. */
private Vector vector;
/**
* Create a new vector of String objects.
**/
public StringVector () {
vector = new Vector ();
public StringVector()
{
vector = new Vector(2);
}
/**
* Create a new vector which contains the given Strings.
**/
public StringVector (final String [] new_strings) {
vector = new Vector ();
for (int i = 0 ; i < new_strings.length ; ++i) {
add (new_strings[i]);
}
public StringVector(final String[] new_strings)
{
int len = new_strings.length;
vector = new Vector(len);
for(int i = 0; i < len; ++i)
add(new_strings[i]);
}
/**
* Create a new vector which contains the given Strings.
**/
public StringVector (final StringVector new_strings) {
vector = new Vector ();
for (int i = 0 ; i < new_strings.size () ; ++i) {
add (new_strings.elementAt (i));
}
public StringVector(final StringVector new_strings)
{
int len = new_strings.size();
vector = new Vector(len);
for(int i = 0; i < len; ++i)
add(new_strings.elementAt (i));
}
/**
* Create a new vector which contains only the given String.
**/
public StringVector (final String new_string) {
vector = new Vector ();
add (new_string);
public StringVector(final String new_string)
{
vector = new Vector();
add(new_string);
}
/**
* Performs the same function as Vector.addElement ()
* Performs the same function as Vector.addElement()
**/
public void add (final String node) {
vector.addElement (node);
public void add(final String node)
{
vector.addElement(node);
}
/**
* Call add () on each of the String objects in the given StringVector.
* Call add() on each of the String objects in the given StringVector.
**/
public void add (final StringVector new_strings) {
for (int i = 0 ; i < new_strings.size () ; ++i) {
add (new_strings.elementAt (i));
}
public void add(final StringVector new_strings)
{
for (int i = 0; i < new_strings.size(); ++i)
add (new_strings.elementAt(i));
}
/**
* Performs the same function as Vector.removeElement ()
* Performs the same function as Vector.removeElement()
**/
public boolean remove (final String node) {
return vector.removeElement (node);
public boolean remove(final String node)
{
return vector.removeElement(node);
}
/**
* Return the elements of the Vector as an String array.
**/
public String [] getArray () {
final String [] return_array = new String [size ()];
vector.copyInto (return_array);
public String[] getArray()
{
final String[] return_array = new String[size()];
vector.copyInto(return_array);
return return_array;
}
/**
* Return the elements of the Vector as Collection.
**/
public Collection asCollection () {
return (Collection) vector.clone ();
public Collection asCollection()
{
return (Collection)vector.clone();
}
/**
* Performs the same function as Vector.elementAt ()
* Performs the same function as Vector.elementAt()
**/
public String elementAt (final int index) {
return (String) vector.elementAt (index);
public String elementAt(final int index)
{
return (String)vector.elementAt(index);
}
/**
* Performs the same function as Vector.setElementAt ()
**/
public void setElementAt (final String string, final int index) {
vector.setElementAt (string, index);
public void setElementAt(final String string, final int index)
{
vector.setElementAt(string, index);
}
/**
* Performs the same function as Vector.size ()
**/
public int size () {
return vector.size ();
public int size()
{
return vector.size();
}
/**
......@@ -142,72 +155,62 @@ public class StringVector {
* @return the index of the first occurrence of the argument in this
* vector; returns -1 if the object is not found.
**/
public int indexOf (final String string) {
return vector.indexOf (string);
public int indexOf(final String string)
{
return vector.indexOf(string);
}
/**
* Return true if this object contains the given String, testing for
* equality using the equals method.
**/
public boolean contains (final String string) {
if (indexOf (string) == -1) {
public boolean contains(final String string)
{
if(indexOf(string) == -1)
return false;
} else {
else
return true;
}
}
/**
* Sorts the elements of the vector using quicksort from the collections
* package.
*/
public void sort () {
final Comparator comparator =
new Comparator () {
public int compare (Object fst, Object snd) {
if (fst == null) {
if (snd == null) {
return 0;
} else {
return -1;
}
} else {
if (snd == null) {
return 1;
}
}
return ((String) fst).compareTo ((String) snd);
public void sort()
{
final Comparator comparator = new Comparator()
{
public int compare(Object fst, Object snd)
{
if(fst == null)
{
if(snd == null)
return 0;
else
return -1;
}
else
{
if(snd == null)
return 1;
}
};
return ((String)fst).compareTo((String) snd);
}
};
Collections.sort (vector, comparator);
Collections.sort(vector, comparator);
}
/**
* Return a new copy of this object.
**/
public StringVector copy () {
final StringVector new_string_vector = new StringVector ();
new_string_vector.vector = (Vector) vector.clone ();
public StringVector copy()
{
final StringVector new_string_vector = new StringVector(this);
// new_string_vector.vector = (Vector)vector.clone();
return new_string_vector;
}
/**
* Return a copy of this vector with all the Strings turned to lower case.
**/
public StringVector toLowerCase () {
final StringVector return_vector = new StringVector ();
for (int i = 0; i < size (); ++i) {
return_vector.add (elementAt (i).toLowerCase ());
}
return return_vector;
}
/**
* Return a StringVector containing the values of the given String after
* splitting using the given characters. If the argument String is zero
......@@ -219,33 +222,49 @@ public class StringVector {
* false then the split_characters will be treated as a block (and "foo"
* would be returned in the example.
**/
public static StringVector getStrings (final String argument,
final String split_characters,
final boolean keep_zero_char_tokens) {
final StringVector return_vector = new StringVector ();
final StringTokenizer tokeniser =
new StringTokenizer (argument, split_characters, true);
public static StringVector getStrings(final String argument,
String split_characters,
final boolean keep_zero_char_tokens)
{
final StringVector return_vector = new StringVector();
String last_value = null;
while (tokeniser.hasMoreTokens ()) {
final String value = tokeniser.nextToken ();
int ind1 = 0;
int ind2;
int argLen = argument.length();
String value;
while(ind1 < argLen)
{
ind2 = argument.indexOf(split_characters,ind1);
if(ind2 == ind1)
{
ind1++;
continue;
}
if(ind2 < 0)
ind2 = argLen;
value = argument.substring(ind1,ind2);
ind1 = ind2+1;
if (value.length () == 1 &&
split_characters.indexOf (value.charAt (0)) != -1) {
if(value.length() == 1 &&
split_characters.indexOf(value.charAt(0)) != -1)
{
// ignore the split characters
if (keep_zero_char_tokens &&
(last_value == null ||
last_value != null && last_value.length () == 1 &&
split_characters.indexOf (last_value) != -1)) {
if(keep_zero_char_tokens &&
(last_value == null ||
last_value != null && last_value.length () == 1 &&
split_characters.indexOf (last_value) != -1))
{
// we need to add a space because of two split_characters in a row
return_vector.add ("");
return_vector.add("");
}
} else {
return_vector.add (value);
}
}
else
return_vector.add(value);
last_value = value;
}
......@@ -259,9 +278,10 @@ public class StringVector {
* length or it consists only of the characters used to split, the return
* vector will be zero length.
**/
public static StringVector getStrings (final String argument,
final String split_characters) {
return getStrings (argument, split_characters, false);
public static StringVector getStrings(final String argument,
final String split_characters)
{
return getStrings(argument, split_characters, false);
}
/**
......@@ -271,12 +291,24 @@ public class StringVector {
* String is zero length or it consists only of whitespace, the return
* vector will be zero length.
**/
public static StringVector getStrings (final String argument) {
return getStrings (argument, " \t", false);
public static StringVector getStrings(final String argument)
{
return getStrings(argument, " ", false);
}
public static void main(String args[])
{
String argument = "a c g t c g c a t c g a c t c";
long startTime = System.currentTimeMillis();
for(int i=0; i<10000000; i++)
{
getStrings(argument, " ", true);
}
long endTime = System.currentTimeMillis();
System.out.println("TIME TAKEN "+ Long.toString(endTime-startTime));
}
/**
* Storage for String objects.
**/
private Vector vector;
}
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