Develop Reference

Prinitng matching information from 2 files in Java

I am trying to write a program that checks two files and prints the common contents from both the files.
Example of the file 1 content would be:
James 1
Cody 2
John 3
Example of the file 2 content would be:
1 Computer Science
2 Chemistry
3 Physics
So the final output printed on the console would be:
James Computer Science
Cody Chemistry
John Physics
Here is what I have so far in my code:
public class Filereader {
public static void main(String[] args) throws Exception {
File file = new File("file.txt");
File file2 = new File("file2.txt");
BufferedReader reader = new BufferedReader(new FileReader(file));
BufferedReader reader2 = new BufferedReader(new FileReader(file2));
String st, st2;
while ((st = reader.readLine()) != null) {
System.out.println(st);
}
while ((st2 = reader2.readLine()) != null) {
System.out.println(st2);
}
reader.close();
reader2.close();
}
}
I am having trouble in figuring out how to match the file contents, and print only the student name and their major by matching the student id in each of the file. Thanks for all the help.

You can use the other answers and make an object to every file, like tables in databases.
public class Person{
Long id;
String name;
//getters and setters
}
public class Course{
Long id;
String name;
//getters and setters
}
Them you have more control with your columns and it is simple to use.
Further you will use an ArrayList<Person> and an ArrayList<Course> and your relation can be a variable inside your objects like courseId in Person class or something else.
if(person.getcourseId() == course.getId()){
...
}
Them if the match is the first number of the files use person.getId() == course.getId().
Ps: Do not use split(" ") in your case, because you can have other objects with two values i.e 1 Computer Science.

What you want is to organize your text file data into map, then merge their data. This will work even if your data are mixed, not in order.
public class Filereader {
public static void main(String[] args) throws Exception {
File file = new File("file.txt");
File file2 = new File("file2.txt");
BufferedReader reader = new BufferedReader(new FileReader(file));
BufferedReader reader2 = new BufferedReader(new FileReader(file2));
String st, st2;
Map<Integer, String> nameMap = new LinkedHashMap<>();
Map<Integer, String> majorMap = new LinkedHashMap<>();
while ((st = reader.readLine()) != null) {
System.out.println(st);
String[] parts = st.split(" "); // Here you got ["James", "1"]
String name = parts[0];
Integer id = Integer.parseInt(parts[1]);
nameMap.put(id, name);
}
while ((st2 = reader2.readLine()) != null) {
System.out.println(st2);
String[] parts = st2.split(" ");
String name = parts[1];
Integer id = Integer.parseInt(parts[0]);
majorMap.put(id, name);
}
reader.close();
reader2.close();
// Combine and print
nameMap.keySet().stream().forEach(id -> {
System.out.println(nameMap.get(id) + " " + majorMap.get(id));
})
}
}

You should read these files at the same time in sequence. This is easy to accomplish with a single while statement.
while ((st = reader.readLine()) != null && (st2 = reader2.readLine()) != null) {
// print both st and st2
}
The way your code is written now, it reads one file at a time, printing data to the console from each individual file. If you want to meld the results together, you have to combine the output of the files in a single loop.
Given that the intention may also be that you have an odd-sized file in one batch but you do have numbers to correlate across, or the numbers may come in a nonsequential order, you may want to store these results into a data structure instead, like a List, since you know the specific index of each of these values and know where they should fit in.

Combining the NIO Files and Stream API, it's a little simpler:
public static void main(String[] args) throws Exception {
Map<String, List<String[]>> f1 = Files
.lines(Paths.get("file1"))
.map(line -> line.split(" "))
.collect(Collectors.groupingBy(arr -> arr[1]));
Map<String, List<String[]>> f2 = Files
.lines(Paths.get("file2"))
.map(line -> line.split(" "))
.collect(Collectors.groupingBy(arr -> arr[0]));
Stream.concat(f1.keySet().stream(), f2.keySet().stream())
.distinct()
.map(key -> f1.get(key).get(0)[0] + " " + f2.get(key).get(0)[1])
.forEach(System.out::println);
}
As can easily be noticed in the code, there are assumptions of valid data an of consistency between the two files. If this doesn't hold, you may need to first run a filter to exclude entries missing in either file:
Stream.concat(f1.keySet().stream(), f2.keySet().stream())
.filter(key -> f1.containsKey(key) && f2.containsKey(key))
.distinct()
...

If you change the order such that the number comes first in both files, you can read both files into a HashMap then create a Set of common keys. Then loop through the set of common keys and grab the associated value from each Hashmap to print:
My solution is verbose but I wrote it that way so that you can see exactly what's happening.
import java.util.Set;
import java.util.HashSet;
import java.util.Map;
import java.util.HashMap;
import java.io.File;
import java.util.Scanner;
class J {
public static Map<String, String> fileToMap(File file) throws Exception {
// TODO - Make sure the file exists before opening it
// Scans the input file
Scanner scanner = new Scanner(file);
// Create the map
Map<String, String> map = new HashMap<>();
String line;
String name;
String code;
String[] parts = new String[2];
// Scan line by line
while (scanner.hasNextLine()) {
// Get next line
line = scanner.nextLine();
// TODO - Make sure the string has at least 1 space
// Split line by index of first space found
parts = line.split(" ", line.indexOf(' ') - 1);
// Get the class code and string val
code = parts[0];
name = parts[1];
// Insert into map
map.put(code, name);
}
// Close input stream
scanner.close();
// Give the map back
return map;
}
public static Set<String> commonKeys(Map<String, String> nameMap,
Map<String, String> classMap) {
Set<String> commonSet = new HashSet<>();
// Get a set of keys for both maps
Set<String> nameSet = nameMap.keySet();
Set<String> classSet = classMap.keySet();
// Loop through one set
for (String key : nameSet) {
// Make sure the other set has it
if (classSet.contains(key)) {
commonSet.add(key);
}
}
return commonSet;
}
public static Map<String, String> joinByKey(Map<String, String> namesMap,
Map<String, String> classMap,
Set<String> commonKeys) {
Map<String, String> map = new HashMap<String, String>();
// Loop through common keys
for (String key : commonKeys) {
// TODO - check for nulls if get() returns nothing
// Fetch the associated value from each map
map.put(namesMap.get(key), classMap.get(key));
}
return map;
}
public static void main(String[] args) throws Exception {
// Surround in try catch
File names = new File("names.txt");
File classes = new File("classes.txt");
Map<String, String> nameMap = fileToMap(names);
Map<String, String> classMap = fileToMap(classes);
Set<String> commonKeys = commonKeys(nameMap, classMap);
Map<String, String> nameToClass = joinByKey(nameMap, classMap, commonKeys);
System.out.println(nameToClass);
}
}
names.txt
1 James
2 Cody
3 John
5 Max
classes.txt
1 Computer Science
2 Chemistry
3 Physics
4 Biology
Output:
{Cody=Chemistry, James=Computer, John=Physics}
Notes:
I added keys in classes.txt and names.txt that purposely did not match so you see that it does not come up in the output. That is because the key never makes it into the commonKeys set. So, they never get inserted into the joined map.
You can loop through the HashMap if you want my calling map.entrySet()

Reading a text file into multiple arrays in Java

I'm currently working on a program that reads in a preset text file and then manipulates the data in various ways. I've got the data manipulation to work with some dummy data but I still need to get the text file read in correctly.
The test file looks like this for 120 lines:
Aberdeen,Scotland,57,9,N,2,9,W,5:00,p.m. Adelaide,Australia,34,55,S,138,36,E,2:30,a.m. Algiers,Algeria,36,50,N,3,0,E,6:00,p.m.(etc etc)
So each of these needs to be read into its own array, in order String[] CityName,String[] Country,int[] LatDeg,int[] LatMin,String[] NorthSouth,int[] LongDeg,int LongMin,String[] EastWest,int[] Time.String[] AMPM
So the problem is that while I'm reasonably comfortable with buffered readers, designing this particular function has proven difficult. In fact, I've been drawing a blank for the past few hours. It seems like it would need multiple loops and counters but I can't figure out the precisely how.

I am assuming that you have one city per line type of file structure. If it is not, it will require a bit of tweaking in the following solution:
I will do the following way if I am more comfortable with BufferReader as you say:
List<List<String>> addresses = new ArrayList<List<String>>();
try(BufferedReader br = new BufferedReader(new FileReader(file))) {
for(String line; (line = br.readLine()) != null; ) {
addresses.add(line.split(","));
}
}
Later, let's say you want to retrieve the country information of say 'Adelaid', you can try the following:
for (List<String> cityInfo : addresses) {
if("Adelaid".equals(cityInfo.get(0)) {
country = cityInfo.get(1);
}
}

Instead of creating different arrays (like String[] CityName,String[] Country, etc.,), try using a Domain Object.
Here, you can have a Domain object or Custom class Location with attributes
public class Location
{
private String cityName;
private String country;
private String latDeg;
etc
getters();
setters();
}`
Then you can write a file reader, each line item in the file will be a Location. So result will have
Location[] locations;
or
List locations;`

To carry out this task I should think the first thing you want to do is establish how many lines of data actually exist within the data file. You say it is 120 lines but what if it happens that it will be more or less? We would want to know exactly what it is so as to properly initialize all our different Arrays. We can use a simple method to accomplish this, let's call it the getFileLinesCount() method which will ulitmately return a Integer value that would be the number of text lines the data file holds:
private int getFileLinesCount(final String filePath) {
int lines = 0;
try{
File file =new File(filePath);
if(file.exists()){
FileReader fr = new FileReader(file);
try (LineNumberReader lnr = new LineNumberReader(fr)) {
while (lnr.readLine() != null){ lines++; }
}
}
else {
throw new IllegalArgumentException("GetFileLinesCount() Method Error!\n"
+ "The supplied file path does not exist!\n(" + filePath + ")");
}
}
catch(IOException e){ e.printStackTrace(); }
return lines;
}
Place this method somewhere within your main class. Now you need to Declare and initialize all your Arrays:
String filePath = "C:\\My Files\\MyDataFile.txt";
int lines = getFileLinesCount(filePath);
String[] CityName = new String[lines];
String[] Country = new String[lines];
int[] LatDeg = new int[lines];
int[] LatMin = new int[lines];
String[] NorthSouth = new String[lines];
int[] LongDeg = new int[lines];
int[] LongMin = new int[lines];
String[] EastWest = new String[lines];
int[] Time = new int[lines];
String[] AMPM = new String[lines];
Now to fill up all those Arrays:
public static void main(String args[]) {
loadUpArrays();
// Do whatever you want to do
// with all those Arrays.....
}
private void loadUpArrays() {
// Read in the data file.
try (BufferedReader br = new BufferedReader(new FileReader(filePath))) {
String sCurrentLine;
int x = 0;
// Read in one line at a time and Fill the Arrays...
while ((sCurrentLine = br.readLine()) != null) {
// Split each line read into an array upon itself.
String[] fileLine = sCurrentLine.split(",");
// Fill our required Arrays...
CityName[x] = fileLine[0];
Country[x] = fileLine[1];
LatDeg[x] = Integer.parseInt(fileLine[2]);
LatMin[x] = Integer.parseInt(fileLine[3]);
NorthSouth[x] = fileLine[4];
LongDeg[x] = Integer.parseInt(fileLine[5]);
LongMin[x] = Integer.parseInt(fileLine[6]);
EastWest[x] = fileLine[7];
Time[x] = Integer.parseInt(fileLine[8]);
AMPM[x] = fileLine[9];
x++;
}
br.close();
}
catch (IOException ex) { ex.printStackTrace(); }
}
Now, I haven't tested this, I just quickly punched it out but I think you can get the jest of it.
EDIT:
As #Mad Physicist has so graciously pointed out within his comment below, a List can be used to eliminate the need to count file lines therefore eliminating the need to read the data file twice. All the file lines can be placed into the List and the number of valid file lines can be determined by the size of the List. Filling of your desired arrays can now also be achieved by iterating through the List elements and processing the data accordingly. Everything can be achieved with a single method we'll call fillArrays(). Your Arrays declaration will be a little different however:
String[] CityName;
String[] Country;
int[] LatDeg;
int[] LatMin;
String[] NorthSouth;
int[] LongDeg;
int[] LongMin;
String[] EastWest;
String[] Time;
String[] AMPM;
public static void main(String args[]) {
fillArrays("C:\\My Files\\MyDataFile.txt");
// Whatever you want to do with all
// those Arrays...
}
private void fillArrays(final String filePath) {
List<String> fileLinesList = new ArrayList<>();
try{
File file = new File(filePath);
if(file.exists()){
try (BufferedReader br = new BufferedReader(new FileReader(file))) {
String strg;
while((strg = br.readLine()) != null){
// Make sure there is no blank line. If not
// then add line to List.
if (!strg.equals("")) { fileLinesList.add(strg); }
}
br.close();
}
}
else {
throw new IllegalArgumentException("GetFileLinesCount() Method Error!\n"
+ "The supplied file path does not exist!\n(" + filePath + ")");
}
// Initialize all the Arrays...
int lines = fileLinesList.size();
CityName = new String[lines];
Country = new String[lines];
LatDeg = new int[lines];
LatMin = new int[lines];
NorthSouth = new String[lines];
LongDeg = new int[lines];
LongMin = new int[lines];
EastWest = new String[lines];
Time = new String[lines];
AMPM = new String[lines];
// Fill all the Arrays...
for (int i = 0; i < fileLinesList.size(); i++) {
String[] lineArray = fileLinesList.get(i).split(",");
CityName[i] = lineArray[0];
Country[i] = lineArray[1];
LatDeg[i] = Integer.parseInt(lineArray[2]);
LatMin[i] = Integer.parseInt(lineArray[3]);
NorthSouth[i] = lineArray[4];
LongDeg[i] = Integer.parseInt(lineArray[5]);
LongMin[i] = Integer.parseInt(lineArray[6]);
EastWest[i] = lineArray[7];
Time[i] = lineArray[8];
AMPM[i] = lineArray[9];
}
}
catch(IOException e){ e.printStackTrace(); }
}
On another note...your Time Array can not be Integer since in data, what is considered the time contains a colon (:) which is a alpha character therefore (in case you haven't noticed) I have changed its declaration to String[]

How do I update a file using an ArrayList, Java

I am writing a method that will take in some command line arguments, validate them and if valid will edit an airport's code. The airport name and it's code are stored in a CSV file. An example is "Belfast,BHD". The command line arguments are entered as follows, java editAirport EA BEL Belfast, "EA" is the 2letter code that makes the project know that I want to Edit the code for an Airport, "BEL" is the new code, and Belfast is the name of the Airport.
When I have checked through the cla's and validated them I read through the file and store them in an ArrayList as, "Belfast,BEL". Then I want to update the text file by removing the lines from the text file and dumping in the arraylist, but I cannot figure out how to do it. Can someone show me a way using simple code (no advanced java stuff) how this is possible.
Here is my program
import javax.swing.*;
import java.io.*;
import java.util.*;
import java.text.*;
public class editAirport
{
public static void main(String [] args)throws IOException
{
String pattern = "[A-Z]{3}";
String line, line1, line2;
String[] parts;
String[] parts1;
boolean found1 = false, found2 = false;
File file = new File("Airports.txt"); // I created the file using the examples in the outline
Scanner in = new Scanner(file);
Scanner in1 = new Scanner(file);
Scanner in2 = new Scanner(file);
String x = args[0], y = args[1], z = args[2];
//-------------- Validation -------------------------------
if(args.length != 3) // if user enters more or less than 3 CLA's didplay message
JOptionPane.showMessageDialog(null, "Usage: java editAirport EA AirportCode(3 letters) AirportName");
else if(!(file.exists())) // if "Airports.txt" doesn't exist end program
JOptionPane.showMessageDialog(null, "Airports.txt does not exist");
else // if everything is hunky dory
{
if(!(x.equals("EA"))) //if user doesn't enter EA an message will be displayed
JOptionPane.showMessageDialog(null, "Usage: java editAirport EA AirportCode(3 letters) AirportName");
else if(!(y.matches(pattern))) // If the code doesn't match the pattern a message will be dislayed
JOptionPane.showMessageDialog(null, "Airport Code is invalid");
while(in.hasNext())
{
line = in.nextLine();
parts = line.split(",");
if(y.equalsIgnoreCase(parts[1]))
found1 = true; //checking if Airport code already is in use
if(z.equalsIgnoreCase(parts[0]))
found2 = true; // checking if Airport name is in the file
}
if(found1)
JOptionPane.showMessageDialog(null, "Airport Code already exists, Enter a different one.");
else if(found2 = false)
JOptionPane.showMessageDialog(null, "Airport Name not found, Enter it again.");
else
/*
Creating the ArrayList to store the name,code.
1st while adds the names and coses to arraylist,
checks if the name of the airport that is being edited is in the line,
then it adds the new code onto the name.
sorting the arraylist.
2nd for/while is printing the arraylist into the file
*/
ArrayList<String> airport = new ArrayList<String>();
while(in1.hasNext()) // 1st while
{
line1 = in1.nextLine();
if(line1.contains(z))
{
parts1 = line1.split(",");
parts1[1] = y;
airport.add(parts1[0] + "," + parts1[1]);
}
else
airport.add(line1);
}
Collections.sort(airport); // sorts arraylist
FileWriter aFileWriter = new FileWriter(file, true);
PrintWriter output = new PrintWriter(aFileWriter);
for(int i = 0; i < airport.size();)
{
while(in2.hasNext()) // 2nd while
{
line2 = in2.nextLine();
line2 = airport.get(i);
output.println(line2);
i++;
}
}
output.close();
aFileWriter.close();
}
}
}
}
The Airports.txt file is this
Aberdeen,ABZ
Belfast City,BHD
Dublin,DUB
New York,JFK
Shannon,SNN
Venice,VCE

I think your problem may lie in the two lines:
line2 = in2.nextLine();
line2 = airport.get(i);
this will overwrite the 'line2' in memory, but not in the file.

Utilize scanners to fill object arraylist

I'm fairly new to programming and I recently wrote something to utilize a scanner class to fill an object array from a text file. Essentially, I can re-write this text file or add new info and won't have to change the code. I suppose my question is this: is there an easier/more preferred method to doing this? I'm trying to learn the coding nuances.
import java.io.*;
import java.util.*;
public class ImportTest {
public static void main(String[] args) throws IOException
{
Scanner s = null;
Scanner k = null;
ArrayList myList = new ArrayList<String>();
ArrayList myList2 = new ArrayList<String>();
ArrayList myList3 = new ArrayList<Student>();
try
{
s = new Scanner(new BufferedReader(new FileReader("testMe.txt")));
while (s.hasNext())
{
myList.add(s.nextLine());
}
}
finally
{
if (s != null)
{
s.close();
}
}
System.out.println("My List 1:");
for(int i=0; i<myList.size(); i++)
{
System.out.println(i+". "+myList.get(i));
}
for(int x=0; x<myList.size(); x++)
{
try
{
k = new Scanner(myList.get(x).toString());
while (k.hasNext())
{
myList2.add(k.next());
}
}
finally
{
if (k != null)
{
k.close();
}
}
String name;
int age;
double money;
name=myList2.get(0).toString();
age=Integer.parseInt(myList2.get(1).toString());
money=Double.parseDouble(myList2.get(2).toString());
Student myStudent=new Student(name, age, money);
myList3.add(myStudent);
myList2.clear();
}
System.out.println("Test of list object: ");
for(int i=0; i<myList3.size(); i++)
{
System.out.println(i+". "+myList3.get(i).toString());
}
}
}

I would read the file line by line and parse every line directly. This way you do not need 3 lists, 2 scanners and multiple iterations:
String line = "";
BufferedReader br = new BufferedReader(new FileReader("test.txt"));
ArrayList<Student> students = new ArrayList<Student>();
while( (line = br.readLine()) != null)
{
String[] tmp = line.split("\\s+"); //split line by spaces
//this needs bounds & error checking etc.
students.add(new Student(tmp[0], Integer.parseInt(tmp[1]), Double.parseDouble(tmp[2])));
}
In Java 7 you can use the new file functions to read all lines at once:
List<String> allLines = Files.readAllLines("test.txt", Charset.defaultCharset());
Do not forget to close the reader or use try-with-resources (since java 1.7)

Correct me if I am wrong, testMe.txt file contains Student information which are name, age, money, and you want read those values.
Best way to do it is you should serialize your Student objects into the the testMe.txt with the help of ObjectOutputStream. As well you can read those value using ObjectInputStream, so in this way you can able to get Student objects itself(no need to hnadle String).
In case you do want to serialize the data into file, you should store the data in some predefined format like as comma(,) or semi-colon(;) seperated.
For Example -
emp1, 24, 20000
emp emp2, 25, 24000
emp3, 26, 26000
In this case while reading the string you can split it with seperation character and get the actual information.
Code snippet:
List<Student> students = new ArrayList<Student>();
...
try(scanner = new Scanner(new BufferedReader(new FileReader("testMe.txt")))){
while (scanner.hasNext()){
String data[] = scanner.nextLine().split(",");
Student student = new Student(data[0],data[1],data[2]);
students.add(student);
}
}
Try-with-resource will automatically handle the resouce, you dont need to explicitly close it. This features available in java since 1.7.

Java : Resizing a multidimensional array

I have a multidimensional array built from Strings that is initially created with the size [50][50], this is too big and now the array is full of null values, I am currently trying to remove these said null values, I have managed to resize the array to [requiredSize][50] but cannot shrink it any further, could anyone help me with this? I have scoured the internet for such an answer but cannot find it.
Here is my complete code too (I realise there may be some very unclean parts in my code, I am yet to clean anything up)
import java.io.*;
import java.util.*;
public class FooBar
{
public static String[][] loadCSV()
{
FileInputStream inStream;
InputStreamReader inFile;
BufferedReader br;
String line;
int lineNum, tokNum, ii, jj;
String [][] CSV, TempArray, TempArray2;
lineNum = tokNum = ii = jj = 0;
TempArray = new String[50][50];
try
{
BufferedReader in = new BufferedReader(new InputStreamReader(System.in));
System.out.println("Please enter the file path of the CSV");
String fileName = in.readLine();
inStream = new FileInputStream(fileName);
inFile = new InputStreamReader(inStream);
br = new BufferedReader(inFile);
StringTokenizer tok,tok2;
lineNum = 0;
line = br.readLine();
tokNum = 0;
tok = new StringTokenizer(line, ",");
while( tok.hasMoreTokens())
{
TempArray[tokNum][0] = tok.nextToken();
tokNum++;
}
tokNum = 0;
lineNum++;
while( line != null)
{
line = br.readLine();
if (line != null)
{
tokNum = 0;
tok2 = new StringTokenizer(line, ",");
while(tok2.hasMoreTokens())
{
TempArray[tokNum][lineNum] = tok2.nextToken();
tokNum++;
}
}
lineNum++;
}
}
catch(IOException e)
{
System.out.println("Error file may not be accessible, check the path and try again");
}
CSV = new String[tokNum][50];
for (ii=0; ii<tokNum-1 ;ii++)
{
System.arraycopy(TempArray[ii],0,CSV[ii],0,TempArray[ii].length);
}
return CSV;
}
public static void main (String args[])
{
String [][] CSV;
CSV = loadCSV();
System.out.println(Arrays.deepToString(CSV));
}
}
The CSV file looks as follows
Height,Weight,Age,TER,Salary
163.9,46.8,37,72.6,53010.68
191.3,91.4,32,92.2,66068.51
166.5,51.1,27,77.6,42724.34
156.3,55.7,21,81.1,50531.91
It can take any size obviously but this is just a sample file.
I just need to resize the array so that it will not contain any null values.
I also understand a list would be a better option here but it is not possible due to outside constraints. It can only be an multi dimensional array.

I think you need 3 changes to your program
After your while loop lineNum will be 1 more than the number of lines in the file so instead of declaring CSV to String[tokNum][50] declare it as CSV = new String[tokNum][lineNum-1];
tokNum will be the number of fields in a row so your for loop condition should be ii<tokNum rather than ii<tokNum-1
The last parameter for your arraycopy should be lineNum-1
i.e. the modified code to build your CSV array is:
CSV = new String[tokNum][lineNum-1];
for (ii=0; ii<tokNum ;ii++)
{
System.arraycopy(TempArray[ii],0,CSV[ii],0,lineNum-1);
}
and the output will then be:
[[Height, 163.9, 191.3, 166.5, 156.3], [Weight, 46.8, 91.4, 51.1, 55.7],
[Age, 37, 32, 27, 21], [TER, 72.6, 92.2, 77.6, 81.1],
[Salary, 53010.68, 66068.51, 42724.34, 50531.91]]
Notice that you don't really need to handle the first line of the file separately from the others but that is something you can cover as part of your cleanup.

10 to 1 this is a homework assignment. However, it looks like you've put somethought into it.
Don't make the TempArray variable. Make a "List of List of Strings". Something like:
List<List<String>> rows = new ArrayList<ArrayList<String>>();
while(file.hasMoreRows()) { //not valid syntax...but you get the jist
String rowIText = file.nextRow(); //not valid syntax...but you get the jist
List<String> rowI = new ArrayList<String>();
//parse rowIText to build rowI --> this is your homework
rows.add(rowI);
}
//now build String[][] using fully constructed rows variable

Here's an observation and a suggestion.
Observation: Working with (multidimensional) arrays is difficult in Java.
Suggestion: Don't use arrays to represent complex data types in Java.
Create classes for your data. Create a List of people:
class Person {
String height; //should eventually be changed to a double probably
String weight; // "
//...
public Person( String height, String weight /*, ... */ ) {
this.height = height;
this.weight = weight;
//...
}
}
List<Person> people = new ArrayList<Person>();
String line;
while ( (line = reader.nextLine()) != null ) {
String[] records = line.split(",");
people.add(new Person (records[0], records[1] /*, ... */));
}