[RESOLVED] string handling

imnu

I need help with a small project involving string handling. I have data (protein sequence) in a plain text file like this example. A, B, C and D are names. The name list could be very long (A - Z, ...) and each name is unique and could contain mulitple letters. Each name is followed by space(s) and a string. My objective is to join the strings with the same name together, resulting in a single new line for each name. Take A for example, the result should be: A kldie1243kfhj9jjfklkjhgsd. After that, I need exam if all lines (A, B, C and D) reach the same target length. If not, an * and certain numbe of ? (question mark) are added to the end of the line.

Thanks for your attention.

A kldie1243
B jgkfdk3k09d
C khgopoeoprd
D ljkgho0ja8

A kfhj9jjfk
B lkgkgd947dfs
C okvhlasdf9kl
D lakdfadkl

A lkjhgsd
B lkjlkdsf
C asdfgf
D asdfhetrhsr

Drakla

Use file to get the results into an array

loop through the array with foreach and trim it - if the line isn't blank then explode on space

As you go along use the first argument of the array returned from explode as the key to a second array you're creating and add (by concatenation) the second argument returned from explode.

You will end up with an array like
array (
A => 09ie0g2he0g920e9g,
B => 0a0909ha090e9g0
C => 909h3g092309gh
)

Then go through that and check the length with strlen

imnu

Hi, Drakla,

Thanks a lot. I will give a try. Will let you know how I did or if I have more questions. Have a nice day.

imnu

Hi, Drakla,

I am having difficulty of getting the logic working for me. Could you be more specific? Apologize for my stupidity.

imnu

Here is what I have. Don't know how to put the strings back in the array. Need help. The text file is attached.

$file = 'infile-1.txt'; //the file contains the sequence

if ($result = @file ($file)) { // Read the file into an array.

// If it read the file, print the form.
//echo '<table border="0" width="80%" cellspacing="4" cellpadding="4" align="center">';

foreach ($result as $key => $array) { // Use an array to print out each line.

	if ($key != 0) { // Don't print the first line.
		$line = trim($array); //trim the white spaces at beginning and end of each line
		if ($line!=""){ //if the line is not blank after trimming
		$second_array = explode (" ", $array); // Turn each line of the array into its own array.
		$name = $second_array[0]; // The first item is the name.
		$seq = $second_array[6]; // The second item is the sequence part without the space and number at the end.

}
	}
}


} else { // If it couldn't open the file, print an error message.
	echo "Could not open the file $file! Please make sure the file name is correct.<br></br>";
}

imnu

I think I got the most part working. Need to test the length and add * and ? to make up the length.

$file = 'infile-1.txt'; // Identify the file based upon which week it is.

if ($result = @file ($file)) { // Read the file into an array.

// If it read the file, print the form.
//echo '<table border="0" width="80%" cellspacing="4" cellpadding="4" align="center">';
	$newarray = array();
foreach ($result as $key => $array) { // Use an array to print out each line.

	if ($key != 0) { // Don't print the first line.
		$line = trim($array); //trim the white spaces at beginning and end of each line
		if ($line!=""){ //if the line is not blank after trimming
		$second_array = explode (" ", $array); // Turn each line of the array into its own array.
		$name = $second_array[0]; // The first item is the name.
		$seq = $second_array[6]; // The second item is the sequence part without the space and number at the end.
		foreach ($newarray as $k => $v){
		if ($name==$k){
		$seq = $v."".$seq;
					}
					}
					$newarray[$name] = $seq;
}
	}
}
echo '<pre>';

print_r($newarray);

echo '</pre>';

} else { // If it couldn't open the file, print an error message.
	echo "Could not open the file $file! Please make sure the file name is correct.<br></br>";
}