Wordpress Timeout - php

Question

I am a back end dev for a WordPress website: https://westtechshipping.com.
The admin side is where the majority of our time is spent. We deal with packages ordered by our customers and deliver them. I have a system put in place where you upload a .csv file and the PHP function reads the contents of the .csv, then updates the data into the database, then sends out an email to our clients.
Over time we realized that we cannot do a .csv upload with more than 30 entries because we would get errors like this one
I took this image from google images because I cannot recreate the error at the moment due to the time of this post, but the error is similar.
We also sometimes get a page that says this
We've tried many things and are not sure what the issue is. These hiccups cause our data to be uploaded twice and multiple emails to be sent out to each client.
We have spoken to our server hosting, go daddy, and followed their recommendations of editing our user.ini accordingly.
This are our PHP settings from our user.ini
If this is an issue with the code, below is the current code for our .csv upload feature.
if(isset($_POST["submitcsv"])) // Upload Package Amount CSV File
{
$file = $_FILES['file']['tmp_name'];
$handle = fopen($file, "r");
$c = 0;
$c2 = 0;
$row = 1;
while(($filesop = fgetcsv($handle, 1000, ",")) !== false)// What?
{
$Name = $filesop[0];
$AccID = $filesop[1];
$Freight = $filesop[2];
$Handling = $filesop[3];
$Consolidation = $filesop[4];
$Duty = $filesop[5];
$VTax = $filesop[6];
$Delivery = $filesop[7];
$Insurance = $filesop[8];
$Amount = $filesop[9];
$Statuscsv = $filesop[10];
$Pickup = $filesop[11];
$trackingnumber =$filesop[12];
if($row == 1) { $row++; continue;}
$num = count($filesop);
//Separating First name
$First_Name = substr($Name,0,strrpos($Name,' '));
if(strrpos($Name, ' ')!== false){
$First_Name = $First_Name;
}else{
$First_Name = $Name;
}
//Getting rid of blank costs
if(empty($Freight)){$Freight = "0";}
if(empty($Handling) ){$Handling = "0";}
if(empty($Consolidation)){$Consolidation = "0";}
if(empty($Duty) ){$Duty = "0";}
if(empty($VTax) ){$VTax = "0";}
if(empty($Delivery)){$Delivery = "0";}
if(empty($Insurance)){$Insurance = "0";}
if(empty($Amount)){$Amount = "0";}
//$pkg = get_packages_query($trackingnumber);
//$pkginv = get_invoices_by_trackingid($trackingnumber);
$userID = explode('WT100',$AccID);
$userdata = get_userdata( $userID[1] );
$site_name = get_bloginfo('name');
$messageinv = " <style>
#media screen (max-width:768px) { /* smartphones, iPhone, portrait 480x320 phones */
#packagetable{
margin-left:20px;
}
}
</style>
<div style='font-size:15px;'>
<strong> Dear ".$First_Name."</strong>, <br><br>
".$site_name." has a package available for you. You can come in to collect during our working hours of Monday- Friday 8AM to 5PM and Saturdays 9AM to 1PM.
</div>
<br><br>
<table id='packagetable' style='border:1px solid #8EAADB; margin-left:150px;'>
<tr class ='invhead' style='background-color:#4472C4; color:white;'>
<th>Charges</th>
<th>Amount (EC)</th>
</tr>
<tr class ='2ndtr' >
<td > Tracking Number </td>
<td> ".$trackingnumber."</td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Shipping Charge: </td>
<td> $".$Freight." </td>
</tr>
<tr class ='2ndtr' >
<td > Duty Charge: </td>
<td> $".$Duty."</td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Handling Fee: </td>
<td> $".$Handling." </td>
</tr>
<tr class ='2ndtr' >
<td > Consolidation Fee: </td>
<td> $".$Consolidation." </td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Delivery Fee: </td>
<td> $".$Delivery." </td>
</tr>
<tr class ='2ndtr' >
<td > <strong>Total Amount: </strong> </td>
<td><strong>$".$Amount."</strong> </td>
</tr>
</table>
<div>
<br><br>
Thanks for using our service! We appreciate it.
<br><br>
Regards,<br>
".$site_name."
<br>______________________________________________________<br><br>
<strong>Call Us</strong><br><br>
<strong>Rodney Bay</strong>: 458-9378 <strong>Castries</strong>: 451-9378 <strong>Vieux Fort</strong>: 454-9378
</div>
";
$messageinvadmin .=
" <style>
#media screen (max-width:768px) { /* smartphones, iPhone, portrait 480x320 phones */
#packagetable{
margin-left:20px;
}
}
</style>
<div><strong>".$Name."</strong> with email address ".$userdata->data->user_email.", had an invoice update. <br><br>
View the changes below
</div>
<br><br>
<table id='packagetable' style='border:1px solid #8EAADB; margin-left:150px;'>
<tr class ='invhead' style='background-color:#4472C4; color:white;'>
<th>Charges</th>
<th>Amount (EC)</th>
</tr>
<tr class ='2ndtr' >
<td > Tracking Number </td>
<td> ".$trackingnumber."</td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Shipping Charge: </td>
<td> $".$Freight." </td>
</tr>
<tr class ='2ndtr' >
<td > Duty Charge: </td>
<td> $".$Duty."</td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Handling Fee: </td>
<td> $".$Handling." </td>
</tr>
<tr class ='2ndtr' >
<td > Consolidation Fee: </td>
<td> $".$Consolidation." </td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Delivery Fee: </td>
<td> $".$Delivery." </td>
</tr>
<tr class ='2ndtr' >
<td > <strong>Total Amount: </strong> </td>
<td><strong>$".$Amount."</strong> </td>
</tr>
<tr class ='1str' style='background-color:#D9E2F3; '>
<td > Delivery Fee: </td>
<td> $".$Delivery." </td>
</tr>
</table>
_______________________________________________________
<br><br>
";
$closing = "Regards,<br>
".$site_name."
<br>______________________________________________________<br><br>
<strong>Call Us</strong><br><br>
<strong>Rodney Bay</strong>: 458-9378 <strong>Castries</strong>: 451-9378 <strong>Vieux Fort</strong>: 454-9378
</div>
";
$invtotalsql = mysql_fetch_assoc(mysql_query("SELECT invoice_total_charges FROM wp_xq4w067xaq_customer_invoice WHERE invoice_tracking_number = '$trackingnumber'"));
$packstatsql = mysql_fetch_assoc(mysql_query("SELECT pms_status FROM wp_xq4w067xaq_package WHERE tracking_id = '$trackingnumber'"));
if($Statuscsv == "Collected & Paid"){
$Statuscsv = 5;
}if($Statuscsv == "Available for Pick-Up"){
$Statuscsv = 4;
}if($Statuscsv == "Pending Invoice"){
$Statuscsv = 3;
}if($Statuscsv == "Paid"){
$Statuscsv = 7;
}if($Statuscsv == "Collected"){
$Statuscsv = 9;
}if($Statuscsv == "Shipped"){
$Statuscsv = 2;
}if($Statuscsv == "Received"){
$Statuscsv = 1;
}
if($invtotalsql['invoice_total_charges'] !== $Amount OR $packstatsql['pms_status'] !== $Statuscsv){
send_email_pkg2($userdata->data->user_email, $messageinv, $site_name. ' Package Amount Update',$userdata->user_email_2,$userdata->user_email_3);
//send_email_pkg("shipping#westtg.com", $messageinvadmin, $site_name. "Package Amount update");
//send_email_pkg("5sp4lr9#gmail.com", $messageinvadmin, $site_name. "Invoices");
//send_email_pkg("5sp4lr9#gmail.com", $message3, $site_name. "Minimum Invoices");
}
$sql = "UPDATE wp_xq4w067xaq_package SET pms_full_name='$Name',pms_status='$Statuscsv',pms_amount_owned='$Amount',pms_pickup='$Pickup' WHERE tracking_id='$trackingnumber'";
mysql_query($sql);
$c = $c + 1; // count number of package info updated
$sql2 = "UPDATE wp_xq4w067xaq_customer_invoice SET invoice_shipping_charge='$Freight',invoice_handling_fee='$Handling',invoice_consolidation_fee='$Consolidation',invoice_duty_charge='$Duty',invoice_added_tax='$Vtax',invoice_delivery_fee='$Delivery',invoice_insurance='$Insurance',invoice_total_charges='$Amount' WHERE invoice_tracking_number='$trackingnumber'";
mysql_query($sql2);
$c2 = $c2 + 1; // count number of invoices updated
//update_invoice2();
}
$finaladmin = $messageinvadmin.$closing;
send_email_pkg("shipping#westtg.com", $finaladmin, $site_name. "Package Amount update");
// Success OR Error Message
if($sql AND $sql2){
echo "Your database has imported successfully. You have inserted ". $c ." records in packages and ".$c2." records in invoices";
}else{
echo "Sorry! There is some problem.";
}
}