__decode.php

<?php
$decode_funcs = array(
    // сюда можно добавлять еще массивы для декодирования расшифрованные из других файлов
    '_888028985_' => array(
        0 => 'str_replace',
        1 => 'unlink',
        2 => 'preg_match',
        3 => 'mysql_connect',
        4 => 'mysql_error',
        5 => 'mysql_select_db',
        6 => 'mysql_error',
        7 => 'mysql_query',
        8 => 'mysql_query',
        9 => 'mysql_escape_string',
        10 => 'mysql_error',
        11 => 'mysql_fetch_assoc',
        12 => 'mysql_query',
        13 => 'mysql_escape_string',
        14 => 'mysql_error',
        15 => 'mysql_insert_id',
        16 => 'flush',
        17 => 'ob_flush',
        18 => 'flush',
        19 => 'flush',
        20 => 'ob_flush',
        21 => 'flush',
        22 => 'mysql_close',
        23 => 'preg_match',
        24 => 'rand',
        25 => 'str_replace',
        26 => 'preg_match_all',
        27 => 'file_exists',
        28 => 'trim',
        29 => 'strip_tags',
        30 => 'mysql_connect',
        31 => 'mysql_error',
        32 => 'mysql_select_db',
        33 => 'mysql_error',
        34 => 'mysql_query',
        35 => 'mysql_query',
        36 => 'mysql_escape_string',
        37 => 'mysql_error',
        38 => 'mysql_close',
        39 => 'mysql_fetch_assoc',
        40 => 'substr_count',
        41 => 'flush',
        42 => 'ob_flush',
        43 => 'flush',
        44 => 'trim',
        45 => 'preg_match',
        46 => 'trim',
        47 => 'preg_match',
        48 => 'preg_match',
        49 => 'preg_match_all',
        50 => 'preg_match_all',
        51 => 'preg_match',
        52 => 'trim',
        53 => 'preg_replace',
        54 => 'preg_replace',
        55 => 'preg_match',
        56 => 'time',
        57 => 'file_put_contents',
        58 => 'mysql_connect',
        59 => 'mysql_error',
        60 => 'mysql_select_db',
        61 => 'mysql_error',
        62 => 'mysql_query',
        63 => 'mysql_escape_string',
        64 => 'str_replace',
        65 => 'rand',
        66 => 'mysql_query',
        67 => 'mysql_error',
        68 => 'mysql_insert_id',
        69 => 'mysql_query',
        70 => 'mysql_fetch_array',
        71 => 'mysql_query',
        72 => 'mysql_insert_id',
        73 => 'mysql_query',
        74 => 'mysql_fetch_array',
        75 => 'mysql_query',
        76 => 'mysql_insert_id',
        77 => 'mysql_query',
        78 => 'mysql_query',
        79 => 'mysql_close',
        80 => 'flush',
        81 => 'ob_flush',
        82 => 'flush',
        83 => 'flush',
        84 => 'ob_flush',
        85 => 'flush',
    ),
);

$file_parse = $_SERVER['argv'][1];

$file_content = file_get_contents($file_parse);
$replace_from = array();
$replace_to = array();
foreach($decode_funcs as $global_key => $global_vals) {
    foreach ($global_vals as $global_val_key => $global_val_func) {
        $replace_from[] = '$GLOBALS[\''.$global_key.'\']['.$global_val_key.']';
        $replace_to[] = $global_val_func;
    }
}

$file_content = str_replace($replace_from, $replace_to, $file_content);
print $file_content . PHP_EOL;