1

我的代码有问题，我不明白。有人可以帮忙吗？

$query="AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC";
$seq=chunk_split($query,50,"<br />");
$truecol = "<span style=\"color: hsl(0,100%,25%);\">";
function colorSequence ($seq,$position,$truecol,$TFBSlength){
    $nucleotides = str_split($seq);
    foreach ($nucleotides as $index => $nucl){
        if ($index == $position){
            echo $truecol;
        }
        if ($index == $position + $TFBSlength){
            echo "</span>";
        }

        echo $nucl;
    }
    echo "\n";
}
colorSequence($seq,49,$truecol,1);
?>

这是我的代码。基本上我希望输出代码看起来像这样： AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA(red)A(/red) AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC

当我运行该函数时它确实如此 colorSequence($seq,49,$truecol,1); 但是如果我运行 colorSequence($seq,49,$truecol,3);我得到这个：（ AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA< span="">r />AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC<>来自字母 49 的所有字母都是红色的，即使我只希望从 49 到 51 的 3 个字母是红色的）。

谁能解决这个问题？

4

4 回答 4

2 
$query="AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC";
$seq=chunk_split($query,50,'');
$truecol = "<span style=\"color: hsl(0,100%,25%);\">";
function colorSequence ($seq,$position,$truecol,$TFBSlength){
    $nucleotides = str_split($seq);
    foreach ($nucleotides as $index => $nucl){
        if ($index == $position){
            echo $truecol;
        }
        if ($index == $position + $TFBSlength){
            echo "</span>";
        }
        if(($index%50)==0){
            echo '<br>';
        }

        echo $nucl;
    }
    echo "\n";
}
colorSequence($seq,49,$truecol,1);
echo '<hr>';
colorSequence($seq,49,$truecol,3)
于 2012-05-04T10:00:34.130 回答
2

如果你print_r($nucleotides)，你会看到

Array
(
    ......
    [49] => A
    [50] => <
    [51] => b
    [52] => r
    [53] =>  
    ......
)

所以你要插入<span>破坏<br />以下html的...

于 2012-05-04T09:42:11.717 回答
1

您的函数添加的 span 标签会破坏由chunk_split.

于 2012-05-04T09:34:45.263 回答
0

当您修改 DNS 字符串$query时，您需要区分核苷酸的位置和一般字符串偏移量。

虽然起初两者是相同的，但添加到字符串中的越多，差异就越大。

如果您将字符串封装到它自己的对象中，该对象负责处理 HTML 标签并且不计算它们（包括标签周围的空格），事情就变得容易了：

$query = "AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC";

// wrap line: 11 lines à 50 nucleotids
$seq = chunk_split($query, 50, "<br />\n");

// get help from sequence object
$sequence = new AmendSequence($seq);

// some HTML comments for demonstration purposes
$sequence->insertAt(0, "<!-- first line -->\n");
$sequence->insertAt(50, "<!-- second line -->\n", TRUE); # TRUE: Place after <br />
$sequence->insertAt(75, "<!-- inside second line -->");
$sequence->insertAt(550, "<!-- at end -->", TRUE); # TRUE: Place after <br />

// colorize
$color = '<span style="color: hsl(0,100%,25%);">';
$sequence->insertAt(49, $color);
$sequence->insertAt(50, '</span>');

printf("Sequence with %d nucleotids:\n", count($sequence)); # count gives length w/o amends
echo $sequence, "\n"; # that prints your sequence with all amends

这将创建以下输出：

Sequence with 550 nucleotids:
<!-- first line -->
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA<span style="color: hsl(0,100%,25%);">A</span><br />
<!-- second line -->
AAAAAAAAAAAAAAAAAAAAAAAAA<!-- inside second line -->AAAAAAAAAAAAAAAAAAAAAAAAA<br />
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA<br />
AAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB<br />
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB<br />
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB<br />
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCC<br />
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC<br />
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC<br />
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC<br />
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC<br />
<!-- at end -->

所以这里真正的魔法是insertAt接受核苷酸的偏移位置并为其计算字符串偏移的方法。这一切都封装在一个它自己的类中，这对于开始可能有点过多，但真正的动作是将包含 DNA 和 HTML 的字符串划分为仅 DNS 的段并获取它们的实际字符串偏移量。完整的源代码：

<?php
/**
 * @link http://stackoverflow.com/questions/10446162/how-to-wordwrap-with-different-length-string-modification
 */

/**
 * Treat text with "tags" as text without tags when insertAt() is called.
 */
class AmendSequence implements IteratorAggregate, Countable
{
    /**
     * regex pattern for a tag
     */
    const TAG = '\s*<[^>]*>\s*';

    /**
     * @var string
     */
    private $query;

    /**
     * @param string $query
     */
    public function __construct($query = '')
    {
        $this->setQuery($query);
    }

    /**
     * @param int $offset
     * @param string $string
     * @param bool $after (optional) prefer after next tag instead before
     */
    public function insertAt($offset, $string, $after = FALSE)
    {
        $offset = $this->translate($offset, $after);
        $this->query = substr_replace($this->query, $string, $offset, 0);
    }

    /**
     * Translate virtual offset to string offset
     * @param int $virtualOffset
     * @return int
     * @throws InvalidArgumentException
     */
    public function translate($virtualOffset, $after)
    {
        if ($virtualOffset < 0) throw new InvalidArgumentException(sprintf('Offset can not be lower than 0, is %d.', $virtualOffset));
        $virtualCurrent = 0;
        foreach ($this as $segment) {
            list(, $current, $length) = $segment;
            $delta = ($virtualOffset - $virtualCurrent) - $length;
            if ($delta < 0 || ($delta === 0 && !$after)) {
                return $current + $length + $delta;
            }
            $virtualCurrent += $length;
        }
        if ($virtualCurrent === $virtualOffset && $after) {
            return strlen($this->query);
        }
        throw new InvalidArgumentException(sprintf('Offset can not be larger than %d, is %d.', $virtualCurrent, $virtualOffset));
    }

    /**
     * @return array
     */
    public function getSegments()
    {
        $segments = preg_split('/' . self::TAG . '/', $this->query, 0, PREG_SPLIT_OFFSET_CAPTURE | PREG_SPLIT_NO_EMPTY);
        foreach ($segments as &$segment) {
            $segment[2] = strlen($segment[0]);
        }
        return $segments;
    }

    public function getSequence()
    {
        $buffer = '';
        foreach ($this as $segment) {
            $buffer .= $segment[0];
        }
        return $buffer;
    }

    /**
     * @return string
     */
    public function getQuery()
    {
        return $this->query;
    }

    /**
     * @param string $query
     */
    public function setQuery($query)
    {
        $this->query = (string)$query;
    }

    /**
     * Retrieve an external iterator
     * @link http://php.net/manual/en/iteratoraggregate.getiterator.php
     * @return Traversable An instance of an object implementing <b>Iterator</b> or <b>Traversable</b>
     */
    public function getIterator()
    {
        return new ArrayIterator($this->getSegments());
    }


    /**
     * @link http://php.net/manual/en/countable.count.php
     * @return int The custom count as an integer.
     */
    public function count()
    {
        $length = 0;
        foreach ($this as $segment) {
            $length += $segment[2];
        }
        return $length;
    }

    /**
     * @return string
     */
    public function __toString()
    {
        return $this->query;
    }
}

$query = "AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAABBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC";

// wrap line: 11 lines à 50 nucleotids
$seq = chunk_split($query, 50, "<br />\n");

// get help from sequence object
$sequence = new AmendSequence($seq);

// some HTML comments for demonstration purposes
$sequence->insertAt(0, "<!-- first line -->\n");
$sequence->insertAt(50, "<!-- second line -->\n", TRUE); # TRUE: Place after <br />
$sequence->insertAt(75, "<!-- inside second line -->");
$sequence->insertAt(550, "<!-- at end -->", TRUE); # TRUE: Place after <br />

// colorize
$color = '<span style="color: hsl(0,100%,25%);">';
$sequence->insertAt(49, $color);
$sequence->insertAt(50, '</span>');

printf("Sequence with %d nucleotids:\n", count($sequence)); # count gives length w/o amends
echo $sequence, "\n"; # that prints your sequence with all amends

echo $sequence->getSequence(); # without the amends

现在随意对任意数量的部分进行着色 - 序列中是否已经有其他 HTML。

于 2012-05-04T13:15:13.810 回答