Thank you for this bug report. To properly diagnose the problem, we
need a short but complete example script to be able to reproduce
this bug ourselves. 

A proper reproducing script starts with <?php and ends with ?>,
is max. 10-20 lines long and does not require any external 
resources such as databases, etc. If the script requires a 
database to demonstrate the issue, please make sure it creates 
all necessary tables, stored procedures etc.

Please avoid embedding huge scripts into the report.

please submit a test case that doesnt require phpdoc to be pulled

This is about as short as I can get. I can't work out how to get the xinclude 
working in this 
example, but that is not the issue. The warning that is generated is the issue. 
Only the code 
below is required - no PHPDoc or DocBook, etc.


<?php
file_put_contents('my.dtd', <<< END_DTD
<!ENTITY % db.common.attributes
  "xml:id ID #IMPLIED">
<!ENTITY % db.common.linking.attributes
  "xmlns:xi CDATA #FIXED 'http://www.w3.org/2001/XInclude'">
<!ELEMENT people_list (person*)>
<!ATTLIST people_list
  %db.common.attributes;
  %db.common.linking.attributes;>
<!ELEMENT person (name, birthdate?, gender?, socialsecuritynumber?)>
<!ATTLIST person
  %db.common.attributes;
  %db.common.linking.attributes;>
<!ELEMENT name (#PCDATA)>
<!ELEMENT birthdate (#PCDATA)>
<!ELEMENT gender (#PCDATA)>
<!ELEMENT socialsecuritynumber (#PCDATA)>
END_DTD
);

file_put_contents('my.xml', <<< END_XML
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE people_list SYSTEM "my.dtd">
<people_list xmlns:xi="http://www.w3.org/2001/XInclude">
  <person xml:id="fred">
    <name>Fred Bloggs</name>
    <birthdate>27/11/2008</birthdate>
    <gender>Male</gender>
  </person>
  <person xml:id="john">
    <name>John Bloggs</name>
    <gender>Male</gender>
    <!-- Include fred's birthdate -->
    <xi:include xpointer="xmlns(db=my.dtd) xpointer(id('fred')/db:birthdate)">
      <xi:fallback />
    </xi:include>
  </person>
</people_list>
END_XML
);

echo
  file_get_contents('my.dtd'), PHP_EOL, PHP_EOL,
  file_get_contents('my.xml'), PHP_EOL, PHP_EOL;

$doc = new DOMDocument();
$doc->load('my.xml', LIBXML_NOENT);
var_dump($doc->xinclude(LIBXML_NOWARNING));
var_dump($doc->validate());
$doc->save('final.xml');

echo PHP_EOL, file_get_contents('final.xml');

unlink('final.xml');
unlink('my.dtd');
unlink('my.xml');
?>

Other than the XML and the DTD, the output is ...

Warning: DOMDocument::xinclude(): XPointer evaluation failed: #xmlns(db=my.dtd) 
xpointer(id('fred')/db:birthdate) in Z:\testinc.php on line 49
int(-1)
bool(true)

The Warning is present, even though LIBXML_NOWARNING is present. I believe that 
the issue is 
that xinclude processing doesn't look at the same flags as the xml parser. But 
that's just a 
half-arsed guess at trying to read the c code of something I'm clearly not 
understanding 100%

Richard.

OOI, this code is using ...


PHP 5.3.3-RC1 (cli) (built: Jun 17 2010 22:43:29)
Copyright (c) 1997-2010 The PHP Group
Zend Engine v2.3.0, Copyright (c) 1998-2010 Zend Technologies

and

Extension [ <persistent> extension #23 libxml version <no_version> ] {

  - Constants [22] {
    Constant [ integer LIBXML_VERSION ] { 20707 }
    Constant [ string LIBXML_DOTTED_VERSION ] { 2.7.7 }
    Constant [ string LIBXML_LOADED_VERSION ] { 20707 }

Sorry, but your problem does not imply a bug in PHP itself.  For a
list of more appropriate places to ask for help using PHP, please
visit http://www.php.net/support.php as this bug system is not the
appropriate forum for asking support questions.  Due to the volume
of reports we can not explain in detail here why your report is not
a bug.  The support channels will be able to provide an explanation
for you.

Thank you for your interest in PHP.

the underlying xinclude code is not checking those options when issuing warnings 
so needs to be fixed on the libxml2 layer. You either need to surpress warnings 
for that call or use internal error handling so they are not directly issued to 
output/log.