My guess would be that the parser is trying to fail gracefully on an out of memory condition - it "forgets" part of the stream then is confused when it hits an unmatched closing tag.
But that's just a guess. Could also be about crossing the dread 2GB file size threshold. It's almost certainly about largeness, though. Brian On Wed, Mar 31, 2010 at 6:38 AM, dctrud <[email protected]> wrote: > All, > > I'm having trouble with PepXMLViewer.cgi (4.3.1) on some very > large .pep.xml files. The cgi will exit with the error: > > error with spreadsheet printing: XML parsing error: not well-formed > (invalid token), at xml file line 6298020, column 17 > > This is for an export to Excel, but similar errors will also occur > when filtering the dataset in the web interface. > > I've checked that the interact.pep.xml file is well formed with a > python script that uses expat to parse it (as per the cgi), and there > are no problems. Line 6298020 is the following end tag, which isn't an > invalid token: > > </modification_info> > > I've also checked that none of the protein descriptions in the file > contain < > " characters which could mess up the parsing earlier. Am > now out of ideas of what could be the cause, and wondering if anyone > has seen this problem, or has any ideas? > > Many Thanks, > > DT > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to [email protected]. > To unsubscribe from this group, send email to > [email protected]<spctools-discuss%[email protected]> > . > For more options, visit this group at > http://groups.google.com/group/spctools-discuss?hl=en. > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
