[BUG]-diamond of parsering xml result

Chentao Yang Lv4
  2018-08-23 11:16:04 2018-08-23 11:16:04 Created   2023-10-25 11:56:14 2023-10-25 11:56:14 Updated      

ERROR

Parse error for this part of the blast XML document: Error on line 1042356: The entity name must immediately follow the ‘&’ in the entity reference.

When I use diamond replacing blast to search NR database, the result with xml format can’t be parsed by blast2GO. Aftering see this page, I got it soloved.

& and “&”

why use “&” to replace “&”?
when you type & in a markdown or html file, you will find it turning into & directly.
If you want type &, you need add a \ in front it, like: "\&".

<”xxx”> in line

If your xml has line contain "<word>" but that is not a xml format tag, so that there is no "<\word>" paried with it. then error occurs.

<in line

if there is <in line and > in somewhere behind in the same line,(for fasta format, that is very common), it also occur error.

  • Title: [BUG]-diamond of parsering xml result
  • Author: Chentao Yang
  • Created at : 2018-08-23 11:16:04
  • Updated at : 2023-10-25 11:56:14
  • Link: https://comery.github.io/2018/08/23/BUG-diamond-of-parsering-xml-result/
  • License: This work is licensed under CC BY-NC-SA 4.0.
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[BUG]-diamond of parsering xml result
  1. ERROR
  2. & and “&”
  3. <”xxx”> in line
  4. <in line