Closed hfl112 closed 4 years ago
I tried to change the decode to 'ISO-8859-1', which can successfully get the xml of mcd file. But got an error in self._xml = et.fromstring(xml)
Traceback (most recent call last):
File "/Users/funanhe/opt/anaconda3/envs/imctools/lib/python3.6/site-packages/IPython/core/interactiveshell.py", line 3331, in run_code
exec(code_obj, self.user_global_ns, self.user_ns)
File "<ipython-input-72-49eb546902a5>", line 72, in retrieve_mcd_xml
self._xml = et.fromstring(xml)
File "/Users/funanhe/opt/anaconda3/envs/imctools/lib/python3.6/xml/etree/ElementTree.py", line 1315, in XML
return parser.close()
File "<string>", line unknown
ParseError: unclosed token: line 22, column 47786
Hi Funan, Sorry for not answering earlier - I somehow must have missed this one. Usually this error is an error with the MCD file - can you open the file e.g. on the instrument software and save it again? Does it open in the Fluidigm MCD viewer?
Hi Funan, Sorry for not answering earlier - I somehow must have missed this one. Usually this error is an error with the MCD file - can you open the file e.g. on the instrument software and save it again? Does it open in the Fluidigm MCD viewer?
Hi vito, I have solve this problem by loading into cytof software and saving it again, seems that missing some header file or xml information in previous ones. Thank you anyway
Hi, Recently I got an error here. seems that something wrong in decoding mcd xml file? Any idea to fix this?
ERROR INFOMATION:
Thank you, Funan