Error - ValueError: Parser model has not been loaded. about chexpert-labeler

[jirvin16]

Sorry that you're having trouble. Can you please share the output of this:
RerankingParser.fetch_and_load('GENIA+PubMed', verbose=True)

[njan-creative]

Please find the output below.

Model directory: /home/user/.local/share/bllipparser/GENIA+PubMed
Model directory already exists, not reinstalling

RerankingParser(unified_model_dir='/home/user/.local/share/bllipparser/GENIA+PubMed')

[jirvin16]

Could you share the entire output (with the full traceback)?

[njan-creative]

Traceback (most recent call last): File "label.py", line 53, in <module> label(parser.parse_args()) File "label.py", line 44, in label classifier.classify(loader.collection) File "/DATA/njan/medical/chexpert/chexpert-labeler/stages/classify.py", line 100, in classify self.parser.parse_doc(document) File "/home/user/.local/lib/python3.7/site-packages/negbio/pipeline/parse.py", line 55, in parse_doc tree = self.parse(text) File "/home/user/.local/lib/python3.7/site-packages/negbio/pipeline/parse.py", line 34, in parse nbest = self.rrp.parse(str(s)) File "/home/njan/anaconda3/envs/negbio3.7/lib/python3.7/site-packages/bllipparser/RerankingParser.py", line 614, in parse rerank = self.check_models_loaded_or_error(rerank) File "/home/njan/anaconda3/envs/negbio3.7/lib/python3.7/site-packages/bllipparser/RerankingParser.py", line 786, in check_models_loaded_or_error raise ValueError("Parser model has not been loaded.") ValueError: Parser model has not been loaded.

[njan-creative]

Traceback (most recent call last):
File "label.py", line 53, in
label(parser.parse_args())
File "label.py", line 44, in label
classifier.classify(loader.collection)
File "/DATA/njan/medical/chexpert/chexpert-labeler/stages/classify.py", line 100, in classify
self.parser.parse_doc(document)
File "/home/user/.local/lib/python3.7/site-packages/negbio/pipeline/parse.py", line 55, in parse_doc
tree = self.parse(text)
File "/home/user/.local/lib/python3.7/site-packages/negbio/pipeline/parse.py", line 34, in parse
nbest = self.rrp.parse(str(s))
File "/home/njan/anaconda3/envs/negbio3.7/lib/python3.7/site-packages/bllipparser/RerankingParser.py", line 614, in parse
rerank = self.check_models_loaded_or_error(rerank)
File "/home/njan/anaconda3/envs/negbio3.7/lib/python3.7/site-packages/bllipparser/RerankingParser.py", line 786, in check_models_loaded_or_error
raise ValueError("Parser model has not been loaded.")
ValueError: Parser model has not been loaded.

[jirvin16]

Perhaps try uninstalling and reinstalling the parser?

The error being thrown is here, so you could try to debug by looking through that file (specifically starting with this method).