t[n] is undefined

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1

Hello Prodigy Support,

During ner.correct annotation, something went wrong. The error message seems to be:
TypeError: t[n] is undefined (as you can see on the image below). Am I doing something wrong ? Do you have an idea what it could be ?

image
image1342×1112 74.9 KB

Thank you in advance for your help,

Emilie

2

Hi! Could you share an example of the data you're using that caused this error? And which version of Prodigy are you running?

3

Hello Ines,

Thank you for your fast reply!

Here are more informations:

  • Prodigy version is 1.10.0
  • The model used to predict annotations is a model obtained with prodigy train ner recipe (spaCy version is 2.3)
  • The sentences to annotate come from a jsonl file. Here are two examples:

{"text":"The presence of activated caspase-6 and cleavage of caspase-6 substrates is indeed a hallmark of AD, HD and cerebral ischemia, and has been shown in a number of different animal models and patient brain tissue [18], [19], [20], [21], [22].","meta":{"source":"sentence 180072"}}

{"text":"Caspase-6 activity can be localized to the nucleus, which is commonly associated with cell death and the cleavage of nuclear substrates such as lamin A, whereas a cytoplasmic localization of active caspase-6 as it is the case in neurodegeneration does not result in immediate apoptosis [5], [21], [32].","meta":{"source":"sentence 180124"}}

It seems like this error came out several times but not always at the same annotation. I hope this is going to help. Do not hesitate if you need further information.

Thank you in advance for your help,

  • Emilie
4

Thanks! This all looks pretty standard :thinking: I saw you're still on v1.10.0, though – could you try upgrading to the latest version and see if it still happens? Maybe this is related to a problem that's already fixed.