Possible bug in the extraction of clinical concepts

[JuanitoElMoreno]

I am trying to extract the concepts that are in this sentence:

"The patien underwent a CT scan in April which did no reveal lesions in his liver."

The rest server finds a single concept: liver.

Many more concepts are extracted from the ctakes documentation for the clinical pipeline. I have checked this with the runctakesCVD and this is indeed the case.

In summary: there are some concepts that the rest accounts server does not recognize.

Many more concepts are extracted from the ctakes documentation for the clinical pipeline. This can be seen in the attached image.

[tmills]

Thanks for reporting. We're currently tracking this down -- the difference looks to be the way in which the newer cTAKES dictionary (based on 2021AA) was built compared to the one used to produce the cTAKES documentation (2016AB). I think the previous one gives more intuitive results so I'm trying to replicate that older dictionary style.

[JuanitoElMoreno]

Hello Tim, I am very gratefull for your interest in resolve this isue. I understand your explain about it. I am beginer in this matter, but if there is something that I can do for to help, you tell me. We are in conctact, Regards! El jue., 12 may. 2022 20:04, Tim Miller ***@***.***> escribió:

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Thanks for reporting. We're currently tracking this down -- the difference looks to be the way in which the newer cTAKES dictionary (based on 2021AA) was built compared to the one used to produce the cTAKES documentation (2016AB). I think the previous one gives more intuitive results so I'm trying to replicate that older dictionary style. — Reply to this email directly, view it on GitHub <#1 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADGXJFPUC2NIZKPGOUNXGD3VJVB4PANCNFSM5VXFEAPA> . You are receiving this because you authored the thread.Message ID: <Machine-Learning-for-Medical-Language/ctakes-rest-package/issues/1/1125280456 @github.com>

[tmills]

Thanks again for reporting this issue. The best we've been able to do is track it down to differences in the way the cTAKES dictionary creator GUI works now as compared to how different dictionary creator code worked back in 2016 when the previous dictionary was created. We are unfortunately unable to find that older code so I don't think this will go anywhere for a little bit.

[JuanitoElMoreno]

Ok Tim, I understand the problem. It's a shame not solution possible becuase the REST mode for use cTakes is the best mode for my. I hope in next versions of dictionary creator GUI of cTakes It will can have solution. Regards! El dom., 15 may. 2022 19:15, Tim Miller ***@***.***> escribió:

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Thanks again for reporting this issue. The best we've been able to do is track it down to differences in the way the cTAKES dictionary creator GUI works now as compared to how different dictionary creator code worked back in 2016 when the previous dictionary was created. We are unfortunately unable to find that older code so I don't think this will go anywhere for a little bit. — Reply to this email directly, view it on GitHub <#1 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADGXJFIZ5N4KQ4MQB55NFGDVKEWJ3ANCNFSM5VXFEAPA> . You are receiving this because you authored the thread.Message ID: <Machine-Learning-for-Medical-Language/ctakes-rest-package/issues/1/1126981206 @github.com>