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Posted to user@ctakes.apache.org by Prakhar Gaur <pr...@infosys.com> on 2017/12/07 07:26:50 UTC
Issue with Running Dictionary Creator GUI
Hello,
I want to use Dictionary Creator GUI to modify Snomed to limit the vocabularies etc.
According to documentation<https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI>,
"
Step 3
Select a UMLS installation directory. This is the directory containing the META/ subdirectory (which contains RRF files<https://www.nlm.nih.gov/research/umls/new_users/online_learning/Meta_006.html>).
After selecting the UMLS installation directory, the available vocabularies are gathered.
"
Where is this Meta folder,
I have searched
1. cTAKES installation folder
2. I downloaded the UMLS zip with the Metathesaurus and that also does not have this folder structure mentioned here
Can someone please help on getting this tool to work ?
Regards,
RE: Issue with Running Dictionary Creator GUI
Posted by Gandhi Rajan Natarajan <Ga...@arisglobal.com>.
Hi Prakhar,
I'm not sure what is exactly wrong here as I dint faced any such issues and I did this installation a while back.
I just checked my umls download file and its close to 4.44GB. It also contains mmsys.zip which in turn contains "release.dat" file
So I'm not sure whether your download is complete.
Regards,
Gandhi
From: Prakhar Gaur [mailto:prakhar.gaur@infosys.com]
Sent: Thursday, December 07, 2017 2:29 PM
To: user@ctakes.apache.org
Subject: RE: Issue with Running Dictionary Creator GUI
Hello Gandhi and Harish,
Thank you for the advice.
@Gandhi the UMLS installation document helped.
First I validated the downloads, they are fine.
Then I tried installing UMLS,
1. First was with source directory was the toplevel dir from UMLS zip
That gives an error that "release.dat file is missing from UMLS DVD directory"
2. I changed the source directory to mmsys,
That gives an error that "Metathesaurus flies are missing from UMLS DVD directory"
Please find the screen shots attached for both errors.
Do let me know what is going wrong here.
Regards,
From: Gandhi Rajan Natarajan [mailto:Gandhi.Natarajan@arisglobal.com]
Sent: Thursday, December 7, 2017 1:49 PM
To: user@ctakes.apache.org<ma...@ctakes.apache.org>
Subject: RE: Issue with Running Dictionary Creator GUI
Hi Prakhar,
I guess you may not have installed UMLS. Check out this link - https://www.nlm.nih.gov/research/umls/implementation_resources/metamorphosys/help.html that has more info on UMLS installation and the significance of META folder.
Regards,
Gandhi
From: Prakhar Gaur [mailto:prakhar.gaur@infosys.com]
Sent: Thursday, December 07, 2017 12:57 PM
To: user (user@ctakes.apache.org<ma...@ctakes.apache.org>) <us...@ctakes.apache.org>>
Subject: Issue with Running Dictionary Creator GUI
Hello,
I want to use Dictionary Creator GUI to modify Snomed to limit the vocabularies etc.
According to documentation<https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI>,
"
Step 3
Select a UMLS installation directory. This is the directory containing the META/ subdirectory (which contains RRF files<https://www.nlm.nih.gov/research/umls/new_users/online_learning/Meta_006.html>).
After selecting the UMLS installation directory, the available vocabularies are gathered.
"
Where is this Meta folder,
I have searched
1. cTAKES installation folder
2. I downloaded the UMLS zip with the Metathesaurus and that also does not have this folder structure mentioned here
Can someone please help on getting this tool to work ?
Regards,
This email and any files transmitted with it are confidential and intended solely for the use of the individual or entity to whom they are addressed. If you are not the named addressee you should not disseminate, distribute or copy this e-mail. Please notify the sender or system manager by email immediately if you have received this e-mail by mistake and delete this e-mail from your system. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of this information is strictly prohibited and against the law.
This email and any files transmitted with it are confidential and intended solely for the use of the individual or entity to whom they are addressed. If you are not the named addressee you should not disseminate, distribute or copy this e-mail. Please notify the sender or system manager by email immediately if you have received this e-mail by mistake and delete this e-mail from your system. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of this information is strictly prohibited and against the law.
RE: Issue with Running Dictionary Creator GUI
Posted by Prakhar Gaur <pr...@infosys.com>.
Hello Gandhi and Harish,
Thank you for the advice.
@Gandhi the UMLS installation document helped.
First I validated the downloads, they are fine.
Then I tried installing UMLS,
1. First was with source directory was the toplevel dir from UMLS zip
That gives an error that "release.dat file is missing from UMLS DVD directory"
2. I changed the source directory to mmsys,
That gives an error that "Metathesaurus flies are missing from UMLS DVD directory"
Please find the screen shots attached for both errors.
Do let me know what is going wrong here.
Regards,
From: Gandhi Rajan Natarajan [mailto:Gandhi.Natarajan@arisglobal.com]
Sent: Thursday, December 7, 2017 1:49 PM
To: user@ctakes.apache.org
Subject: RE: Issue with Running Dictionary Creator GUI
Hi Prakhar,
I guess you may not have installed UMLS. Check out this link - https://www.nlm.nih.gov/research/umls/implementation_resources/metamorphosys/help.html that has more info on UMLS installation and the significance of META folder.
Regards,
Gandhi
From: Prakhar Gaur [mailto:prakhar.gaur@infosys.com]
Sent: Thursday, December 07, 2017 12:57 PM
To: user (user@ctakes.apache.org<ma...@ctakes.apache.org>) <us...@ctakes.apache.org>>
Subject: Issue with Running Dictionary Creator GUI
Hello,
I want to use Dictionary Creator GUI to modify Snomed to limit the vocabularies etc.
According to documentation<https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI>,
"
Step 3
Select a UMLS installation directory. This is the directory containing the META/ subdirectory (which contains RRF files<https://www.nlm.nih.gov/research/umls/new_users/online_learning/Meta_006.html>).
After selecting the UMLS installation directory, the available vocabularies are gathered.
"
Where is this Meta folder,
I have searched
1. cTAKES installation folder
2. I downloaded the UMLS zip with the Metathesaurus and that also does not have this folder structure mentioned here
Can someone please help on getting this tool to work ?
Regards,
This email and any files transmitted with it are confidential and intended solely for the use of the individual or entity to whom they are addressed. If you are not the named addressee you should not disseminate, distribute or copy this e-mail. Please notify the sender or system manager by email immediately if you have received this e-mail by mistake and delete this e-mail from your system. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of this information is strictly prohibited and against the law.
RE: Issue with Running Dictionary Creator GUI
Posted by Gandhi Rajan Natarajan <Ga...@arisglobal.com>.
Hi Prakhar,
I guess you may not have installed UMLS. Check out this link - https://www.nlm.nih.gov/research/umls/implementation_resources/metamorphosys/help.html that has more info on UMLS installation and the significance of META folder.
Regards,
Gandhi
From: Prakhar Gaur [mailto:prakhar.gaur@infosys.com]
Sent: Thursday, December 07, 2017 12:57 PM
To: user (user@ctakes.apache.org) <us...@ctakes.apache.org>
Subject: Issue with Running Dictionary Creator GUI
Hello,
I want to use Dictionary Creator GUI to modify Snomed to limit the vocabularies etc.
According to documentation<https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI>,
"
Step 3
Select a UMLS installation directory. This is the directory containing the META/ subdirectory (which contains RRF files<https://www.nlm.nih.gov/research/umls/new_users/online_learning/Meta_006.html>).
After selecting the UMLS installation directory, the available vocabularies are gathered.
"
Where is this Meta folder,
I have searched
1. cTAKES installation folder
2. I downloaded the UMLS zip with the Metathesaurus and that also does not have this folder structure mentioned here
Can someone please help on getting this tool to work ?
Regards,
This email and any files transmitted with it are confidential and intended solely for the use of the individual or entity to whom they are addressed. If you are not the named addressee you should not disseminate, distribute or copy this e-mail. Please notify the sender or system manager by email immediately if you have received this e-mail by mistake and delete this e-mail from your system. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of this information is strictly prohibited and against the law.
RE: Issue with Running Dictionary Creator GUI
Posted by "Yadav, Harish" <hy...@live.unc.edu>.
Hi Prakhar,
Below is the location of META folder. Please change it accordingly to the directory of your installation of UMLS
C:\New_Drive\apache-ctakes-4.0.0-bin\apache-ctakes-4.0.0\umls-2017AB-full\2017AB-full\2017AB\META
Regards,
Harish.
From: Prakhar Gaur [mailto:prakhar.gaur@infosys.com]
Sent: Thursday, December 7, 2017 2:27 AM
To: user (user@ctakes.apache.org) <us...@ctakes.apache.org>
Subject: Issue with Running Dictionary Creator GUI
Hello,
I want to use Dictionary Creator GUI to modify Snomed to limit the vocabularies etc.
According to documentation<https://cwiki.apache.org/confluence/display/CTAKES/Dictionary+Creator+GUI>,
"
Step 3
Select a UMLS installation directory. This is the directory containing the META/ subdirectory (which contains RRF files<https://www.nlm.nih.gov/research/umls/new_users/online_learning/Meta_006.html>).
After selecting the UMLS installation directory, the available vocabularies are gathered.
"
Where is this Meta folder,
I have searched
1. cTAKES installation folder
2. I downloaded the UMLS zip with the Metathesaurus and that also does not have this folder structure mentioned here
Can someone please help on getting this tool to work ?
Regards,