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Question about CuiFinder.pm #1
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Hi, After you sucessfully installed the two Perl libaries, you should not change the source code of the
Thanks. Results are below: |
Hi, The UMLS database must contain six tables: 1. MRREL 2. MRCONSO 3. MRSAB 4. MRDOC 5. MRDEF 6. MRSTY 7. SRDEF All other tables in the databases will be ignored, and any of these tables missing would raise an error. So I guess your MySQL database does not have MRSAB table. Please refer to this link: https://metacpan.org/pod/UMLS::Interface#INSTALL |
Hi there, I'm having a nearly identical issue. When I run the sample script an empty array is returned. I have installed both Perl modules concerning the UMLS library and I also have a local instance of the UMLS that includes both the tables concerning the Metathesaurus and the Semantic Network. I also have the DBD:mysql and DI Perl modules installed in my system. I can connect to the UMLS MySQL database just fine with my own code independently from the package. However, I'm not sure if the Perl package is setting up the connection properly. Do you have any recommendations? In case it helps, I'm running the program in VSCode, with Python 3.11.4, MySQL 8.1, and the full UMLS 2023AA distribution. I've tried different CUI pairs, different metrics, reinstalling Strawberry Perl, reinstalling the Perl modules, and reinstalling the umls-similarity package. I've attached screenshots showing that I can connect to the database and showing the described behavior. Thanks! |
Hello
Thank you for publishing this library.
![image](https://user-images.githubusercontent.com/66674325/147695364-0e3c6049-d848-4dbb-b9d0-51929ef48b9c.png)
I am not familiar with Perl
at this time I download UMLS and load scripts into MySQL.
after this command (cpanm UMLS::Interface --force) I get the error :
I guess this error is related to the user and password of MySQL.
But I can not find the CuiFinder.pm for adding a fixed username and password in Line 721.
would you please help me with this issue?
Thank you very much
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