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Loading from UMLS RRF (Rich Resource Format)
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files
The National Library of Medicine (NLM) regularly releases the Unified Medical Language System (UMLS) regularly releases as a set of terminologies in a large set of files referred to as the UMLS Metathesaurus. LexEVS can load the entire set or individual files from this file set using the LexEVS UMLS Batch loader.
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The UMLS Metathesaurus tools are briefly discussed on this page. |
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Since all documentation for these are maintained at the website linked to below |
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, only provide brief pointers are provided. Also, LexEVS has a special purpose RRF loader which loads an NCI version of an entire MetaThesaurus. |
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This is |
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explained in Installing NCI Vocabularies in LexEVS 6.x for the NCI loaders |
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1 | The UML Metathesaurus is controlled by a license from the NLM. You may obtain a free license of the UMLS Metathesaurus on the NLM license site. | |||||
2 | Download and install the UMLS Metathesaurus: | |||||
2 3 | Subset the desired terminology (recommended):
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3 4 | Set command line options in the loading script:
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4 5 | Find the SAB (RSAB) in the MRSAB.RRF file: | |||||
5 6 | Load the Terminology from the command line referencing the SAB.
Note: The file path is pointing to the directory directly above the .that contains all of the UMLS RRF files. For UMLS there is not a single source format file. | |||||
7 6 | Monitor output (optional):
Sample output of an early load step is as follows: |
Restarting an RRF Load
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Killed processes cannot be restarted. The load can recover from an application error, but not from an any outside activity that stops the process. |
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1 | Open the lbGUI LexEVS Administrative GUI. | ||||||
2 | Find in the table the terminology with the broken or stopped load | ||||||
3 | Highlight and double Double click the terminology row in the table. | ||||||
4 | On the resulting window note for the following command line execution: | ||||||
5 | Using the LexEVS utilities restart the load of the RRF source and pass in the location, the SAB, the URI, and the version:
For Windows installation use the following command:
For Linux installation use the following command:
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