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1 | Using a web or ftp client go to the URL: ftp://ftp1.nci.nih.gov/pub/cacore/EVS/ | ||||||
2 | Select the version of NCI Thesaurus OWL file you wish to download. Save the file to a directory on your machine. | ||||||
3 | Extract the OWL file from the ZIP download and save in a directory on your machine. This directory will be referred to as NCI_THESAURUS_DIRECTORY in script examples. | ||||||
4 | Create Manifest and Preferences files. (optional)
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5 | Using the LexEVS command line, load the NCI Thesaurus with no options:
For Windows installation use the following command:
For Linux installation use the following command:
This should work best with a "by code" type Thesaurus source terminology. | ||||||
6 | Using the LexEVS command line, load the NCI Thesaurus with options:
For Windows installation use the following command:
For Linux installation use the following command:
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NCI Metathesaurus contains many individual vocabularies some of which are large vocabularies in and of themselves. It requires many hours to load and index. It can require 36 hours on a multiprocessor machine with 6 GB or more of memory. The total time to load the NCI MetaThesaurus Metathesaurus will vary depending on machine, memory, and disk speed. Because this loader uses a batch loading strategy it is less dependent on memory, but some users will see 3 or 4 day load times with average multiprocessor processing power. While the batch loading process itself is not heavily memory dependent, the creating the index following the load will require at least 3 GB of memory. |
Step | Action | ||||||
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1 | Using a web or ftp client go to the URL: httphttps://ncicbcbiit.nci.nih.gov/evs-download/evsportal.jspmetathesaurus-downloads | ||||||
2 | Select the version of NCI Download Metathesaurus.RRF you wish to download. There may only be one. .zip. Save the file to a directory on your machine. The compressed file is approximately 2GB in size and may take some time to download depending on your connection speed. | ||||||
3 | Extract the files from the ZIP download and save to a directory on your machine. This directory will be referred to as NCI_METATHESAURUS_DIRECTORY. RELASE_INFO.RRF is required to be present for the load utility to work. | ||||||
4 | Check that you are able to open a large number of files before starting the load.
Usually having around 10,000 available open files is sufficient. If your limit is set to low this will need to be raised. | ||||||
5 | Using the LexEVS utilities load the NCI Thesaurus:
For Windows installation use the following command:
For Linux installation use the following command:
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Killed processes cannot be restarted. The load can recover from an application error, but not from an outside activity that stops the process. This does not include out of memory errors, hung processes that have been killed, or system shutdown. |
Since this loader is resource hungry we provide the option to restart should you find your resource settings to be inadequate. Resuming loads which have crashed is possible using the ResumeBatchLoad script set.
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If a 'releaseId' occurs twice in the file, the last occurrence will be stored. If LexEVS already knows about a releaseId (from a previous history load), the information is updated to match what is provided in the file. | ||
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