archive-taxonomy - maintain a local NCBI taxonomy archive
archive-taxonomy
[[-]daily|[-][re]index]
[[-]clean|[-]clear|[-]scrub|[-]scour|[-]erase|[-]zap]
[-info] [-ftp|-http[s]]
archive-taxonomy prepares a directory to hold a local
taxonomy archive, then downloads a full database dump from NCBI's servers,
organizes the dump into an rchive(1) trie, and refreshes the
versioned records.
- [-]daily
- Additionally produce or update an inverted index.
- [-][re]index
- Fully reindex, complete with an inverted index.
- [-]clean|[-]clear
- Delete Indices contents and Increment files.
- [-]scrub
- Delete Indices contents, Increment files, and
Postings directories.
- [-]scour
- Delete Indices contents, Increment files, and
Postings, Data, Archive, and Sentinel
directories.
- [-]erase
- Delete Indices contents, Increment files, Postings,
Data, Archive, and Sentinel directories, and
Extras directory contents.
- [-]zap
- Delete entire archive.
- -info
- Check whether the archive is complete and up to date; report what's wrong
if it isn't.
- -ftp
- Download needed data via FTP (default).
- -http[s]
- Download needed data via HTTPS.
- [-path] dir
- Place the local archive in dir.
- [-temp|-work[ing]] dir
- Place intermediate subtrees in dir.
- EDIRECT_LOCAL_ARCHIVE
- Local archive directory to use; expected to hold an absolute path.
- EDIRECT_LOCAL_WORKING
- Directory to hold intermediate subtrees; expected to hold an absolute
path. Defaults to the local archive directory when not set.
archive-nihocc(1), archive-nlmnlp(1),
archive-nmcds(1), archive-pids(1), archive-pmc(1),
archive-pubmed(1), download-ncbi-data(1), nquire(1),
pm-clean(1), pm-prepare(1), pm-setup(1),
rchive(1), xfetch(1), xfilter(1), xinfo(1),
xlink(1), xsearch(1). xtract(1).