NAME

       archive-pubmed - maintain a local NCBI PubMed archive

SYNOPSIS

       archive-pubmed    [[-]download]    [[-]verify]    [[-]missing]   [[-]daily|[-][re]index]   [[-]stem[med]]
       [[-]clean|[-]clear|[-]scrap|[-]scrub| [-]scour|[-]erase|[-]zap] [-info] [-ftp|-http[s]]

DESCRIPTION

       archive-pubmed prepares a directory to hold a local PubMed archive, then downloads a full  database  dump
       and  auxiliary  vocabulary  data  from  NCBI's  servers,  organizes  the dump into an rchive(1) trie, and
       refreshes the versioned records.

OPTIONS

       [-]download
              Download the dump but perform no further processing.

       [-]verify
              Verify that all downloaded files are in good shape.

       [-]missing
              Check for missing downloads.

       [-]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.

       [-]scrap
              Delete Postings directories.

       [-]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.

ENVIRONMENT

       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.

SEE ALSO

       archive-nihocc(1),      archive-nlmnlp(1),     archive-nmcds(1),     archive-pids(1),     archive-pmc(1),
       archive-taxonomy(1), cit2pmid(1), custom-index(1), download-ncbi-data(1),  download-pubmed(1),  edict(1),
       expand-current(1),  nquire(1),  pm-clean(1),  pm-collect(1),  pm-prepare(1),  pm-refresh(1), pm-setup(1),
       rchive(1), ref2pmid(1), xfetch(1), xfilter(1), xinfo(1), xlink(1), xsearch(1).  xtract(1).

NCBI                                               2025-05-26                                  ARCHIVE-PUBMED(1)