NAME

       index-pubmed - populate and index a local NCBI PubMed archive from scratch

SYNOPSIS

       index-pubmed             [-collect|-index|-invert|-merge|-promote]            [[-path] dir
       [[-temp|-work|-working] dir]]

DESCRIPTION

       index-pubmed prepares a directory to hold a local PubMed archive, then  downloads  a  full
       database  dump  from NCBI's servers (along with MeSH data), organizes it into an rchive(1)
       trie, refreshes and collects the  versioned  records,  and  fully  indexes  the  resulting
       archive.  It can optionally pick up partway through by explicit request.

OPTIONS

       -collect
              Skip initial preparation and download, and start with forming an rchive(1) trie.

       -index Skip everything up through running rchive(1) and just perform full indexing.

       -invert
              Skip everything through the first indexing pass and start with calculating inverted
              indices.

       -merge Skip everything through calculating inverted indices and start with merging them.

       -promote
              Skip everything through merging inverted indices and  just  produce  final  postins
              files.

       [-path] dir
              Place the local archive in dir.

       [-temp|-work|-working] dir
              Place intermediate subtrees in dir.

ENVIRONMENT

       EDIRECT_PUBMED_MASTER
              Local  archive  directory  to  use  in  the  absence of -path.  Expected to hold an
              absolute path; mandatory when not supplying a path on the command line.

       EDIRECT_PUBMED_WORKING
              Directory to hold intermediate subtrees in  the  absence  of  -temp|-work|-working.
              Expected to hold an absolute path.  Defaults to the primary local archive directory
              when not set.

SEE ALSO

       archive-pubmed(1),    download-ncbi-data(1),    download-pubmed(1),     expand-current(1),
       fetch-pubmed(1),    index-extras(1),    phrase-search(1),    pm-collect(1),   pm-index(1),
       pm-invert(1),  pm-merge(1),  pm-prepare(1),  pm-promote(1),  pm-refresh(1),   pm-stash(1),
       rchive(1), xtract(1).