NAME

       index-extras - populate and index local BioConcepts, GeneRifs, and theme data

SYNOPSIS

       index-extras [[-path] dir [[-temp|-work|-working] dir]]

DESCRIPTION

       index-extras  prepares  a directory to hold local BioConcepts, GeneRifs, and Percha-Altman
       theme data, then downloads full dumps from NCBI and Zenodo  servers,  organizes  the  data
       into an rchive(1) trie, and fully indexes the resulting archive.

OPTIONS

       [-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

       download-ncbi-data(1), index-pubmed(1), rchive(1), theme-aliases(1), xtract(1).