jammy (1) index-extras.1.gz

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).