To review the configuration values of PersephoneShell, run the command

PS> list config
Database Connection:
             name in config file: prod
                    database url: prod.persephonesoft.com:3306/production
                        username: main
                sequence storage: type=Filesystem config(path)=/data/prod/sequences

Search index for current connection:
                             url: http://localhost:8983/solr/
                       core name: prod
                multiple threads: True

File location settings for current connection:
                    file storage: /data/prod/filestorage
                sequence storage: /data/prod/sequences
                BLAST db storage: /data/prod/BlastDB

BLAST settings:
          BLAST binary directory: /data/prod/NCBIBlast/bin
   BLASTP parameters (orthologs): -evalue 1e-5 -max_target_seqs 5 -max_hsps 3 -word_size 4 -threshold 99 -num_threads 8

Other settings:
                  temp directory: /HDD4Gb/Temp
                  data directory: /HDD4Gb/Bio
           user config directory:
                 ortholog finder: DIAMOND
              DIAMOND parameters: -e 1e-5 --max-target-seqs 5 --max-hsps 2
                           BLAST: installed
                         DIAMOND: installed
                        MINIMAP2: installed
                       SWISSPROT: installed
       MaxFeaturesOnTrackToGroup: 400,000

The most interesting value here is the setting for data directory which can be referenced by $DATA in the INI files.