Harvester data dependencies - ohsu-comp-bio/g2p-aggregator GitHub Wiki

You can setup the harvester data dependencies by running make in the /harvester directory. As a convienience, the data dependencies can be downloaded from https://s3-us-west-2.amazonaws.com/g2p-aggregator/data-dependencies.zip

unzip -vl data-dependencies.zip
Archive:  data-dependencies.zip
 Length   Method    Size  Ratio   Date   Time   CRC-32    Name
--------  ------  ------- -----   ----   ----   ------    ----
  579484  Defl:N    46027  92%  05-31-17 11:36  9d42b6e4  cgi_biomarkers_per_variant.tsv
199221341  Defl:N 40232812  80%  05-15-17 15:13  9a1ac0ed  cosmic_lookup_table.tsv
   54345  Defl:N     8139  85%  05-31-17 11:33  a6e380ff  oncokb_all_actionable_variants_20170531.tsv
      43  Stored       43   0%  05-31-17 11:33  11ee262e  oncokb_all_actionable_variants.tsv
--------          -------  ---                            -------
199855213         40287021  80%                            4 files

the resulting directory structure should be:

-rw-r--r--  1 walsbr  OHSUM01\Domain Users     579484 May 31 11:36 cgi_biomarkers_per_variant.tsv
-rw-r--r--  1 walsbr  OHSUM01\Domain Users  199221341 May 15 15:13 cosmic_lookup_table.tsv
lrwxr-xr-x  1 walsbr  OHSUM01\Domain Users         43 May 31 11:33 oncokb_all_actionable_variants.tsv -> oncokb_all_actionable_variants_20170531.tsv
-rw-r--r--  1 walsbr  OHSUM01\Domain Users      54345 May 31 11:33 oncokb_all_actionable_variants_20170531.tsv