--config <String> |
The configuration file containing the data location to download from (default: ) |
-d, --destination <ClcServerObjectUrl> |
Destination file or folder on server. |
--download-1000-genomes-variants <Boolean> |
whether 1000 Genomes variants shall be downloaded (if specified in the configuration file (default: false) |
--download-chromosome-band <Boolean> |
whether chromosome bands shall be downloaded (if specified in the configuration file) (default: false) |
--download-gene-annotations <Boolean> |
whether gene annotations shall be downloaded (if specified in the configuration file (default: false) |
--download-hapmap-variants <Boolean> |
whether HapMap variants shall be downloaded (if specified in the configuration file (default: false) |
--download-variants <String> |
comma-separated list of variants to download (as specified in the corresponding configuration file, e.g. 'COSMIC,dbsnp variations') (default: ) |
--log <Boolean> |
Enable creation of algo log file. (default: true) |
--reference <[DOWNLOAD, TRACK]> |
Select where to get the reference from (default: DOWNLOAD) |
--reference-track <ClcObjectUrl> |
Select reference track for defining the genome |
