--align-mode <[FAST, ACCURATE]> |
Trades off execution time against accuracy (default: ACCURATE) |
-d, --destination <ClcServerObjectUrl> |
Destination file or folder on server. If not specified the folder of the first input object will be used. |
--end-gap-cost <[FREE, CHEAP, DEFAULT]> |
Controls the cost of gaps at the beginning and end of the alignment (default: DEFAULT) |
--gap-extension-cost |
|
Double: 0.0 <= x <= 10000.0 |
Increasing this value will favor shorter gaps in the alignment (default: 1.0) |
--gap-open-cost |
|
Double: 0.0 <= x <= 10000.0 |
Increasing this value will favor fewer gaps in the alignment (default: 10.0) |
-i, --input <ClcObjectUrl> |
Input data on server |
--log <Boolean> |
Enable creation of algo log file. (default: true) |
--redo-alignments <Boolean> |
Ignore existing alignments and realign (default: false) |
--use-fixpoints <Boolean> |
Force alignment of predefined fixpoint regions (default: false) |
