tweak_pipeline¶
SYNOPSIS¶
tweak_pipeline.pl [ -url mysql://user:pass@server:port/dbname | -reg_conf <reg_conf_file> -reg_alias <reg_alias> ] -tweak 'analysis[mafft%].analysis_capacity=undef'
DESCRIPTION¶
This is a script to “tweak” attributes or parameters of an existing eHive pipeline.
OPTIONS¶
| --url <url> | URL defining where eHive database is located |
| --reg_conf <path> | |
| path to a Registry configuration file | |
| --reg_type <name> | |
| Registry type of the eHive DBAdaptor | |
| --reg_alias <name> | |
| species/alias name for the eHive DBAdaptor | |
| --nosqlvc | “No SQL Version Check” - set if you want to force working with a database created by a potentially schema-incompatible API |
| --tweak <string> | |
An assignment command that performs one individual “tweak”. You can “tweak” global/Analysis parameters, Analysis attributes and Resource Classes: -tweak 'pipeline.param[take_time]=20' # override a value of a pipeline-wide parameter; can also create a non-existent parameter
-tweak 'analysis[take_b_apart].param[base]=10' # override a value of an Analysis-wide parameter; can also create a non-existent parameter
-tweak 'analysis[add_together].analysis_capacity=undef' # override a value of an Analysis attribute
-tweak 'analysis[add_together].batch_size=15' # override a value of an Analysis_stats attribute
-tweak 'analysis[part_multiply].resource_class=urgent' # set the Resource Class of an Analysis (whether a Resource Class with this name existed or not)
-tweak 'resource_class[urgent].LSF=-q yesteryear' # update or create a new Resource Description
If multiple “tweaks” are requested, they will be performed in the given order. | |
| --DELETE <selector> | |
| Shortcut to delete a parameter | |
| --SHOW <selector> | |
| Shortcut to show a parameter value | |