Copy Custom Fields from Step Input to Output

Use an automation with the copyUDFs script and to copy custom fields from a step input to a step output. This example uses the Library Normalization master step, and shows how to copy the Concentration field from the step input samples to the output samples.

To copy a custom field from step input to output

1. On the Lab Work configuration screen, select the Automation tab, then select the Step Automation tab.

   • Add a new automation.

   • Name the automation and enter the channel name.

   • In the Command Line field, copy the following command, replacing the { } placeholders with your own information:

     bash -c "/opt/gls/clarity/bin/java -jar /opt/gls/clarity/extensions/ngs-common/v5/EPP/ngs-extensions.jar script:copyUDFs -u {username} -p {password} -i {processURI:v3:http} -f Concentration"

   • In the Automation Use section, enable the automation on the desired master step (this example uses the Library Normalization master step).

   • Save the automation.

2. Return to the Lab Work configuration screen and select the Lab Work tab. In the Master Steps list, select the master step on which you enabled the automation.

3. In the Automation section, the new automation is listed. Configure as follows:

   • Trigger Location: Record Details

   • Trigger Style: Automatic upon entry

     NOTE: Automation triggers can be configured at the master step or the step level. If configured on the master step, the trigger settings are locked on all steps derived from that master step.

4. You can add it as an expanded view field or as a column header (for details, refer to #configure-record-details-milestone).

5. Save your changes.

   At run time:

   • When the Record Details screen is entered, the automation are automatically triggered.

   • The copyUDFs script runs and copies the Concentration field values from the step input samples to the output samples.