cell ranger_count workflow error

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Rodrigo Martinez Maza

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Jun 26, 2023, 7:29:06 AM6/26/23

to Cumulus Support

Hello Team,

I´m trying to run cell ranger count using a Fastq dataset from 10x genomics

I was reviewing all previous messages and I could find any similar

TASK name:

generate_count_config
Failure Message:

Job cellranger_workflow.generate_count_config:NA:1 exited with return code 1 which has not been declared as a valid return code. See 'continueOnReturnCode' runtime attribute for more details.

I'm not sure where to see or to fix this error.

Could you please help?

Regards,

Neu

Yiming Yang

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Jun 26, 2023, 12:32:45 PM6/26/23

to Rodrigo Martinez Maza, Cumulus Support

Hello Rodrigo,

Can you send me the "generate_count_config.log" file in the execution folder of "generate_count_config" task? That log file contains the actual error message.

Sincerely,

Yiming

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