Jobs Updated September 1, 2020

Introduction

Jobs represent long running, resource-intensive processing tasks. All job types are related to analyzing and handling bioinformatic data.

Type Description
Build Index Build a new index for a reference
Create Sample Create a sample from uploaded FASTQ data
Create Subtraction Create a new subtraction from an uploaded genome FASTA
NuVs Run a NuVs analysis for a sample and reference combination
Pathoscope Run a Pathoscope analysis for a sample and reference combination

Jobs are started when a task is started in another view (eg. sample creation dialog). New jobs are appended to the job queue and start as resources become available.

List Jobs

  1. Navigate to Jobs in the top navigation bar

    Jobs Navigation

  2. View the jobs list

    The jobs list shows all waiting, running, and finished jobs. Jobs can be cancelled and deleted from the list view.

    Jobs List

View Detail

  1. Click on a job in the jobs list

    Jobs List

  2. View detail information for the job

    This view shows the computing resources used by the job, the arguments used for the job, and the the progression of steps in the job or workflow.

    Jobs Navigation

Cancel a Job

Running and waiting jobs can be cancelled. Cancellation entails forcibly stopping the job process and cleaning up any partial job data from the database and file system.

  1. Click the icon on the job item

    The job will switch to a cancelled state and will release its resources and clean up any partial data.

Delete a Job

Once a job is finished, either by completing, encountering an error, or being cancelled, its record can be deleted.

  1. Click the icon on a job item to delete a job

  2. Jobs can also be deleted via their detail page by clicking the icon