CryoSPARC Guide
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Inspecting Data

Selecting Jobs

The sidebar automatically displays information pertaining to the selected jobs. Click to select a job, use the arrow keys to navigate between jobs, and press command +click to add or remove jobs from your selection.
Selecting a single job will display its details in the sidebar ‘Details’ panel. You can press Spacebar, ‘View Job’ or click the job ID/type on the header of the card.

Job Info Tags

Almost all jobs include summary information presented on the cards, table, and tree view - these are called info tags. For example, the Blob Picker job card now displays key information in tags anchored around the preview images to display the minimum and maximum diameter configured, how many micrographs were processed, how many particles were picked, and the average number of particles picked per micrograph:
The combination of job preview images, info tags, and additional metadata displayed on the job card footer makes it easier to distinguish between multiple runs of the same job type with different parameters and results.

Inspecting Jobs

You can inspect a job to view much more information about a job including a real-time log of events and interactive utilities. To inspect a job, select it and press spacebar or click on the ‘View Job’ button from the sidebar or click on the job ID and type on the header of the job card.
Inspecting a completed 2D Classification job presents the Event Log tab for quick inspection of the latest events.
The job preview dialog opens above the current page and can be dismissed at any time by pressing the spacebar or escape key or clicking on the ‘x’ button.
You can close the job inspection dialog by clicking on the ‘X’ button on the top-right of the dialog or press the Spacebar or Escape key
At the top of the job inspection dialog is a breadcrumbs element depicting the hierarchy of a job. Clicking on a project or workspace will navigate to that page. Clicking on the job will navigate to the workspace page and scroll to that job.
Alongside the breadcrumbs, you can star the job and view the elapsed time.
The bottom of the dialog contains a footer with helpful information such as what processing node the job was queued on, how many GPUs were allocated and what custom parameters were set:
The job dialog footer contains metadata with additional details visible when hovered.
The job inspection dialog is comprised of various tabs that provide more detail into the processing history and results of the job. To the right of the dialog’s main content area is a collapsible sidebar that lists all output groups the job produces. From this sidebar you can drag and drop output groups into the job builder or download results.
Close the sidebar (top-right button or command + /) to expand the visible area of the job inspection dialog.

Event Log

As a job runs, events are published in real-time as a job processes. Events are viewable when a job completes. Above the log, a list of controls are available:
  • Show from top: Jump to the top of the event log, scroll to load events in chronological order.
  • Follow latest: Skip to the last available checkpoint and listen for new events.
  • Select a checkpoint: View a list of checkpoints and timestamps, click to jump to the start of the checkpoint.
  • Filter types: Display events of a certain type (such as text or image).
  • Filter flags: Display events of a certain job-dependent flag (such as central slices or FSC curves).
  • Show CPU usage: Display CPU memory usage of the processing node alongside each log.
  • Show timestamps: Display a timestamp alongside each log (you can also hover over the icon on the left side of each log to view the timestamp).

Interactive

The interactive tab is only visible when running an interactive job that is in ‘waiting’ status. Please refer to the Interactive Jobs guide to learn more.

Inputs and Parameters

In addition to the details sidebar, this tab displays all inputs and parameters that were configured. parameters will be marked as either default (grey/blue) or custom (green). Advanced parameters are denoted with an ‘A’.

Outputs

In addition to the output groups sidebar panel, the outputs tab displays a comprehensive overview of all the output groups and individual outputs a job creates. Please refer to the Job Builder Tutorial to learn more about how you can take advantage of the low-level results CryoSPARC generates.

Volumes

This tab is only visible when a job outputs one or more volumes. By selecting a volume from the left sidebar, it will load in the integrated volume viewer. You can set a threshold, zoom and pan, start or pause animation, and download the volume for inspection in an external software.
For volumes that also have an associated colour map (such as running a refined volume through Local Resolution Estimation), an additional option will become available in the sidebar to view the coloured volume.

Metadata

Useful for when archiving or debugging, the metadata tab contains all job data stored in the database. You can search for specific fields using the search bar. The path to the job logs location on disk is listed as well and can be clicked to copy.
In addition to the job data, you can view the text log of the job by clicking on the ‘Log’ sub-tab:

Comparing Jobs

In CryoSPARC v4.0, you can command + click to select multiple jobs. This will show a unique sidebar panel where each job presented as a card with identifying details. To compare the selected jobs, press the spacebar key or click on “Compare Jobs” from the sidebar:
The comparison dialog is an easy way to view differences between two or more jobs that may be located in different workspaces or projects. Each parameter listed can be clicked to copy it to your clipboard.