Runs Management

The Runs section allows you to view and manage all your pipeline executions.
You can access your runs in two main ways:

By Run ID
- Enter a specific RunID into the input field.
- Click Go to Run to view detailed information about that specific run.
- This is useful if you already know the exact ID of the run you want to inspect.
By Session or Account
- When you run a pipeline without being logged in, the system associates it with your browser session.
- If you later register or log in, all session-based runs will be automatically transferred to your account.
- Once runs are linked to your account, you can always access them in the Runs page without needing the Run ID.

Runs Page

The runs overview displays:

Pipeline Name – Which pipeline was executed (e.g., MERFISH, SeqFISH, OligoSeq, etc.).
Status – Current state of the run:
- started – The run is in progress.
- completed – The run finished successfully.
- failed – An error occurred during execution.
- unknown – Status could not be determined.
Started – The timestamp of when the run began.
Actions – Options to delete a run.

Clicking a run opens the Run Detail view, where you can:

See log files in real-time while the pipeline is running.
View and download output files in multiple formats.
Inspect structured outputs (e.g., YAML) with specialized visualizations.
Filter and download subsets of results (e.g., by gene or oligoset for oligo-based pipelines).
Download:
- CSV files for specific oligosets, entire genes, or all genes.
- Excel files with each gene in a separate sheet.
Delete the run if it’s no longer needed.

From the Run Detail page, you can download files in different ways:

Direct File Download – Click the download button next to any output or log file.
CSV Downloads – Extract results for a specific gene, oligoset, or all data at once.
Excel Download – Organize each gene into its own worksheet.

The session-to-account linking means:

You can start a run before creating an account.
You won’t lose your progress or results.
When you later sign up or log in, your existing runs appear in your account automatically.
You always have a central history of all runs—whether started anonymously or logged in.