# Pre Run Check Troubleshooting on the MiniSeq

If the MiniSeq pre-ruck checks do not pass, follow the guidance below for the check or checks that did not pass.

**General/reagent checks**

* Doors closed.
  * Make sure doors closed.
  * Power cycle\* if issue persists.
* Consumables loaded.
  * Ensure consumables are properly loaded.
  * Power cycle\* if issue persists
* Required Software.
  * Verify that the proper software/module is installed.
* Instrument and network disk space checks - the control software will provide a warning if the free storage is below 100Gb.
  * Clear disk space from the D:\ drive.
  * Clear disk space from the network output location, if needed.
* Network connection.
  * Confirms network status and physical network connection.
  * Check read/write permissions, availability of network location, and Ethernet plug.

**Temperature**

* Temperature ramp: checks function of flow cell heater plate.
  * Power cycle\* and retry the pre-run checks.
* Temperature sensors\*\*.
  * Power cycle\* and retry the pre-run checks.
* Fans\*\*
  * Power cycle\* and retry the pre-run checks.

**Imaging System**

* Imaging limits\*\*: moves stage to sensor limits.
  * Power cycle\* and retry the pre-run checks.
* Z step-and-settle\*\*: checks the ability of z-stage to move and stop moving in a set time.
  * Power cycle\* and retry the pre-run checks.
* Bit Error rate: checks camera circuits.
  * Power cycle\* and retry the pre-run checks.
* Flow cell registration\*\*: checks if the flow cell is in the correct imaging position.
  * Clean and re-seat flow cell and check gaskets.
  * Power cycle\* and retry the pre-run checks. If the checks do not pass, try a new flow cell.

**Reagent Delivery**

* Valve response\*\*: tests the accuracy of valve and pump syringe rate movements.
  * Power cycle\* and retry the pre-run checks.
* Pump: moves pump syringe to min and max positions.
  * Power cycle\* and retry the pre-run checks.

Note: Pre-run checks will not check flow rates, so **always** visually inspect the flow cell gaskets prior to loading.

\*For further information, search for Knowledge Base article **How to Power Cycle the MiniSeq**.

\*\* These checks are also performed during the system check process.

If any pre-run check fails after a full power cycle, contact [Illumina Technical Support](https://www.illumina.com/company/contact-us.html#/united-states/technical-support).

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| *For any feedback or questions regarding this article (Illumina Knowledge Article #1214), contact Illumina Technical Support* [*techsupport@illumina.com*](mailto:techsupport@illumina.com?subject=Question%2FFeedback%20Regarding%20Illumina%20Knowledge%20Article%20#000001214%20-%20Instrumentation%20\&body=Dear%20Illumina%20Technical%20Support,%0D%0A%0D%0A)*.* |