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Possible Run Setup Problems

HiSeq 2500 System User Guide

129

Possible Run Setup Problems

Problem Possible Cause Action

The software did not

initialize.

The software was

unable to initialize

internal hardware

devices.

Close the error message and then relaunch the

instrument software.

If the problem persists, restart the instrument

computer. If you are going to restart the

computer, first shut down the instrument to

make sure the DoNotEject drive is recognized

correctly.

If the problem persists after restarting the

instrument computer, shut down the instrument,

wait a minimum of 60seconds, and then restart

the instrument.

Flow cell lever is

orange.

The flow cell did not

seat properly.

The vacuum did not

seal.

Manifolds did not raise.

Remove the flow cell and repeat the cleaning

steps.

Make sure that the gaskets are present and well-

seated.

Reload the flow cell.

If the preceding steps do not work, try replacing

the gaskets, and then reload the flow cell.

Flow cell lever is

blinking orange.

Vacuum is being

provided but is

inadequate.

Remove the flow cell and repeat the cleaning

steps.

Make sure that the gaskets are present and well-

seated.

Reload the flow cell.

If the preceding steps do not work, try replacing

the gaskets, and then reload the flow cell.

Flow cell lever is

blinking green.

Vacuum pressure is

good.

Switch flow cell lever to position 2.

Poor fluid delivery. Potential bubbles in the

system.

Reposition the flow cell and confirm that the

holes are facing down.

Look for white precipitate around the gaskets. If

precipitate is present, replace the gaskets.

Always replace gaskets before an instrument

maintenance wash.

Confirm that the sipper assemblies are fully

lowered and each sipper is in contact with the

reagents.

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