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3 System Shutdown, Startup, and Reset Resetting the Mass Spectrometer • After three minutes, the System LED turns yellow to indicate the software transfer from the data system to the mass spectrometer is complete and that the mass spectrometer is in standby mode. When you change the mode from standby to on, the System LED turns green to indicate that the mass spectrometer is functional and the high voltages are on. Note The Vacuum LED on the front panel illuminates green only if the pressure in the vacuum manifold is below the maximum allowable pressure (5 × 10-4 Torr in the analyzer region, and 2 Torr in the ion transfer tube–skimmer region). Although you can calibrate the mass spectrometer after the vacuum LED turns green, you must allow the mass spectrometer’s vacuum system to stabilize completely, which takes approximately 15–24 hours of continuous pumping, to ensure that the calibrations are correct. Starting the Autosampler Turn on the autosampler by using its on/off power switch. If necessary, configure the autosampler. For procedures for placing sample vials, preparing solvent and waste containers, installing syringes, and so on, refer to the autosampler manual. The LTQ Series Getting Connected Guide provides autosampler connection procedures. Resetting the Mass Spectrometer If communication is lost between the mass spectrometer and data system computer, you might need to reset the mass spectrometer by using the reset button on the right-side power panel, shown in Figure 8 and Figure 9 on page 14. The following procedure assumes that the mass spectrometer and data system computer are both powered on and operational. If the mass spectrometer, data system computer, or both are off, see “Starting the System after a Complete Shutdown” on page 37. To reset the mass spectrometer after communication is lost 1. Ensure that the Communication LED is off. 2. Press the Reset button on the power panel. The following occurs: • The embedded computer reboots. All LEDs on the front panel turn off except the Power LED. • After several seconds, the Communication LED turns yellow to indicate that the data system and the mass spectrometer are starting to establish a communication link. Thermo Scientific LTQ Series Hardware Manual 39