PP Systems CIRAS-2

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Recording Chlorophyll Fluorescence

CIRAS-2 Operator's Manual Version 2.04

- 112 -

CFM Recording Options

Fv/Fm Options

phiPSII Options

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Table of Contents3
Preface12
- Notice12
- Documentation Conventions12
- User Registration12
- Service & Warranty13
- Contact Information13
- Unpacking Your Equipment13
CIRAS-2 Essentials14
- Before Powering on and Operating the System14
- Important Precautions14
Getting Started15
- Installing CIRAS-2 Remote Control Software on Your Computer16
- Avoiding UI-To-PC Communication Errors16
- Click ? at any Time for On-Line Help19
Preparations for Use20
- Step 1. Insert 12V Nimh Battery Packs into Main Console20
- Step 2. Connect CIRAS-2 Power Supply20
- Step 3. Make Leaf Cuvette Electrical and Gas Connections21
  - CIRAS-2 Gas/Electrical Connection Panel - Detailed View21
- Step 4. Connect Leaf Cuvette Power Cable to External 12V DC Power Supply22
- Step 5. Inspect Absorber Columns and Water Vapor Equilibrator22
  - CIRAS-2 Console - Front Layout23
- Step 6. Insert CO Cartridge23
  - CO 2 Holder and Regulator Assembly24
- Step 7. Connect CIRAS-2/PC Interface Cable24
- Step 8. Power on CIRAS-225
- Step 9. Close the Leaf Cuvette26
- Step 10. Start CIRAS-2 RCS Program on Your Computer26
Familiarizing Yourself with the Measurement Display27
- LED Tuning27
- Gas Exchange Measurement Screen28
- Data Display and Control Values28
- Graph Display Options30
  - Plot Type Toggle30
  - Current y Axis Variable30
- Status Bar30
CIRAS RCS Menu Bar32
- File Menu32
- Connections Menu32
- Setup Menu33
- Utilities Menu34
- Recording Menu38
- View Menu40
- Help Menu42
System Setup and Operation43
- Set File Options43
- PRM File Options44
- System Setup51
  - Probe Type51
    - Air Supply on51
    - Cuvette Flow51
  - Light Type51
- Cuvette Environment52
- CIRAS-2 Time56
- Analog Outputs56
- Automatically Update CIRAS58
Graphing Preferences59
- Time Plot59
- Data Plot60
  - Shown Variable on y Axis60
Observing and Recording Leaf Gas Exchange61
- Checking the System with an Empty Cuvette61
- Select Recording Options62
  - Treatment Editor63
    - Treatment Groups63
    - Treatment Items63
  - Recording Mode64
- Placing the Leaf in the Cuvette65
- Keypress Recording67
- Timed Recording68
- Response Curve70
  - Editing Response Variable Values71
  - Recording Options74
- Batch Response Curves78
  - Enable Batch Response Levels78
  - Batch Level Options78
- CIRAS Internal Recording79
- Stored Diff Bal80
Recalculate Data83
- Processing Options84
- Recalculation Values85
Transferring Data from CIRAS-2 to Your Computer93
- PCMCIA Card93
- RS232 (Null Modem) Connection93
  - Establishing an Activesync Connection for Data Transfer from UI to PC93
- Activesync® Communications Software94
  - For Customers that Are Using the Integral PC (Pencentra)95
  - For Customers that Are Using Our User Interface (UI)95
Shutting down the CIRAS-2 System97
Measuring Chlorophyll Fluorescence with the CFM98
- Getting Started with the CFM98
- Firmware & Software Requirements98
  - Software Installation98
- Power Requirements99
- Leaf Cuvette Window99
  - Replacing Cuvette Window99
- Connecting the CFM to CIRAS-2100
  - Operation from External PC101
  - Stand-Alone Operation (User Interface)102
CFM Operation103
- Default Adaptation104
- CFM Recording Options104
- Calculation Options107
- Modulation Beam107
- CFM Graphing Options109
  - CFM Time Plot109
  - CFM Data Plot109
CIRAS-CFM Display110
- Recd110
- CFM Display Buttons111
- CFM Tuning111
Recording Chlorophyll Fluorescence113
- Keypress Recording with CFM113
- Response Curve Recording with CFM117
- CFM Output119
- Calculation Error Codes120
Brief Introduction to Chlorophyll Fluorescence121
- What Is Chlorophyll Fluorescence121
- Techniques for Measuring Chlorophyll Fluorescence122
- Common Fluorescence Measurements124
  - Fluorescence Induction Analysis (Kautsky Curve)124
  - Quantum Efficiency of Photosystem II126
Glossary of Fluorescence Terms127
Measuring Soil Respiration with CIRAS-2129
- Soil Respiration Measurement Display129
- Soil Respiration Operational Settings130
- Recording in Soil Respiration Mode133
Diagnostics135
- Analyser A/D Reads135
- Temperature & PLC State137
- Flows139
- Auto Cuvette140
- Batteries & Voltages141
- Report142
  - Quick Report142
  - Extended Report142
Calibration145
- External Connections for CO Calibrations145
  - CO 2 Calibrations Using the Internal Standard145
  - CO 2 Calibrations Using a Gas Cylinder145
- H 2 O Calibration Sources and Connections146
- PP Systems" Water Vapor Calibrator146
- Performing Calibrations147
- Calibration Check147
- Calibration Reset149
- CO2 Midpoint149
  - Gas Connections for CO Midpoint149
- Max C Determination151
Appendix 1. Cuvettes and Probes153
- Identification of Leaf Cuvette Types153
  - Leaf Cuvettes Fitted with a FLAT GLASS WINDOW153
  - Leaf Cuvettes Fitted with a PLASTIC HEMI-CYLINDER153
- CIRAS-2 Settings for Leaf Cuvettes and Probes154
Appendix 2. CIRAS-2 Consumables and Spares155
Appendix 3. Photosynthesis Equations Used in CIRAS-2157
- Calculations157
- Symbol Definitions161
  - Measured Parameters161
  - Calculated Parameters161
- Physical Constants Used in Equations162
- Saturated Vapor Pressure of Water from Air Temperature162
- References163
Addendum164
- Corrections to Stomatal Resistance Measurements for Differing Transpiration Rates from Upper and Lower Leaf Surfaces164
- Magnitude of Errors in RS166
User Notes167

PP Systems CIRAS-2 - Page 114

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