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some of the Varian accessories. You can collect a baseline immediately before 
scanning a sample or use a stored baseline. 
The accuracy of your baseline determines the accuracy of your measurement.  
You should perform a zero/baseline correction before running your samples 

after the instrument has warmed up for ~20 minutes using the same scan 
parameters that you will use for your sample.  
The Cary WinUV system collects a new baseline when you select any type of 

baseline correction in the Baseline tab of the Setup dialog box and then click 

Baseline

 button in the application window. Depending on the type of correction 

you have selected, the Cary will prompt you to perform either one or two 

baseline scans. The first is a 100%Tbaseline (for the DRA with the 100% 
reference material in the sample positions). The second, if required, is a 

0%Tbaseline (with the sample beam blocked). 
Once the baselines have been collected, they will be automatically applied to 
each collected sample data point as it is displayed (indicated by the red display). 

If there is not a corresponding data point in the current baseline, then the file 
will be interpolated to provide the correction. The correction applied to each 
point is dependent on the selected baseline type in the Baseline tab.  
A baseline cannot be applied to a sample where the abscissa range of the sample 
exceeds that of the baseline. If you change your abscissa range to one outside 

that of the baseline, the Cary will display an error message. Also the red text in 
the ordinate display which indicates that baseline correction mode is activated 
will disappear. 
For reflection measurements using the aperture kit, if the beam spot overfills the 
aperture, you can correct for this “stray light” by performing a Zero/baseline 

Correction.  Normally, the 0%TBaseline scan is run by blocking the beam before 
it enters the integrating sphere, which accounts for electronic noise. In this case, 
do not block the beam, but instead remove the reflectance port cap to account 

for the light reflecting on the edges of the aperture (the remainder of the light 
should pass through the integrating sphere and not be detected).   

Performing a Zero/Baseline Correction:

 Select this option to apply a 100%T 

baseline correction (100%TBaseline) and a zero-line correction (0%TBaseline) 
to the sample scan (S). This correction is performed with the raw transmission 

data and is thus: 

(

𝑆

(

0%

𝑇𝐵𝑎𝑠𝑒𝑙𝑖𝑛𝑒

)

)

(

100%

𝑇𝐵𝑎𝑠𝑒𝑙𝑖𝑛𝑒

0%

𝑇𝐵𝑎𝑠𝑒𝑙𝑖𝑛𝑒

)

 

With this option, the Cary will prompt you to perform a 100%TBaseline first, 
followed by a 0%TBaseline when you perform a baseline collection. 
This baseline option corrects for any inherent variations in the electronic zero 
line of the instrument. You should use this baseline option if your samples have 

areas of very low transmission (high absorbance) as any variations in the 

Summary of Contents for Cary 5000

Page 1: ...n on computer 2 Check lens and mirror are correct for your measurement a Install Small Sample Kit mirror M3 SSK or regular M3 mirror if needed b If using SSK install correct lens L2 3 Make sure cover...

Page 2: ...e Turn on the instrument 0 I switch on the lower left side of the front of the instrument In the Scan program watch the lower left corner to see the status of the instrument When the traffic light is...

Page 3: ...mounts in front of the sample see Figure 4 There are three lenses that can be used again for the three positons marked as T C or R Each time the sample configuration is changed the optics need to be...

Page 4: ...T C and R for the three positions of the integrating sphere Also the large mirror M3 is switched out for a one with a different curvature this mirror is always kept in the T position regardless of the...

Page 5: ...on located in the upper left hand corner defines the scan parameters The following useful tabs can be found under Setup Cary tab Here you can set the units of the x and y axes nm cm 1 etc and A T R et...

Page 6: ...be applied to a sample where the abscissa range of the sample exceeds that of the baseline If you change your abscissa range to one outside that of the baseline the Cary will display an error message...

Page 7: ...x at the end of a collect where you can enter the Batch file name for your data Note In the Scan application Prompt at Start and Prompt at End save information as a DSW file unless there are multi or...

Page 8: ...multiple graphs in the Graphics area You can double click on the Graphics area to toggle the display through graph and report to graph only The graph functions can also be accessed by clicking one of...

Page 9: ...ich Text Format file How to Export Collected Data If you want to export data from a Cary WinUV application into a third party application then save your data as an ASCII CSV file To do this 1 Click Fi...

Page 10: ...eck box is not checked 8 In the File name field type in the file name for your new batch file 9 Click Save to create the new batch file The current method will be stored with the batch files All the d...

Page 11: ...SBW will change automatically to maintain the required signal level If you are collecting data in double beam mode across the UV Vis and NIR regions with Fixed SBW set as the Measurement Mode then you...

Page 12: ...nes for another Scan run you simply open the file using either the File Open Data command or click the Baseline button in the Baseline tab of the Setup dialog box Note If you decide that you do not wa...

Page 13: ...gle bounce relative SRA accessories should not use this correction Select a Baseline Zero correction instead This correction is performed with the raw transmission data and due to the double bounce on...

Page 14: ...owever sometimes you may notice that the text has turned to gray and is in italics This indicates that the Cary is currently idling outside the abscissa range of the baseline file but that the current...

Page 15: ...ferences and Graph Preferences options 1 Graph menu options Print XY point Select this to print the cursor s current X and Y coordinates in the report area This option is only available when right cli...

Page 16: ...to Arrange Graphs Select Auto Arrange Graphs to view and arrange all graphs simultaneously Copy Graph Select this to copy the Graphics area onto the Windows Clipboard Paste to Graph Select this to pas...

Page 17: ...in traces You can resize the Name of Trace and File name fields by selecting and dragging the splitter bar between the fields File Name This field displays the file name and path of the trace If the n...

Page 18: ...il the font is changed again Trace Style This field allows you to define the way that your trace will appear on screen Points Each individual data point collected by the Cary is shown on the graph Poi...

Page 19: ...e right side of each graph box A single click on a sample name or example line within the legend will make it the focused or red scan Information about the trace will be displayed below the X axis Dou...

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