Thermonicolet Omnic Software User's Guide 6.1 (PDF) - Charles E ...

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Peak area tool......................................................................................... 34 Annotation tool...................................................................................... 37 Overlaying and stacking spectra ................................................................. 39 Overlaying spectra................................................................................. 39 Stacking spectra..................................................................................... 40 Task windows................................................................................................... 44 File......................................................................................................................... 47 Opening spectra................................................................................................ 47 Opening a CSV text file.............................................................................. 48 Opening a spectrum by dragging its file into a spectral window................ 51 Opening a spectrum by choosing its filename from the File menu............. 51 Saving a spectrum ............................................................................................ 53 Saving spectra using new filenames................................................................. 54 Saving a group of spectra................................................................................. 55 Signing a file .................................................................................................... 56 Verifying a digital signature............................................................................. 57 Opening a configuration................................................................................... 58 Saving a configuration ..................................................................................... 59 Logging into OMNIC as a different user ......................................................... 61 Adding a user name.......................................................................................... 62 Turning OMNIC log-in on or off ..................................................................... 63 Opening or closing a log .................................................................................. 64 Printing............................................................................................................. 66 Setting up the printer........................................................................................ 67 Deleting files .................................................................................................... 67 Exiting OMNIC................................................................................................ 68 Edit ........................................................................................................................ 69 Undoing operations .......................................................................................... 69 Cutting items .................................................................................................... 69 Copying items .................................................................................................. 70 Pasting items .................................................................................................... 71 Pasting duplicate images of spectra.................................................................. 72 Deleting spectra................................................................................................ 72 Selecting all the spectra in a spectral window.................................................. 73 Deleting annotations......................................................................................... 73 Customizing OMNIC by setting options.......................................................... 73 File options ................................................................................................. 74 Specifying directories ............................................................................ 75 Specifying a file type for opening and saving spectra........................... 76 Placing opened spectra into new spectral windows............................... 77 Displaying a warning before overwriting a file..................................... 77 Saving a log as a rich text format (RTF) file ......................................... 77 Normalizing the frequency automatically.............................................. 77 View options............................................................................................... 78 Specifying how to display annotations .................................................. 79 Specifying the thickness of tick marks .................................................. 79 Specifying the spectrum line thickness.................................................. 79 Specifying colors for spectra and other features.................................... 79 Selecting a style for windows and dialog boxes .................................... 81 Specifying fonts for displayed text........................................................ 81
Print options ................................................................................................82 Specifying how to print axes..................................................................84 Printing an information box with spectra...............................................84 Printing a box around spectra.................................................................84 Specifying margins for printing .............................................................85 Specifying how to print spectra and other images .................................85 Specifying fonts for printed text.............................................................85 Collect options.............................................................................................86 Placing collected spectra into new spectral windows.............................87 Displaying prompts to insert and remove the sample ............................87 Displaying a warning if the aperture is too large ...................................88 Normalizing the frequency automatically ..............................................88 Specifying how to title collected spectra................................................89 Surveying the spectrometer and Smart Accessory .................................89 Setting Smart Purge................................................................................90 Process options............................................................................................90 Closing task windows automatically......................................................91 Limiting spectral data processing...........................................................91 Saving spectra before closing spectral windows....................................91 Specifying how to list peaks found by Find Peaks.................................92 Specifying water and carbon dioxide reference spectra.........................92 Specifying an additional reference for atmospheric suppression ...........94 Window options ..........................................................................................94 Spectral View .........................................................................................96 Specifying how to display annotations in new spectral windows ..........97 Specifying an X-axis format for new spectral windows ........................98 Overlaying or stacking spectra in new spectral windows.......................98 Displaying a prompt for titling new spectral windows ..........................98 Specifying how to stack spectra in new spectral windows.....................99 Specifying the sampling information to display in new spectral windows..............................................................................99 Specifying X-axis display limits for new spectral windows ................101 Security options.........................................................................................101 Preventing the overwriting of files.......................................................102 Saving the interferograms with collected spectra.................................102 Requiring digital signatures .................................................................102 Displaying the Security tab ..................................................................102 Specifying the default configuration location ......................................102 Customizing a menu .......................................................................................103 Customizing a toolbar.....................................................................................106 Collect ..................................................................................................................111 Selecting an experiment..................................................................................111 Using the provided example experiments.......................................................112 Restoring the default settings ....................................................................112 Using Experiment Setup .................................................................................113 Collect parameters.....................................................................................114 Specifying the number of scans ...........................................................115 Specifying the resolution......................................................................116 Selecting the final format .....................................................................116 Selecting a correction type ...................................................................117 Automatically suppressing atmospheric effects ...................................117
Page 2 and 3: The information in this publication
Page 6 and 7: Checking spectrometer performance a
Page 8 and 9: Process............................
Page 10 and 11: Selecting, editing or creating a re
Page 12 and 13: How to use this manual This manual
Page 14 and 15: • If you do not have the DS optio
Page 16 and 17: Note If you have the DS option, you
Page 18 and 19: Digital signature information in a
Page 20 and 21: There are several ways to enter the
Page 22 and 23: Note Some tutorials are available o
Page 24 and 25: Note If you are using Windows 2000
Page 26 and 27: Panes A pane is an area of the spec
Page 28 and 29: Displaying a list of spectrum title
Page 30 and 31: Displaying a different spectral reg
Page 32 and 33: Copying information to the Clipboar
Page 34 and 35: Note You can select all the display
Page 36 and 37: Next, hold down the Shift key and c
Page 38 and 39: Region tool Some OMNIC commands can
Page 40 and 41: You can position the annotation tex
Page 42 and 43: You can position the annotation by
Page 44 and 45: 2. Click the Annotate button to the
Page 46 and 47: The corrected area is bordered by t
Page 48 and 49: 2. Edit the label text if desired.
Page 50 and 51: Overlaying spectra lets you see sig
Page 52 and 53: When you hide a stacked spectrum, a
Page 54 and 55:
If a pane containing a spectrum is
Page 56 and 57:
46 Thermo Nicolet
Page 58 and 59:
File Type Extension Comments Spectr
Page 60 and 61:
The settings available in the Y Uni
Page 62 and 63:
If Put Opened Spectrum In New Windo
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3. If the Save As dialog box appear
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2. Choose Save Group from the File
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2. Locate and select the desired fi
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Save a configuration This procedure
Page 72 and 73:
A dialog box appears. 2. Type a use
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Note The Enable OMNIC Log-In comman
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Note If a spectrum has been pasted
Page 78 and 79:
Delete files 1. Choose Delete Files
Page 80 and 81:
When you cut a displayed stacked sp
Page 82 and 83:
Pasting duplicate images of spectra
Page 84 and 85:
Note The options you set using Opti
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File Type Initial Spectra Initial E
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Normalize the spectra of standards
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In the upper-left corner of the dia
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Type Annotation Axis Labels Axis Nu
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Specifying how to print axes The op
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Text Type Annotation Axis Labels Ax
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Note If you have turned off Prompt
Page 100 and 101:
Setting Smart Purge The Smart Purge
Page 102 and 103:
Specifying how to list peaks found
Page 104 and 105:
4. Collect a sample spectrum with n
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To specify or do this... The X-axis
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Turn on Display All Annotation if y
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Item Company Name Spectrum Title Da
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Preventing the overwriting of files
Page 114 and 115:
State Enabled Disabled Hidden Descr
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6. If you disabled or hid the Save
Page 118 and 119:
5. Specify the size of the toolbar
Page 120 and 121:
Note You can create an image for a
Page 122 and 123:
The experiment you select also sets
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Note The experiment you select also
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Note If you are studying samples th
Page 128 and 129:
When deciding whether to use this f
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Titling the experiment Bench featur
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The peak-to-peak intensity is the s
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• It helps prevent infrared energ
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Specifying the beamsplitter type If
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The parameter checks appear when yo
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The individual checks are described
Page 142 and 143:
Fringes result when back reflection
Page 144 and 145:
A beamsplitter, detector, source or
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Type the desired minimum peak-to-pe
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Setting Boxcar N-B* Weak N-B* Mediu
Page 150 and 151:
As an example, for a standard DTGS
Page 152 and 153:
If you have installed a Smart Acces
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• Install a 32-bit version of OMN
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• To save the settings in the cur
Page 158 and 159:
The positive settings move your vie
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What happens during collection? The
Page 162 and 163:
3. Choose Collect Sample from the C
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Note To store the spectrum on the h
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Viewing the age of the background D
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If Preview Data Collection is turne
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If at any time the system condition
Page 172 and 173:
Undo a display limit change Choose
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To specify this or do this... The n
Page 176 and 177:
To remove the grid from a spectral
Page 178 and 179:
Note You can display annotations ve
Page 180 and 181:
This format is suitable for high re
Page 182 and 183:
Specifying the sampling information
Page 184 and 185:
Stacked spectra Stacking spectra is
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Full Scale brings the highest data
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Match the Y-axis scale of a spectru
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Display spectra vertically offset 1
Page 192 and 193:
Display spectra full scale automati
Page 194 and 195:
Displaying and using a toolbar Use
Page 196 and 197:
Converting spectra to absorbance Us
Page 198 and 199:
The units are described in the next
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The photoacoustic value (PAS) at a
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Micrometers Select Micrometers to c
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4. Choose OK. • If you selected K
Page 206 and 207:
• To change the final format. You
Page 208 and 209:
What is a baseline? A baseline cons
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Important Be careful not to introdu
Page 212 and 213:
The X and Y values of the point app
Page 214 and 215:
8. When you are finished correcting
Page 216 and 217:
Before searching an ATR spectrum ag
Page 218 and 219:
• A spectrum includes the region
Page 220 and 221:
Replacing a spectral region with a
Page 222 and 223:
Subtracting spectra Use Subtract in
Page 224 and 225:
2. Choose Subtract from the Process
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Subtracting a component or contamin
Page 228 and 229:
Note If negative peaks appear in th
Page 230 and 231:
3. Select the desired number of smo
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Converting spectra to their first o
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Multiplying a spectrum by a number
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Symbol Meaning Examples / Divide. A
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• To change the factor using the
Page 240 and 241:
Here is the normalized spectrum: In
Page 242 and 243:
Normalize the scale of spectra 1. S
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Example libraries The following sec
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Click the Print button in the Find
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6. To display or remove the Y-axis
Page 250 and 251:
3. Choose Average from the Process
Page 252 and 253:
Range of Y values versus X value Pe
Page 254 and 255:
4. If you are not using the search
Page 256 and 257:
Using extended search The Extended
Page 258 and 259:
When you perform the search, the ex
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All the QC libraries and library gr
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Set up a spectral search (The proce
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7. Specify the number of found libr
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5. Specify the spectral regions to
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Search a spectral library 1. Use Li
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If you did not use the search exper
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To print the search expert’s comm
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Color-coded titles of the spectrum
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To print the spectrum and functiona
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You can choose Overlay Spectra from
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Working with libraries Click the Li
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Once a library is created, you can
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3. Click the name of the user libra
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A copy of the spectrum is placed in
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• If you are adding more than one
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3. Click the name of the library. T
Page 292 and 293:
9. Choose Search. The search result
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The kinds of information displayed
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2. Click the Create/Edit Structures
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If you want to print the informatio
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When you are ready to start printin
Page 302 and 303:
You can only add the spectrum to a
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3. If you want to reset the data co
Page 306 and 307:
Follow these general steps to creat
Page 308 and 309:
Type Spectrum Comments Spectrum Cus
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3. Specify the item type by selecti
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5. Choose Preview/Print Report from
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4. If the item type is Spectral Win
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The page number of the currently di
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7. Close the Report Template window
Page 320 and 321:
Adding a report to a notebook Use A
Page 322 and 323:
To view a report notebook, use View
Page 324 and 325:
Searching for text Click the Search
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Express dates on this tab in the fo
Page 328 and 329:
5. To search for reports that conta
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Note When windows are tiled, they m
Page 332 and 333:
atmospheric effects suppressing, 94
Page 334 and 335:
status of, 148 time for, 115, 116,
Page 336 and 337:
detector interface kit, 123 detecto
Page 338 and 339:
finding peaks, 235 fingerprint regi
Page 340 and 341:
special criteria for, 246 spectral
Page 342 and 343:
OMNIC Atlµs default directory, 76
Page 344 and 345:
Process options, 90 Protégé spect
Page 346 and 347:
experiment, 114, 146 default direct
Page 348 and 349:
detector, 127 filter for, 139 for c
Page 350 and 351:
displaying, 14, 20, 39, 95 color fo
Page 352 and 353:
text adding to report template, 297
Page 354:
x X-axis, 14, 17 display limits, 17
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Thermonicolet Omnic Software User's Guide 6.1 (PDF) - Charles E ...

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