experiment, 114, 146 default directory for, 76 file with digital signature, 7 interferograms, 102, 119 log as text file or rich text format (RTF) file, 77 default directory for, 76 macro, 76 report template, 305 spectrum, 53, 154 as different file type, 54 automatically, 76, 89, 118 default directory for, 76 file type for, 76 in group, 55 in log, 77 requiring digital signature for, 102 when closing spectral window, 15, 91 with new filename, 54 Savitsky-Golay algorithm used for smoothing, 218 scans collecting more, 151, 157 number of displayed in Collect Sample window, 148 for collecting spectrum, 115 in sampling information, 100, 172 included in printed information, 84 number of additional, 151 scattering baseline tilted due to, 198 scrapbook library creating, 271 defined, 270 scrolling spectra, 43 sealed and desiccated spectrometer, 142 Seaport, 125 search extended, 246 selecting method for in EZ OMNIC, 251 Search, 257 how to use, 258 search expert, 247 adding green check mark or red X from to report template, 299 comments, 257, 259 printing, 262 using in EZ OMNIC, 251 search library creating, 271 defined, 270 searching library, 257 adding results of to report template, 298 affected by baseline, 199 affected by noise, 262 affected by optical dispersion, 205 affected by straight line, 208 affected by totally absorbing peaks, 131, 262 algorithm for, 248 and ATR correction, 205 blanking derivative peaks before, 208 blanking spectral regions before, 208 correcting baseline before, 262 correcting spectrum for pathlength variation before, 207 data spacing for, 221 finding results of by searching for text in reports, 314 for text, 280 match value for, 248 maximum number of spectra found by, 248 preparing samples before, 262 printing results of, 261 setting up for, 243 special criteria for, 246 spectral regions for, 248, 249, 250 using EZ OMNIC, 251 using search expert, 247 report notebook for text, 314 selecting libraries for, 244 second derivative converting spectrum to, 222 described, 222 noise in, 223 security, 4, 5 options, 101 Security options, 101 displaying, 102 Select All, 73 how to use, 73 selected spectrum color, 16, 23 deselecting, 24 hiding, 42, 175 image contained in view finder, 19 title, 17, 23 selecting all spectra in spectral window, 73 annotation, 27 baseline points for correction, 199 configuration, 63 detector, 147 experiment, 111 default directory for, 76 font, style and size for text, 81 library, 272 library spectrum, 273 more than one spectrum, 18, 23 report template, 305 default directory for, 76 source, 147 spectral region, 28 spectrum, 73 by clicking title, 18 using arrow keys, 18, 19 using selection tool, 23 using title box, 18 tool on palette, 23 window, 319 336 Thermo Nicolet
selection tool and Automatic Full Scale, 181 described, 23 deselecting spectrum using, 24 dragging spectrum into another spectral window using, 26 expanding spectrum using, 24 finding X and Y values using, 23 moving spectrum up or down within pane using, 26 moving stacked spectrum into another pane using, 26 reducing size of spectrum using, 25 selecting annotation using, 27 selecting more than one spectrum using, 23 selecting spectrum using, 23 sensitivity background checks, 129 for finding peaks, 237 spectral quality check, 130 spectrum checks, 127 series data default directory for opening, 76 series experiment sample spacing, 138 Set New Spectral Quality Reference, 159 shortcut OMNIC, 4 Show Optical Layout, 147 how to use, 147 Si detector aperture for, 124 Sigma Biological Sample Library, 235 Sign File, 56 how to use, 56 signature adding, 56 adding to report, 312 for saving file, 7 requiring when saving file, 102 verifying, 57 signing file, 56 report, 312 signing file, 7 single-beam spectrum displaying detector signal as, 122 final format, 117 Fourier transforming interferogram into, 150 single-sided interferogram, 140 Smart Accessory checking for presence of, 89 displaying information about, 142 experiment, 111 for collecting spectra, 126 spectral quality reference spectrum, 159 Smooth, 218 how to use, 219 smoothing spectrum, 218 automatically, 220 number of points for, 218 solvent removing spectral features due to from mixture spectrum, 212 subtracting spectrum of, 213 source checking, 142 collecting background spectrum after changing, 155 configuring system after installing, 144 for collecting spectra, 126 selecting, 147 spectral range, 126, 127, 134 type, 148 in sampling information, 100, 172 shown in report, 298 space between toolbar buttons, 107 Spectacle file type extension for, 48, 77 spectra overlaying, 39, 173 performing statistical calculations on, 240 removing list of from screen, 19 saving as a group, 55 scrolling, 43 selecting, 18 selecting all, 73 selecting multiple, 18 stacking, 39, 40, 173 titles displaying, 18 Spectra file type extension for, 48, 77 spectral cursor, 30 moving, 31 spectral cursor tool, 30 labeling peak with uncorrected height using, 31 positioning spectral cursor using, 31 X and Y values displayed when selected, 31 spectral data file deleting, 67 extension, 76 extensions, 47 prompting before overwriting, 77 Spectral Groups file type extension for, 48 Spectral Math, 225 how to use, 227 spectral quality checks, 127, 149, 156 adding results of to report template, 298 reference spectrum displaying, 159 specifying, 159 sensitivity, 130 turning on or off, 129 spectral quality reference spectrum displaying, 159 specifying, 159 spectral range affected by sample spacing, 138 checking, 133 collecting background spectrum after changing, 155 OMNIC User’s <strong>Guide</strong> 337
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The information in this publication
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Peak area tool.....................
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Checking spectrometer performance a
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Process............................
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Selecting, editing or creating a re
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How to use this manual This manual
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• If you do not have the DS optio
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Note If you have the DS option, you
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Digital signature information in a
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There are several ways to enter the
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Note Some tutorials are available o
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Note If you are using Windows 2000
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Panes A pane is an area of the spec
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Displaying a list of spectrum title
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Displaying a different spectral reg
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Copying information to the Clipboar
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Note You can select all the display
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Next, hold down the Shift key and c
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Region tool Some OMNIC commands can
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You can position the annotation tex
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You can position the annotation by
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2. Click the Annotate button to the
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The corrected area is bordered by t
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2. Edit the label text if desired.
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Overlaying spectra lets you see sig
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When you hide a stacked spectrum, a
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If a pane containing a spectrum is
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46 Thermo Nicolet
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File Type Extension Comments Spectr
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The settings available in the Y Uni
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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
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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
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Delete files 1. Choose Delete Files
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When you cut a displayed stacked sp
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Pasting duplicate images of spectra
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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
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Setting Smart Purge The Smart Purge
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Specifying how to list peaks found
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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
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State Enabled Disabled Hidden Descr
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6. If you disabled or hid the Save
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5. Specify the size of the toolbar
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Note You can create an image for a
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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
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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
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Fringes result when back reflection
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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
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As an example, for a standard DTGS
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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
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The positive settings move your vie
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What happens during collection? The
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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
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Undo a display limit change Choose
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To specify this or do this... The n
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To remove the grid from a spectral
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Note You can display annotations ve
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This format is suitable for high re
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Specifying the sampling information
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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
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Display spectra full scale automati
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Displaying and using a toolbar Use
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Converting spectra to absorbance Us
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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
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• To change the final format. You
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What is a baseline? A baseline cons
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Important Be careful not to introdu
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The X and Y values of the point app
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8. When you are finished correcting
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Before searching an ATR spectrum ag
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• A spectrum includes the region
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Replacing a spectral region with a
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Subtracting spectra Use Subtract in
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2. Choose Subtract from the Process
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Subtracting a component or contamin
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Note If negative peaks appear in th
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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
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Here is the normalized spectrum: In
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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
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3. Choose Average from the Process
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Range of Y values versus X value Pe
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4. If you are not using the search
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Using extended search The Extended
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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
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9. Choose Search. The search result
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The kinds of information displayed
- Page 296 and 297: 2. Click the Create/Edit Structures
- Page 298 and 299: If you want to print the informatio
- Page 300 and 301: When you are ready to start printin
- Page 302 and 303: You can only add the spectrum to a
- Page 304 and 305: 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
- Page 310 and 311: 3. Specify the item type by selecti
- Page 312 and 313: 5. Choose Preview/Print Report from
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- Page 316 and 317: The page number of the currently di
- Page 318 and 319: 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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- Page 328 and 329: 5. To search for reports that conta
- Page 330 and 331: Note When windows are tiled, they m
- Page 332 and 333: atmospheric effects suppressing, 94
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- Page 342 and 343: OMNIC Atlµs default directory, 76
- Page 344 and 345: Process options, 90 Protégé spect
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