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LabSpec Software

USER GUIDE

Part Number: 31 087 064


COPYRIGHT
Copyright 1999 Dilor-Jobin Yvon-Spex, HORIBA group division. All rights reserved. No parts of this publication may
be reproduced, transmitted, transcribed, stored in a retrieval system, or translated into any language or computer language,
in any form or by any means, electronic, mechanical, magnetic, optical, chemical, manual or otherwise, without prior writ-
ten permission of Dilor-Jobin-Yvon - Spex, HORIBA group division (FRANCE).

NOTICE TO THE USER


This manual should not be construed as any representation or warranty with respect to the unit named herein. Occasionally,
changes or variations exist in the unit that are not reflected in the manual. Generally, should such changes or variations exist
and affect the product significantly, a release note would accompany the manual. In such a case, be sure to read the release
note before using the product.
Trademarks: LabSpec is a registered trademark of Instruments S.A.; IBM, PC-XT, PC-AT, Windows 95 are registered trade-
marks of International Business Machines Corporation; MS-DOS is a registered trademark of Microsoft Corporation.

Version 1.1
Dilor-Jobin Yvon-Spex
All Rights Reserved
Printed in France
MM-NP/Labdoc.FM/0399
August 1999

Jobin Yvon-Spex 16-18, rue du Canal


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Tel: (33) 01 64 54 13 00 - Telex: JOBYVON 602882 F
Fax: (33) 01 69 09 93 19 - (33) 01 69 09 07 21
Internet site: http://www.JobinYvon.com , http:// www.Isainc.com

Dilor S.A. 244 ter, rue des Bois Blancs


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Tel: (33) 03 20 08 12 20 - Fax: (33) 03 20 08 12 28/29
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Email: 100271.330@Compuserve.com

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Tel: (31) 0/1720 33323 - Fax: (31) 0/1720 39532

LabSpec Software i-2


Dilor-Jobin Yvon-Spex, Horiba group division

With its long experience in research and manufacture of scientific instruments (since 1819), the Dilor-
Jobin Yvon-Spex equipment, division of HORIBA Group, uses state of art technology for optical,
mechanical, electronic and computer management.

The result is unequaled comfort and flexibility of use, with less human error, for the kind of precision
and reproducibility of measurements that are required in laboratory work today.

Last but not least, Dilor-Jobin Yvon-Spex instruments are designed and manufactured with total user
safety in mind.

Our Internet Site: http://www.JobinYvon.com


http://www.Isainc.com

LabSpec Software i-3


Warranty

Dilor-Jobin Yvon-Spex, HORIBA Group division, guarantees each instrument it manufactures for a
period of one (1) year, including parts and labor. Our obligations during this period will be limited to
the repair or replacement -at our discretion- of every instrument returned to the factory, shipment pre-
paid, during a period of one (1) year from the date of delivery to the original purchaser, providing that
Dilor-Jobin Yvon-Spex or its representative gives prior approval.

LabSpec Software i-4


About the LabSpec User Guide

Your approach to the LabSpec User Guide depends on what you want to do and how much you already
know.

The following list gives a brief description of each section of this manual.

1. Introduction
2. Reference section
4. Tips section
5. Index

LabSpec Software i-5


LabSpec Software i-6
Contents

Icons list . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9

Menu Bar Description . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47

LabSpec Software i-7


LabSpec Software i-8
1.1 Icons list
Icon 1 : Standard cursor of work - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 2 : Peak elimination - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 3 : Shape correction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 4 : Zoom - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 5 : Horizontal shift - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 6 : Vertical shift - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 7 : Intensity adjustment - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 8 : Shift - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 9 : Manual addition - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 13
Icon 10 : Manual multiplication - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14
Icon 11 : Manual labeling of peaks- - - - - - - - - - - - - - - - - - - - - - - - - page 14
Icon 12 : Move peak maxima - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14
Icon 13 : Fit peak width - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14

Icon 14 : Delete active object - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14


Icon 15 : Load a file- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14
Icon 16 : Save the active object - - - - - - - - - - - - - - - - - - - - - - - - - - - page 14
Icon 17 : Cursor normalization - - - - - - - - - - - - - - - - - - - - - - - - - - - page 16
Icon 18 : Normalization - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 16
Icon 19 : Print page - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 16
Icon 20 : Information about object - - - - - - - - - - - - - - - - - - - - - - - - - page 16
Icon 21 : Multiwindow automatic spectra recording - - - - - - - - - - - - - page 17
Icon 22 : Mathematical treatments - - - - - - - - - - - - - - - - - - - - - - - - - page 17
Icon 23 : Baseline correction - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 19
Icon 24 : Correction- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 21
Icon 25 : Profile - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 23
Icon 26 : Filtering - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 26
Icon 27 : Fourier filtering - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 29
Icon 28 : Peak fitting - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 30
Icon 29 : Integral calculation - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 33
Icon 30 : Palette window - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 33
Icon 31 : Zoom - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 34
Icon 32 : Spectral mapping procedure- - - - - - - - - - - - - - - - - - - - - - - page 35

LabSpec Software 9
Icons list

Icon 33 : Model procedure - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 36


Icon 34 : Video image - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 36
Icon 35 : Spectrum adjustment - - - - - - - - - - - - - - - - - - - - - - - - - - - page 36
Icon 36 : Spectrum recording - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 37
Icon 37 : CCD image adjustment - - - - - - - - - - - - - - - - - - - - - - - - - - page 37
Icon 38 : Spectral images recording - - - - - - - - - - - - - - - - - - - - - - - - page 37
Icon 39 : Data size - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 38
Icon 40 : Acquisition parameters - - - - - - - - - - - - - - - - - - - - - - - - - - page 41
Icon 41 : Detector parameters - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 42
Icon 42 : Morphological imaging - - - - - - - - - - - - - - - - - - - - - - - - - - page 43
Icon 43 : Calibration of the XY table - - - - - - - - - - - - - - - - - - - - - - - page 43
Icon 44 : Configuration - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 45
Icon 45 : Scheme- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - page 46
Icon 46 : Stop of spectra recording - - - - - - - - - - - - - - - - - - - - - - - - - page 46
Icon 47 : Different types of cursors - - - - - - - - - - - - - - - - - - - - - - - - page 46

LabSpec Software 10
14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 46
LabSpec Software

30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45

1
2
3
4
5
6
7
8
9
10
47
11
12
13
11
Icons list

1.2 Control panel

Laser: Value of the exciting line.

Filter: There are 6 neutral filters with the optical densities 0.3, 0.6, 1, 2, 3 and 4.
filter [---] = no attenuation (P0), [D0.3] = P0/2, [D0.6] = P0/4, [D1] = P0/10,
[D2] = P0/100, [D3] = P0/1000 and [D4] = P0/10000

Hole:Value of the hole aperture.


: go to minimum value of the hole
: go to maximum value of the hole
: Initialize hole, go to minimum value of the hole and go back to the previous position.

Spectr: Position of the spectrograph


: go to zero order
: go to the diode position
: Initialize spectrograph, go to zero order and go back to the previous position.

Time: Recording time (seconds).and number of accumulations

Options:

: 1800g/mm and 300, 600 or 1200 g/mm. Be careful to initialize spectrograph if the grating
is changed.

: Three different objectives can be chosen: 10, 50, 100.

: Enter a name for the next recorded spectrum. The program will add an incremental number
after the entered name. Be careful to give no more than 8 characters.

LabSpec Software 12
Icon 1 Standard cursor for working

1.3 Description of the panel icons


Icon 1 Standard cursor for working

Allows to come back to the standard cursor after having selected one of the other tools that are
presented by the icons 2 to 11. This tool allows to move the different cursor found in the acqui-
sition window.

Icon 2 Peak elimination

This feature removes peaks that we do not want to observe.

Icon 3 Shape correction

This feature permits to modify a spectrum by moving each point of the spectrum.

Icon 4 Zoom

Press the left button of the mouse and draw a rectangle which select the part of the spectrum to
zoom.

Icon 5 Horizontal shift

Move the abscissa scale of the spectrum

Icon 6 Vertical shift

Move the ordinate scale of the spectrum

Icon 7 Intensity adjustment

This feature allows to adjust the scale in intensity of a spectrum.

Icon 8 Shift

Move the scale of a spectrum

Icon 9 Manual addition

This option allows the user to add a constant to the active spectrum.
This is a manual method, using the mouse:
1 Press the mouse left button +Const ,
2 Move the spectrum up and down, then press OK to validate.

LabSpec Software 13
Icons list

Icon 10 Manual multiplication

This option allows the user to multiply the active spectrum by a constant.
This is a manual method, using the mouse.
The procedure is the same as the one for manual addition.

Icon 11 Label of the peak

The wavelength or wavenumber of a peak appears if the left button of the mouse is pressed.
The label will be deleted by pressing the right button of the mouse.

Icon 12 Move peak maxima

By pressing the left button of the mouse, the label of a peak can be moved precisely. The label
selected is in white, by default it is the last one, but another color can be selected in the window
Bands Parameters (icon 45 then button Bands)

Icon 13 Fit peak width

By pressing the left button of the mouse, the width of a band can be changed. As for the icon
number 5, the bandwidth in the window Bands parameters can be selected (icon 45 then
button bands)

Icon 14 Delete

Delete the active object (e.g. acquired spectrum) in the active window.

Icon 15 Load

Load from the disk. The appropriate previously saved file will automatically be opened.

Icon 16 Save the active object (spectrum)

The active object like an acquired spectrum can be saved on the hard disk.

SPECTRA.

When a spectrum is acquired, it is not saved but remains in the Random Access Memory
(RAM) of the computer.
If several spectra are acquired, different color dots will be displayed on the right edge of the
window. Each dot takes the same color as the displayed spectrum and each dot works as a
radio toggle button. Each time an acquisition is performed a new color button is added.The
full names of the spectra are indicated in the object menu command.

LabSpec Software 14
The active object like an acquired spectrum can be saved on the hard

To save one of the displayed spectra, activate the spectrum window, select the desired spec-
trum by pressing the radio button, then choose one of the following methods

1- Click on the following icon: then enter the file name, its location and format.

2- From the file Main Menu, select the Save As option, then enter the file name, its
location and format.

Before saving, it would be useful to complete the information list about the spectrum (operator,
laser power, etc...) by pressing the icon . Some parameters (hole, slit, spectro, grating, time,
accum, date) are automatically updated.

LabSpec file formats.

The following is a list of the various file formats that LabSpec supports to save the acquired
spectra or images:

- Compressed Tiff (*.tsf): It is a compressed format, specific to the Labspec software,

- Extended Tiff (*.tsf): It is a specific format of the Labspec software

- Dilor format (*. ms0): This format can be used with the other DILOR softwares.

- Text format (*.txt): This is an ASCII mode format which uses two columns: wave-
length/Wavenumber and intensity, without header.

- Spectra Calc format (*.spc), This format is used by SpectraCalc and Grams process-
ing softwares.
IMAGES.

The save procedure always saves the content of the active window. To save an image, acti-
vate the window that contains all the spectra. If the single spectrum window choise is acti-
vated, only this spectrum will be saved, and not the whole spectral image.

To save a video image, activate the window that contains the video image.

LabSpec Software 15
Icons list

Image file formats

Extended Tiff (*.tvf)


It is a binary format for spectral images, or time kinetic. If a spectral image is saved in this for-
mat, the models can be saved together with the image. Two images can be added in one file.

Compressed Tiff (*.tvf)


It is a compressed format

Text format (*.txt)


The data given by this format are the intensities; the wavelength or wavenumber parameter is
losen.

Standard Tiff (*.tif)


This option should only be used for 2D array of data, not for spectral images.

Color Tiff (*.tif)


This format is used to save color Video images.

Icon 17 Cursor normalization

Bring cursor to the center of the active window. Sometimes the cursor is not visible, in this case
move the mouse.

Icon 18 Normalization

Automatic scaling optimization of a spectrum or an image.

Icon 19 Print page

Video images, spectral images or spectra can be inserted and printed on a prepared layout page.
There is another way to print the data: transfer them to another Windows 95/Windows 98
software using the copy pictures or copy data choices from the EDIT menu.

This Print icon prints out the objects of the active window

The layout page can be configured with the option print set up from the EDIT menu.

Icon 20 Information about object

Information about an acquired spectrum or image. Most of the information is inserted


automatically into this table, enter the name of the sample, the name of the operator, the laser
power, the name of the file and some eventual remarks. Once performed, press OK button
to validate.

LabSpec Software 16
Icon 22 Mathematical processing

Icon 21 Multi-Window automatic spectra gluing

When several regions have been acquired, these regions can be glued with the Multi-Window
Option feature. The result is displayed in a new window and the previous separate regions are
not deleted.

Example:

The figure above gives the example of a 3 windows acquisition, the first one covers 200-500
cm-1, the second one 1200-1800 cm-1 and the third 2300-2700 cm-1.
If the whole spectrum between 200 and 3000 cm-1 must be acquired, select the first line and
the numbers 200 and 3000 in the box Window limits .

If the combine feature has not been validated before the acquisition, it is possible to perform it
after an acquisition by pressing the button COMBINE ; once activated, it will combine all
the spectra of the active window.

Icon 22 Mathematical processing

These mathematical procedures can be applied to spectra, spectral profiles, spectral images and
Video images.

Available calculations:
- Calculate a function of the active spectrum,
- Add a constant to a spectrum,
- Multiply a spectrum by a constant,
- Add, subtract, multiply, divide two spectra,

LabSpec Software 17
Icons list

A:

Constant for addition

This option adds a constant to a spectrum. Enter the constant value in the + field, then press
the button OK to validate.

Constant for multiplication

This option adds a constant to the spectrum. First, enter the value of the constant in the first
field. Then, press the button OK to validate.

B: Operations between two spectra

These four buttons allows the user to add, subtract, multiply or divide two spectra.
The first spectrum is the current active spectrum but the program will ask for the second spec-
trum, if more than two spectra are displayed in the window.

C: Definition of the function

In this field, enter the mathematical functions to activate.


The available functions are: +, -, +, /, log(), exp(), sin(), cos(), tan(), atan(), abs(), sqrt(),
step(), power xa and any combinations of these.
A function of two variables x and y can be also calculated. x will refer to the active spec-
trum, y to a spectrum loaded in the RAM (Random Access Memory). The program will
ask to define y when the button FUNC is pressed. If only one spectrum is loaded in
memory x and y will be the same.

To perform the calculation, press the button OK .

LabSpec Software 18
Icon 22 Mathematical processing

Icon 23 Baseline correction

The spectra baseline can be computed and subtracted by pressing this button
The main procedure is to build up point by point a baseline, to fit at best to the spectrum
and then subtract.
.

LabSpec Software 19
Icons list

An automatic procedure can also be used for the computation of the baseline, button
AUTO .

A:Operations for the baseline

Four choices are available:

1- Ins/Del:
It permits to select the points for the computation of baseline. Validate the point with the left
button of the mouse or deletes it with the right button.

2- +Const:
Add a constant to the baseline. Validate this button and move the baseline with the cursor.

3- *Const:
Multiply the baseline by a constant. The procedure is the same as the one for +Const.

4- Zoom:
It allows to magnify a spectrum zone.

LabSpec Software 20
Icon 24 Correction

B: Deviation
Choose the deviation (1% is normally appropriate): that is to say the residual difference
between the calculated baseline and the optimal one.
The automatic calculation of baseline depends on this coefficient.

C: Attachment

A best fitting can be done automatically with this command. It attaches the baseline
to the spectrum. It could be useful for the correction of baseline of spectral images.

Icon 24 Correction

When this option is chosen, the following window appears and gives access to some utilities
for the correction of spectra and spectral images.

GET: The active spectrum in the single spectrum window can be taken as a reference for
the options normalization , sub , add , div , mul and corr .
The reference spectrum is stored in a correction window . This spectrum is removed with
the command del

THR

This option is used for the images. For every spectrum of an image, this function activates to
zero all the intensity values that are lower than thr(%) of the intensity of the principal peak.
This function allows to remove the lowest peaks

Threshold(%)

It is the limit which is expressed in percentage of the value for the threshold for the elimination
of weak peaks.

LabSpec Software 21
Icons list

ZERO

Translate the spectrum or all the spectra until the lower point is brought to zero.

Normalization

Normalization of the spectra to the part of corrector spectrum that is inside the green cursors in
the correction window

MUL, SUB, ADD, DIV

These options allows the user to multiply, subtract, add or divide the corrector spectrum to all
the spectra of a spectral image.

Spectrum correction

Fits at best the corrector to the spectrum by means of a multiplicative factor k .


The corrector multiplied by the factor k is then subtracted from the spectrum.
The default fitting is applied to the whole spectrum. If a double cursor is activated, the fitting is
done only inside the cursor.

LabSpec Software 22
Icon 24 Correction

Icon 25 Profile

This window allows the user to glue spectra together in a 3D array, change or insert spectrum
in a set of spectra.
A profile of a 2D image (CCD image, video image, mapping...) can also be performed

Profile

To profile an image, select the cursor line on this image (if a horizontal line has been chosen,
do not forget to check in the HOR box).Then press PROFILE .
A rectangular cursor can be also selected to start profile generation.

Insert

Insert the active spectrum in a set of spectra. With the cursor, choose the position of the spec-
trum in the image.

Remove

Remove spectrum from a set of spectra.

LabSpec Software 23
Icons list

Change

Exchanging of spectrum in a set of spectra.

LabSpec Software 24
Icon 24 Correction

Add

Add one spectrum at the end of the set of spectra.


In the window Spectrum select the first spectrum and press ADD . Do the same proce-
dure with the others spectra, but dont forget that the selected spectrum is always added at the
end of the set of spectra.

Extract profile

Extract one spectrum from a set of spectra.

LabSpec Software 25
Icons list

Icon 26 Filtering

The Filtering feature can be applied to any data object like spectrum, image, spectrum
profile, spectral images ...

Each of these data is a multidimensional cube and each of these has its own specific dimension
defines as follow:
Spectrum: one dimension (wave number),
Image: two dimensions (X and Y axis)
Spectrum profile: two dimensions (time and wave number)
Spectral image: three dimensions (X, Y and wave number)
...
To perform a filtering at least one dimension must be selected.

The figure below shows the filtering parameters:

Enter here the wei-


ght of the elements
of the mask.

Data sliding bar

Load customized
filtering

Launch filtering

Here below is the example of a 3-dimension filtering screen:

LabSpec Software 26
Icon 24 Correction

Size: Size of the mask (the number of points around the filtered central datum that are involved
in calculations of the filtered value)

Dimension: As explain above, dimension is the parameter on which is applied the filtering
process. As an example, if you want to filter a spectrum, the dimension will be F (wave
number). For an image, the dimensions available are F , X or Y . If a wave number
filtering is asked for a spectral image, all the spectra will be filtered.

Symmetry: You can choose in the box symmetry if the weight of the points of the mask are
symmetrical in respect to the point to be filtered or not.

Type: There are five types of filtering:

- Ordered:
Once the mask characteristics has been chosen, the software analyzes the data levels (intensi-
ties) located in the mask then replace the central datum level (intensity) by the level determines
using one of the following options:
- MAX: the maximum level value finded in the mask,
- MIN: the minimum level value finded in the mask,
- MED: the middle level value,
- INC: the intermediate value between the maximum value and middle value,
- DEC: the intermediate value between the minimum value and the middle
value.

Example: the values of the mask are: 50 10 5 4 8 9 32 68 75 41 3

The first step is to order the point: 3 4 5 8 9 10 32 41 50 68 75


The results will be: MAX = 75, MIN = 3, MED = 10, INC = 50, DEC = 5.

- Average :

Choosing this option will substitute the selected datum value (0 in the mask) by the average
value calculates from all of the values of the mask. The calculation process uses the following
formula:
n

y i

i=1
yc =
n

- PeakElm:

The PeakElm option modifies the spectrum only if a sharp peak is found. A peak is detected
if its intensity is higher than the enterd threshold value. The level of the threshold must be
enterd in the PEAK field. A value of one means that the threshold is fixed at 100% of the
average value calculated from mask values, 2 means 200% etc...

If I is the intensity of the point to modify and Im the average intensity of the mask points,
then the value of I is replaced by Im if I<Im+I*peak

LabSpec Software 27
Icons list

- Linear:

The Linear option performs a linear combination of the values of the mask. The coefficients
(wi) of the linear combination can be introduced directly in the mask. In this case the value of
yc is:

w y i i

yc = i =1
n

wi
i =1

Special types of filtering can be saved and loaded again with LOAD button.
A major example of linear filtering is the derivative. In this case, the mask will contain the
coefficients 1, -1, 0 or also 1, 0, -1 if derivative is performed on 3 pixels.

- Polyn:

Polynomial filtering is only available for one-dimensional filtering. The degree of the polynom
interpolates the values in the mask. Enter the degree value in the ORDER field.

General: How to perform a filtering ?


To perform a filtering on an object, follow the steps:

1- Choose the correct dimension by pressing on the corresponding button.


2- Select the type of filtering and the mask size.
3- Press FILTR to perform the filtering.

LabSpec Software 28
Icon 24 Correction

Icon 27 Fourier transform (filtering)

This option allows the calculation of the Inverse Fourier Transform of a spectrum.
It can also be used for images.
By applying mathematical functions to the interferogram, it is possible to correct some defaults
of the spectrum

Dimension: Choose the dimension where you want to calculate the IFT (inverse Fourier trans-
form) (Freq. for a spectrum, X or Y for an image)

Function: Mathematical filtering: exp (b*t), trafic, Low band

Apodisation: Mathematical filtering (apodisation): 1-(t/T), 1-(t/T)2, cos (t),

Remark: the parameters of the different correction equations can be easily modified by adjust-
ing graphically their curves with the mouse

DFT: After a modification of the interferogram this icon allows you to calculate the Fourier
transform and modify the spectrum of the active window

IFT: Calculation of the inverse Fourier transform

Z%: Increase or decrease the abscissa axis of the interferogram

DFT : Automatic calculation of the Fourier transform

IFT : Continuous calculation of the inverse Fourier transform.

LabSpec Software 29
Icons list

Icon 28 Peak fitting

The Peak Fitting feature detects the peaks using different shaped bands, like gaussian/lorentz-
ian or even custom ones.

There are two methods of detection of the peak:

1. AUTO:
The automatic detection of peaks is obtained by pressing the button SEARCH .You must
take care of the position of HEIGHT an NEIGHBOUR scrolling bars.

HEIGHT/NEIGHBOUR: A peak is detected only if it is a local maximum and if its intensity


is higher than a threshold. The threshold is fixed by HEIGHT scrolling bar. The width of
the local region is defined by NEIGHBOR scrolling bar. If a spectrum extends from fre-
quency f1 to frequency f2 with a maximum MAX , a minimum MIN and
bar% is the position of the cursor bar,

then the threshold is:

THRESH = MIN + (MAX-MIN)*bar%

and the width of the local region is:

ZONE = (f1-f2)*bar%

2. Icon n 11

CLEAR: Delete all the selected peaks.

The label button allows you to put the label of the different peaks by using the icon .

LabSpec Software 30
Icon 24 Correction

The sum button displays the sum of all bands, i.e. the fitting.

The shapes button displays the shape of each single band.

With the button attach , the label can be fixed to the related peak.

BANDS: In the window BANDS we have the result of the peak fitting procedure. (This list
of results can be saved with the icon SAVE)

For the images, if you want to have the fitting of the position, the surface, the amplitude or
the width at half maximum, in the Bands window , activate the buttons p , s , a or
w .

LabSpec Software 31
Icons list

FUNCTION:

There are four possibilities:

- Gaussian/Lorentzian

y = a*(g*exp(-((x-p)*(x-p))/(w*w))+(1-g)/(1+4*((x-p)*(x-p))/(w*w))

- Gaussian

y = a*exp(-((x-p)*(x-p))/(w*w))

- Lorentzian

y = a/(1+4*((x-p)*(x-p))/(w*w))

- Line

y = c*y + a

VAR: Select the variables of the different functions.

In this window, select the variables of the different functions.


You can choose the maximum and the minimum of each variable. Or you can fix one of these
parameters.
NOTICE: if you fix one parameter in this window, for example p , this variable will be fixed
for all the bands that you want to fit, so if you want to fix the parameter p for just one band,
you have to do it in the window BANDS by checking in on the desired parameter)

- The variable p is the position of the band.


- The variable a is the amplitude of the band.

- The variable w is the width at half maximum.


- The variable s is the surface of the band.
- The variable g is the Gaussian/Lorentzian ratio.

APPROX: It calculates the theoretical shape of each selected peak. It permits to correctly ini-
tialize the peak fitting parameters

TIME: Maximum time for calculation

LabSpec Software 32
Icon 29 Integral calculation

Deviation factor

The optimization of the fitting parameters is done iteratively with the method of maximum gra-
dient. In each step (j) the deviation of the interpolation from the real spectrum is calculated
summing over all spectral pixels from f1 to f2.

d(j) = (If-Sf)*(If-Sf)

Where If is the intensity at frequency f and Sf is the value obtained at frequency


f by the peak fitting.
Deviation is defined so that if deviation > |d(j)-d(j-1)|/d(j), the calculation is stopped as it
is near enough to the solution.

Icon 29 Integral calculation

To calculate an integral under a band, zoom the band of interest. Select the green cursor, posi-
tion the first and the second cursor with the mouse. Then press the icon

Icon 30: Palette window

It allows you to choose the colors for drawing of plane and 3D representations
of images.

- grey: Select a grey level palette.

- FALSE: Select a 16 false colors palette

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- TRUE:
Select a 3 (red, green, blue) colors palette, each color with intensity levels.
This drawing style is only used when superimposing two images.

- OTHERS
Palettes are the same as grey but the black and the white are substituted by other fundamental
colors.

You can also adjust the contrast and the brightness of your image

Icon 31 Zoom

Zoom in either X, Y, wave number and intensity dimensions. For images and spectra.

Extract

If you are just interested by a part of a spectrum or if you want to limit the wave number
domain of a spectral image, you can use this button:
First, you have to select the part of the spectrum (or the spectral image into all spectra
window ), for that you have to make a zoom by using the icon .
Then press the button Extr : on the screen you will have the selected part
.

LabSpec Software 34
Icon 31 Zoom

Icon 32: Spectral mapping procedure

This window describes the algorithms which are used for the mapping. It gives us some spec-
tral information:

- Description of the cursors (Red, Green, Blue)


There are 3 types of cursors (green, blue and red), there are in all spectra window.
You can set them around the interested bands and if the options red , green and
blue are active, it gives you the mapping of the different cursors.

- Green/blue
It is the ratio between the contents of green and blue cursor of the window
all spectra, either in mode Raman and Fluo.

-Decomposition

It is the procedure used to make some spectra models (this option is in mathematical
treatments )
In this procedure, each spectrum of a spectral image is fitted with a sum of
model spectra.
The relative importance of each model in the fitting can be mapped.

-Extract procedure

This procedure is used to have the spectrum in a single spectrum window.

Deconvolution

It gives you the percentage for the contribution of each of the model components in the dif-
ferent points of the mapping.

Summa

It gives you the error made by the calculation of the% of the different model components.

Raman/Fluo

Using of baseline correction for cursors (red, green, blue) operation.


Raman mode discards baseline contributions while Fluo mode calculates the integral from
zero.

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Icon 33 Model

It is the decomposition of each original spectrum of an image as a sum of model spectra.

1. Choose the spectra that will become MODELS : they can be already saved on the
disk, or they can be particular spectra that you can extract and save from your spectral
image.

2. If the spectrum is a particular one extracted from the image, save it.

3. Do the same thing with the other interesting spectra.

4. Load all the selected spectra and put them overlapped in a window (for that use the
option behaviour of the Format menu command).

5. Activate the first selected spectrum and press the button GET. Do the same for all the
selected spectra: a window is then created with all the model spectra .

6. In the single spectrum window, there are:

- The models with relative intensity.


- The experimental spectrum in particular point of the image.
- The result of the fitting.

You will see in the mapping window additional pictures that correspond to each one of the
model .
You can overlapped them to see the relative contribution of each of the spectra in particular
point of the image (for that use the option behaviour of the Format menu command).

7. You can save a whole spectral image with the model compounds choosing the tvf
format. When you will load this image, the decomposition will automatically appear.

Icon 34 Video image

Video image grabbing. The video image is frozen by pressing the icon STOP (n46). The
type of cursor (buttons at the right lower edge of the window) indicates the type of object you
choose to record in imaging mode.

Icon 35 Spectrum adjustment

If you want to maximize the signal and adjust experimental conditions you can use this icon
This option is a spectrum adjustment (continuous recording of spectra, the new spectrum
refreshes the old one and so on), so it helps you in maximizing the signal and in adjusting
experimental conditions.

LabSpec Software 36
Icon 37 CCD image adjustment

Icon 36 Spectrum recording

This option permits to start spectrum recording without moving table in the point indicated by
the point into the video image. It is the simplest procedure to record a spectrum.
With this icon you can also do a multi window recording of spectra by choosing the parameters
in the window Spectral windows parameters (icon 21)

Icon 37 CCD image adjustment

This option permits to record a CCD image.

The procedure is the same as the one for adjusting a spectrum (refer to the help
of the icon ). But to record the CCD image you have to press the icon .

This option is useful to check the position of the spectrum on the chip in order
to select the good binning : You can see precisely the spectral domain of interest.

Icon 38 Spectral images recording

If you have an XY motorized table, or if you want to do a time kinetic recording, you can select
some points on the video image to have their spectra.

This procedure is used for recording spectral image or line scanning recording, time kinetics
and also spectra positioning the XY table in the video image, instead of the icon that
records the spectra without moving table.
To activate this icon you first have to record a video image, and you have to choose the type of
cursor that will define the area to analyze.
Meaning of these different cursors:

- Point cursor : You select or delete a point with the right button of the mouse,
you move a point with the left button of the mouse

- Inclined line : N spectra are recorded point by point along the line.

- Horizontal line : N spectra are recorded with Laser scanning along the line or
point by point.

- Rectangle : An array of N*M spectra is recorded inside the rectangle with


laser scanning or point by point.

- Elliptic and polygon : You can use these cursors if you are just interesting by a part of
the sample. It is a point by point recording.

After the acquisition three windows will be opened

LabSpec Software 37
Icons list

Single spectrum window

Three cursors are available and are selected with the buttons at the right lower corner:
- A red single cursor for the wavelength and the intensity readout.
- A double green cursor for the readout of the width of a band.
- A yellow cursor composed of a continuous line and two dotted lines. The continuous line
automatically positions to the maximum of the band in the neighborhood of the mouse arrow
and the two dotted lines position at the half maximum of the band.

All spectra window

This is the full representation of a spectral image. All the spectra that compose the spectral
image are displayed overlapped. In this window, three cursors allow the selection of the bands
for the selective spectral mapping.

Spectral mapping window

This window contains the mapping of some spectral features. For example: mapping of a band,
ratio between two bands, spectral models decomposition etc...

Icon 39 Data size

This option permits to select the parameters of spectral images (Xsize, Ysize, Zsize, number of
spectral points). If you want to do a time Kinetic recording, the choice of the time interval is
done in this window.

In the box size, you can select the number of points (spectra) that you want to record along
each line. It is the binning (cf. Spectral) in spatial dimension (the short one).
Or if you want you can choose the step between two measurements in the box Step&Binning.

LabSpec Software 38
Icon 39 Data size

In this box you can select the number of lines of a spectral image.

Spectral.

This box contains the number of spectral points read out of the detector.
The number of data points along the wave number direction can be less than the number of pix-
els because you can choose to readout some pixels together. This technique takes the name of
binning. If two pixels are binned together, their intensities are summed up, thus you gain
in S/N, but, of course, you loose spectral resolution.
The binning of the pixels of the CCD can be useful if you are just interesting in mapping
the intensity of one spectral band.

For example, if you have a detector with 1024 pixels along the spectral direction, you can
choose to read all the pixels and then the spectrum will be composed of 1024 points.
If you don't need spectral resolution, you can choose to work, for example, with 200 data
points: the signal from 5 pixels is summed up and gives rise to only one data point. Of course,
1024/200 gives not an integer result and some pixels of the CCD will not be displayed.

Time

There are two types of boxes, the first one is the number of measurements required and the sec-
ond one is the time interval between them.

Be careful, because the acquisition time is included in the interval of time between two mea-
surements.

As for the time dimension there are two boxes, in the first one you introduce the number of
measures and in the second box you introduce the interval between the measures.

This option can be automatic with a piezo, if you have no piezo, the program stops, asks you to
move the focus and start again.

LabSpec Software 39
Icons list

But you can do more...

Time

There are two types of boxes, In the first one you select the beginning and the end of the analy-
sis. In the second one you choose the time interval between them.

The choice of the time interval between the measurements is introduced as a function
of the number of the measure t .
A value: 30 * t will produce a spectrum each 30 seconds, 60 * t each minute.
You can introduce more complex timing like log (a*t), exp (a*t) or a*t*t where a is a con-
stant.

Depth

As for the time dimension there are two boxes, in the first one you introduce the beginning
and the end of the analysis and in the second box you introduce the interval between the mea-
sures which is a function of the number of the measure z.

This option can be automatic with a piezo, if you have no piezo, the program stops, asks you to
move the focus and start again.

You introduce the beginning and the end of the analysis. And you can choose to have a con-
stant size or a constant step between the measurements

You introduce the beginning and the end of the analysis. And you can choose to have a con-
stant size or a constant step between the measurements

LabSpec Software 40
Icon 39 Data size

Icon 40 : Acquisition parameters

Spike removing:

This option is active only when there is more than one accumulation; it is recommended to give
3 or more accumulations to have a good spike removing.

X scanning:

Select laser scanning or point by point XY table imaging.


Of course in mode Scanner the table will be used to scan the Y direction while the laser
will scan the X direction.

Scanning area: Cursor or manual

- Cursor:
The size of the image is selected with the cursor in the video image.

- Manual:
The upper left corner and the right bottom corner are selected moving the XY table.
If you choose this option, the software will ask you to move the table in the appropriate posi-
tion and validate.

LabSpec Software 41
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Refresh time

The PC can not record and display the data of a spectral image at the same time.
It must stop the recording in order to display the collected data, you can choose to stop period-
ically the recording and display the data by selecting a refresh time.

For the images, to reduce the total time of acquisition procedure, it is better to choose a refresh
time equal or higher than 10 minutes.
For example, if the refresh time is 300, it means that each 300 seconds, the recording of
a spectral image will stop, the display of data is refreshed on the screen, and the recording start
again.

Autofocus - Autofocus offset

This system is an autofocusing of the microscope stage to enable systematic measurements on


a device at different operating points. You can choose to add an offset to your autofocus, for
example if you want to take a measurement at 2 m in depth choose an offset of 2

This option is active if you choose in the file Hardware.dat: PresentAutofocus = 2

Confocal value

You can choose to have :

- The intensity in function of the position of the point, if you have chosen confocal value =
Intens.
or
- The z value where the intensity of the signal is maximum, if you have chosen confocal value
= Depth

Icon 41 Detector parameters

This option permits to select the stripe of the CCD used for single spectrum readout, or the
region of the CCD used in image mode.

The choice of the region of CCD used for measure allows you to limit the spectral domain of
interest and to avoid to read regions without signal that would only increase the readout noise.

Usually you have not to change these parameters (settled at DILOR) unless you use the fiber
optic entrance. In this case the interesting detector area will be substantially larger than the one
obtained under microscope.

(In this picture the example is done with a 256*1024 detector).

LabSpec Software 42
Icon 42 Morphological images

When you record an image of the CCD, you can see the area where the bands are. So, with
these different parameters, you can select this area. You are allowed to limit the wave number
domain and the spatial domain.

Icon 42 Morphological images

Clicking on this icon will display a morphological parameters window. These parameters will
allow you to get morphological images.
To have access to this feature, you have to take a Video image and choose the rectangular cur-
sor in this image.
The three first lines allows you to take morphological images in function of the depth.
In the First Z and Last Z fields, enter the beginning and the end of your depth profile (e.g.:
-10 and 10).
In the field Size Z, enter the step between two measurements in depth.
Size X and Size Y are the number of points you want to analyze in the X and Y direction.
Intensity is the number of counts read out from the PMT during the time defined in the
Time field.
Repeat is the number of total measurement cycles.
Single image option allows you to save all of the morphological images depth profile on a
file.
To start measurement, press on the START button.

Icon 43 Calibration

This window is used to calibrate the moving of the XY table and the amplitude of the scanner.

1. First, you have to select the appropriate objective and record a video image of the sample
with the laser spot. This one must be attenuated in order to see its position well. The sam-
ple should have some sharp features (corners, dots, dust particles etc...).
2. Press the button .
3. Choose the cursor point into the video image, then position the small rectangle on
the laser spot. Press SET on the box Centr (x,y) of the Scale window . The
calibration of the laser is done, and when you will record a new video image, a color dot

LabSpec Software 43
Icons list

will indicate the laser position.


4. Now measure, with the XY table, the distance in X and Y between two details of the
sample (the values read out from the table display are ten micrometers. So a read out like
675231.2 means 67523.12 micrometers).

5. Choose the rectangular cursor into the video image.

6. Position the two corners of the rectangular cursor onto the selected details of the sample,
then introduce in the box Table (dx,dy) the dimensions of the rectangle as measured
with the XY table. Press SET on this box.
The equivalence between the video camera pixels and the micrometers are now settled.

You can check the calibration of the table if you record a spectrum in a selected point of
the video image.

You have to do this calibration for each objective

Now calibrate the scanner:

- Put the laser scanning mode.

- Select the OD 4 filter in order to attenuate the laser

- Select the horizontal line cursor on the video image with the length approximately 10% less
than the scanned line and center it on the laser spot.

- Open the window SCALE . Press SET on the box Scanner (l,r) .

You can check the calibration of the scanner doing an image of the sample.
If the calibration is not correct, select the cursor line shorter or longer and press again SET
on the box Scanner (l,r) .

LabSpec Software 44
Icon 43 Calibration

Icon 44 Configuration

To program some configurations in function of the system.


Follow the different steps below:

1- Choose the type of user.


2- Press the ADD button
3- Select all the parameters in the window Parameters

To use one of your programmed configurations, in the window configuration select the
desired configuration then press set , the software will automatically change all the parame-
ters.

Tip: to delete a configuration, select it and press DEL.

LabSpec Software 45
Icons list

Icon 45 Scheme

This icon permits you to control all the functions of your system:

control: change:

Acquisition
Spectrum time
Different
Acquisition
cameras (A)
Spectrograph
Laser shutter position
(B)
Image Grating
Filters wheel
(C)
Acquisition
C B
Hole aperture

White lights
A
Exciting line
(D)
D
Different secu-
rity switches
(E)

D E

Icon 46 Stop

Stop of spectra recording. Freeze the video image after pressing the Video button (icon n34)

Icon 47 Different types of cursors

Three cursors are available and are selected with the buttons at the right lower corner:
- A red single cursor for the wavelength and the intensity readout.
- A double green cursor for the readout of the width of a band.
- A yellow cursor composed of a continuous line and two dotted lines. The
continuous line automatically positions to the maximum of the band in the
neighborhood of the mouse arrow and the two dotted lines position at the half
maximum of the band.

LabSpec Software 46
Icon 47 Different types of cursors

1.4 Menu Bar Description


The menu bar is located in the upper left hand corner of the screen.

The File menu commands:

Open: To open a previously saved spectra for display.


Save: Allows a spectra to be saved for later retrieval.
Split: Allows to decompose a spectral image as a set of spectra (you can use
this option before or after the recording of the image, when you choose
this option, the software asks you a name for the spectra and will incre-
ment it by a number for each spectrum)
Delete: Delete the active object of the active window.
Print: It allows the output to a printer
Printer set-up: Printer parameters selection (see the figure below)
Exit: Quit and close the LabSpec application.

configuration of the print page.


You can choose to have a colored or a black and white printing
You can choose the orientation of your print page...

To print a spectrum, select the spectrum to print (it must be alone in the window, if not it will
print all the object of the active window) then to insert it in your print page press the icon .
To introduce the parameters in your print page, press the icon , select the parameters and
then press OK.

LabSpec Software 47
Icons list

The Edit menu commands:

Copy Text: Copy the text or the parameters that have been selected in the print page.
Copy picture: Copy the contents of the active window
Copy data: Copy the data of the active object
Paste Text: Allows the ability to paste text in the print page
Paste picture: Allows the ability to paste a picture in the print page
Paste Data: Allows the ability to paste a spectrum in the Spectrum window
This function can be useful to keep an object before correction opera-
tions, if these modifications are not used we just have to recall the origi-
nal object with this option.

The Format menu commands:

VIEW

DISPLAY:

: Spectra in continuous line


: Spectra in dotted line
: Spectra represented in full surface
: Plane surface
: Contour line
: 3D representation

BEHAVIOUR

For the spectra:

: Active spectrum alone.


: All the spectra overlapped.
: All spectra in separate smaller windows.
: All the spectra in the different points of the spectral image.

For the images :

: Active image alone.


: All the images overlapped in the true color palette.
: All the images in separate smaller windows.
: All slice images.

LabSpec Software 48
Icon 47 Different types of cursors

SUPERPOSITION

For the spectra:

: Only limited spectra are shown (min. and max.) with filled space between them.
: All the spectra are overlapped in the window (it could take long time when the PC dis-
plays the collected data)
: Only a part of the spectra is shown to make displaying time less than 1-3 seconds.
: 25% of the spectra are shown.

For the images:

: Unsmoothed display.
: Smooth along lines.
: Smooth along columns.
: Smooth.

IMPOSITION

These icons correspond to the different forms of overlapping the recorded spectra or spectral
images on the video images.

a : Off mode.
b : It gives you the points where spectra were recorded
on the video image.
c : It is the same as b but it also displays the names of
the spectra.
d : It gives the rectangle where spectral images are
recorded.
e : The same as d but it also gives the names.
f : It gives you the superimposition of spectral images
on the video image.

COLORS

You are allowed to put or eliminate a coordinate axis (wave number, intensity, X or Y) or put a
label on an axis (for example: wavenumber (cm-1): select with an X the axes or labels that
you need.
The expressions for the labels can be changed
You can also change the color of a spectra or of the background

LabSpec Software 49
Icons list

3D MODE:

You can represent an array of spectra (or a 2D image) like a


3D profile.
You are allowed to choose the drawing style. You come back
to the original display by pressing the icon of the
display option (menu VIEW

This option can be used after 3D mode option . It permits


you to see the 3D profile according to different angles.

SCALE

- Comm: Common scale. It puts the maxima of the


spectra at the same scale.
- Incr: Incremental scale. It automatically changes
the scale when the limits are expanded.
- Freeze : Freeze scale. It freezes the auto-scaling.
- Auto: Auto-scale.

LabSpec Software 50
Icon 47 Different types of cursors

The object menu command:

Full list of the objects contained in a window (for example, list of the spectra
contained in a spectral window).

The Option menu commands:

Multi: This procedure selects all the objects that are on the screen and permits to
make an operation to all these objects. For example, you have three spectra on
your window, and you want to add the same constant to all these spectra,
activate the option multi , the addition will be done on the three spectra. If the
option multi is not active, you will have to do this operation for each
spectrum.

nm-cm-1: choose between nm and cm-1 units.

LabSpec Software 51
Icons list

Auto save:

1. The Auto save option

1.1 You can choose the directory where the spectra will be recorded:

You can choose a name

You can choose to increment


the name by the day, the month and the year.

BE CAREFUL TO HAVE NO MORE THAN 8 CHARACTERS

1.2 You can choose the files where the spectra will be recorded:

You can choose a name

You can choose to increment


the name by number, hour and minutes
of the acquisition.

BE CAREFUL TO HAVE NO MORE THAN 8 CHARACTERS.

1.3 You can choose the format of the files:

LabSpec Software 52
Icon 47 Different types of cursors

2. You have two choices:

2.1 You can choose to work with the Auto Save and Auto Repeat options:
For that you choose the delay between two acquisitions (ex: 10 seconds). When you press the
icon the software takes an acquisition and record it each 10 seconds.

2.2 You can choose to work only with the Auto Save option:

- When you press the icon the software takes an acquisition, stop and record it.

- When you press the icon (that you use to do spectral imaging, time scanning...) the soft-
ware take a spectral image and at the end of the acquisition will record it.

BE CAREFUL TO CHOOSE THE TSF FORMAT FOR THE SPECTRAL IMAGES.

The Window menu commands

Reorganize: This option permits to re-organize the windows. And permits to select
one of the windows that are on the screen (of course, you can select a
window with the mouse).

LabSpec Software 53
Icons list

LabSpec Software 54
Icon 47 Different types of cursors

1.5 Tips section


This section develops some specific practical procedures.

LabSpec Software 55
Icons list

How to acquire a spectrum?

Tip1: How to acquire a spectrum?

1. Select the appropriate grating:


- 1800 g/mm for a high resolution
- 300 or 600 g/mm to make a one shot spectrum
- 1200 g/mm which is infrared optimized. (Version only for NIR)

2. Select the correct grating setting in the software. If you change the grating, do not forget
to go to the zero order position ( in the software). This will give the correct calibration
for the particular grating you will use.

3. Focus the laser on the sample. This can be done through the video image .

4. Set the spectrograph at the right position.

5. Select the confocal hole and the slit aperture.

6. Select the acquisition time and the number of accumulations (this will improve the sig-
nal/noise ratio)

Then you have 2 possibilities:

- The icon : is a spectrum adjustment, so it can help you in maximizing the signal (the new
spectrum refreshes the old one and so on...). No repeated accumulations or extended spectral
ranges are acquired.

If you dont save the spectrum that you have recording with the icon , it will be
automatically deleted as soon as you will record a new spectrum.

- If you press the icon it will make a spectrum accumulation and stop.

LabSpec Software 56
Icon 47 Different types of cursors

How to record spectra at selected points?

Tip2: How to record spectra at


selected points?

For LabRam and LabRam Infinity Systems configured with the motorized
XY Stage

With the motorized XY stage.

1. Focus the laser on the sample.


2. Take a video image

- Press the icon


- To freeze the video image press the icon

3. Choice of the cursor.

You can select different points to analyze on the sample, for that, choose the cursor point
and position a small rectangle on each point that you want to analyze with the right button of
the mouse. If you want to move the point, drag the box by holding down the left mouse button,
if you want to delete a point, press the right button.

4. Choice of the grating

Select between 1800 and 600, 300 or 1200 grating options. If you change the grating do not
forget to make a zero order.

5. Select the binning on the box Spectral of the icon .


(cf. index)

6. Select the hole aperture and the slit apertures (for the LabRam System). Select the time
of exposure and the number of accumulations Accum .

7. To start the recording, press the icon .

LabSpec Software 57
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Confocal mapping

Tip3: Confocal mapping

For LabRam and LabRam Infinity Systems configured with the motorized
XY Stage

1. Record a video image (icon ) and freeze it (icon )

2. Selection of the cursor


a- Inclined line b- Horizontal line c- rectangle
d- Elliptic e- Polygon

This define the area to be analyzed.

3. Select the parameters for imaging: icon


You can select the binning (box Spectral)
The number of points (spectra) that you want to record along each line (box X)
The number of lines (box Y)
Of course if you have chosen the horizontal line cursor the box Y is not active.

4. Selection of the acquisition parameters. (icon )


In the box X Scanning: choose table
Choose the refresh time of the computer display

5. Select the hole aperture and the slit apertures (for the LabRam System) and the time
of exposure.

6. To start the recording press the icon

LabSpec Software 58
Icon 47 Different types of cursors

Spectral images using a line scan illumination of the sample

Tip4: Spectral images using a line scan


illumination of the sample

FOR LABRAM CONFIGURED WITH LINESCAN

In the LabRam:
- The stem 2 is pushed.
- Replace the pinhole H1 by the field lens.

On the electronic control box panel:


Switch on the scanner.

On the software:

1. Focus the laser on the sample.

2. Record a video image and freeze it with the icon

3. Choice of the cursor:


There are two possibilities: Horizontal line and rectangle .

4. Select the parameters of imaging: icon


- Select the binning
- The number of points that you want to record along each lines (box X)
- The number of lines (box Y), of course, if you have chosen the line cursor, the box Y is not
active.

5. Select the acquisition parameters: (icon )


In the box Scanning device choose Scanner
Select the refresh time.

6. Select the slit and the hole apertures and the exposure time.

7. To start the recording press the icon

NOTE: Do not forget to switch off the scanner, and replace the pinhole H1 once you have fin-
ished your linescan measurements.

LabSpec Software 59
Icons list

Time kinetic recording

Tip5: Time kinetic recording

This option enables you to take a series of spectra or spectral images as a function of time.
You follow the same procedure as the one to record point by point spectra or spectral images.

But you also have to choose:

- In the window Data size (icon ): select the parameter time


There are two types of boxes, the first one is the number of measures and the second one is the
time interval between them.

Please refer to the pages

Be careful, because the acquisition time is included in the interval of time between two mea-
sures.

Press the icon to start the acquisition

LabSpec Software 60
Icon 47 Different types of cursors

Z scanning

Tip6: Z scanning

1. Focus the laser on the sample,

2. Take a video image and freeze it with the icon ,

3. Choose the cursor,

4. Select the time of exposure,

5. Select the binning (icon ),

6. In the window Data size , you select the parameters of the Z scanning.
Please refer to the Index section

7. Press the icon to start the acquisition

LabSpec Software 61
Icons list

Baseline correction

Tip7: Baseline correction

The main procedure is to build up point by point a baseline, to fit at best with the spectrum and
then subtract.

If you have to subtract the baseline of a spectrum, activate this spectrum.


If you have to subtract the baseline of an image, activate the window spectral-image .

1. Verify that the option Ins/Del is active (in the box operations )

2. Select the type for interpolation: it can be linear or polynomial (in the box type ). For
the polynomial interpolation, you can also choose the degree of the polynom (in the box
degree ).
3. You can select with the mouse in the spectrum window (validate: left button, delete: right
button) the points for the baseline computation

Tip: (for the images, when you press the icon , a window that contains an average spec-
trum of the image is opened automatically).

4. Activate the option attachment , to fit at best the baseline to the spectrum.

Tip: An automatic procedure can also be used for the computation of baseline: button
Auto

5. Press the button SUB .

NB: The baseline can be saved as a spectrum: for that press the button CONV

LabSpec Software 62
Icon 47 Different types of cursors

Peak Fitting

Tip8: Peak fitting

To obtain a good Gaussian/Lorentzian fitting, you should prepare the spectrum from spikes.

Tip: Correction of the spikes from an image:


The correction is done for each spectrum. If a spectrum of an image presents a spike, remove
this spike in the window Single Spectrum , then press (on this window) the button R , it
will automatically remove this spike from the image.

1. Zoom and extract (button extract of the icon ) the interesting part of the spectrum
(or of the spectral image).

2. Press the icon

3. Select the function (button FUNC ), you can choose particular function for each band
of the spectrum.

4. Select the position of maxima:


- Press the icon
- The left button add a peak, the right one delete a peak already introduced. (If
you want to delete all the selected peaks, press the button Clear ).
5. Press the button APPROX to initialize the parameters

6. Press the button FIT to start the peak fitting procedure.

For the images, the procedure is the same as the one for the spectra, but the selection of max-
ima is done in the window Spectral image and you have to give a long time for the proce-
dure of peak fitting (more than 5 minutes).

The results of the peak fitting procedure are in the window Bands . You can save these
results when you press the button save (the files format is *.bnd).
If you want to print the board that contains the results of the peak fitting, open the window
Bands Parameters , do a copy text, open the window Print page
(option page setup of the edit menu) and to insert this board, choose the option paste
text of the main menu.

Moreover, for the images, you can have the mapping of the position, the surface, the amplitude,
the width at half maximum of the band: In the window Band parameters press the buttons p
(for the position), a (for the amplitude), w, s or g the results are in the window Spectral
mapping .

LabSpec Software 63
Icons list

1333.3
1000
10

800

20
600

30 400

200
40

0 10 20 30 40 1320 1325 1330 1335 1340 1345


Length X (m) Wavenumbers (cm-1)

Video image

10 10

20 20

30
30

40
40

0 10 20 30 40
0 10 20 30 40
Length X (m)
L th X ( )

Mapping of the position of the band Mapping of the full width at half
White color corresponds to the maximum. White color corresponds
1336 position, the black one to the to a 9 cm-1 FWHM and the black
1332 cm-1 position one to a 4 cm-1 FWHM

10

20
Overlapped of the FWHM and posi-
tion mapping. The shift of the band
30 goes with an enlarging of this band
40

0 10 20 30 40
Length X (m)

LabSpec Software 64
Icon 47 Different types of cursors

Models

Tip9: Models

It is the decomposition of each original spectrum of an image as a sum of model spectra.

1. Choose the spectra that will become MODELS , they can be already saved on the
disk, or they can be particular spectra that you can extract and save from your spectral
image.

2. If the spectrum is a particular one extracted from the image, save it.

3. Do the same thing with the other interesting spectra.

4. Load all the selected spectra and put them overlapped in a window (for that use the
option Behavior of the menu view of the FORMAT menu).

5. Activate the first selected spectrum and press the button get. Do the same for all the
selected spectra: a window is then created with all the model spectra .

6. In the single spectrum window, there are:

- The models with relative intensity.


- The experimental spectrum in particular point of the image.
- The result of the fitting.

You will see in the mapping window additional pictures that correspond to each one of the
model .
You can overlapped them to see the relative contribution of each of the spectra in a particular
point of the image (for that use the option Behavior of the menu view of the FORMAT
menu

7. You can save a whole spectral image with the model compounds choosing the tvf
format. When you will load this image, the decomposition will automatically appear.

LabSpec Software 65
Icons list

20

video image of the sample:


Length Y (m)

40
The spectra have been taken
60 inside the rectangle.
80

100

0 20 40 60 80 100 120 140


Length X (m)

With the help of the mapping, we can distinguish three different spectra which are:

Red compound Green compound


0.8 0.8

0.6
0.6

0.4
0.4

0.2
0.2
0.0
0.0

800 900 1000 1100 1200 1300 1400 800 900 1000 1100 1200 1300 1400

0.8

0.6
Blue compound
0.4

0.2

0.0

800 900 1000 1100 1200 1300 1400

We can have the mapping of the relative contribution of each compounds in the analyzed
sample:
Red compound
Blue compound

20
Length Y (m)

40
Green
60 compound

80

20 30 40 50 60 70
Length X (m)

LabSpec Software 66
1.6 LabSpec for the T64000 System
This chapter will only detail the LabSpec specific features related to the T64000 System.

What is the T64000 System?


The T64000 System is the most powerful, fully computerized, triple spectrograph/scan-
ning spectrometer system ever produced. Unlike the current generation of Raman spec-
trographs in which spectrometer control and data acquisition are independent functions,
requiring different software and hardware, the T64000 System has an integrated software
and hardware package which combines all functions in a simplified, easy-to-use fashion.
The package contains a large number of security and validity tests, which are only possi-
ble with the complete integration of all functions. Conceived initially for the demanding
performance of Raman spectroscopy, the T64000 is also superbly adapted to most other
spectroscopic techniques. As the software allows the T64000 System to be used in wave-
length and wavenumber units, other spectroscopic techniques such as fluorescence, lumi-
nescence and absorption/transmission can also be easily performed on both macro and
micro samples. The ability to use the T64000 as a single or triple (with subtractive or
additive premonochromator stages) spectrometer with either standard scanning or multi-
channel acquisition of data, permits the user to optimize the spectrometer to the spectral
and sampling requirements. This flexibility is achieved without having to disturb the
sample under investigation and is completely automated.
For industrial research or analytical laboratories the T64000 System is the safest, easiest
to operate, and most flexible spectro-analytical system available.

Why a dedicated User Guide Chapter?


The LabSpec software must be installed and setup correctly to manage up to 14 Stepper
motors, 15 DC motors and 4 electromagnets.

T64000 System and Labspec Software installation


The T64000 System and the LabSpec software must be installed and started up by Dilor-
Jobin Yvon-Spex or an approved representative.
Notice: The T64000 System starting recommendations are described in the T64000 User
Manual; Part Number: 31 087 018.

What are the new features that handle the LabSpec?


The LabSpec Software now handles the features related to the T64000 Triple Raman
Scanning/Spectrograph spectrometer. The new features only concern the additional
devices mounted on the System and then do not change the use of the existing LabSpec
software.

LabSpec Software 67
T64000 Configuration Setup

Click here to setup configuration

The figure above shows the icon which allows the user to setup the T64000 configuration. The
following screen will then be displayed.

First Stage Entrance The default choice is Axial especially if the Microscope or the Macro-
sample compartment is used. The Lateral choice is an option for spe-
cific needs required by the user.

Analysis mode The Micro mode concerns the use of the Microanalysis System, the
Macro mode concerns the use of the Macroanalysis System. Both are
options. the selected option must be present on the system.

LabSpec Software 68
Spectrograph The T64000 is a triple stage spectrometer. Therefore, the last stage can
be used alone (Single) for some specific applications.

Premonochromator The Premonochromator includes the first two stages. By default these
stages are configured as subtractive. An additive option can be added.
See the hardware user manual for details.

Second/Third Stage The link on the exit of the premonochromator and the entrance of the
third stage can be direct (default) or external (option). That means that
the exit beam can be adapted for a specific application (e.g. Fluores-
cence option) then analyzed with the third stage.

Detection System Select the detector you want to use: Multichannel (CCD) or
Monochannel (Single channel PMT or IR detectors).

Laser Shutter The laser shutter is located before the Microanalysis or Macroanalysis
System. Usually, to prepare an analysis session, the laser beam must be
present in the microscope or in the macro-sample compartment. With
some type of samples, the laser beam can modify or destroy a sample.
For these reasons, two choices are available: Always open maintains
the shutter off and Open during acquisition opens this shutter only dur-
ing the acquisition (adapted for laser sensitive samples).

Initialization Clicking on this button will reinitialize all the commutations listed in
this screen plus the grating turret.

OK Validate the selected choices.

LabSpec Software 69
Monochannel/Multichannel Setup
The previous chapter explains how to select the Monochannel or Multichannel detector for the
System which includes both of these detectors.
Default, on all T64000 Systems, the Monochannel (PMT) detector is mounted on the third
stage axial exit and the Multichannel (CCD) detector is mounted on the top exit. Once the Lab-
Spec software is running, the bottom left screen shows the following setup screen, specifically
dedicated to the T64000 System. The use of the displayed parameters is slightly different
depending on the chosen mode: Monochannel or Multichannel.

Wavelength calibration screen

Close the current slit


Double moving
List of slits
Maximal open slit
Slit calibration Single moving

Premonochromator setup Spectrometer setup

LabSpec Software 70
How to setup a Monochannel PMT (PhotoMultiplier Tube) detector?
On the figure page 70, the bottom left bar includes two new sections fitted for the T64000 Sys-
tem: the Premono(chromator) and Spectr(ometer) sections.
From these sections, the following setup can be performed:

Single or Double moving: Double moving means that the Premonochromator and the Spec-
trometer scan together. Single moving means that the Premono-
chromator is independent from the Spectrometer.

Security and Optimization Spectrograph Security


The figure page 70 shows the Security and Optimization screen.
The Monochannel mode is concerned only by the spectrograph
security. The choices are Enable (default), Inform and Disable.
The Enable choice activates a laser shutter if the Spectrograph
scans near to the laser wavelength. The security value (entered
on the bottom of the screen) defines the security area. The
default Enable choice is highly recommended. The Inform
choice is the same as Enable but a pop-up screen will clearly
inform the user. The Disable choice allows the user to scan up to
laser wavelength (the detector could be damaged).

Calibration screen: This feature allows the user to precisely calibrate the premono-
chromator and the Spectrometer. The complete calibration pro-
cedure is described in the Monochannel Mode Calibration
chapter.
Monochannel Security Value
Enter a value which defines the safety area from the laser beam.

How to setup a Multichannel CCD (Charge Coupled Device) detector?


The procedure below explains how to setup the Multichannel (CCD) Detector.

Security and Optimization


The figure page 70 shows the Security and Optimization screen.

Spectrograph security The Spectrograph security Enable choice activates a laser


shutter if the Spectrograph scans from the Stokes to anti-Stokes
lines.
If a position near to the laser wavelength is chosen, the software
calculates the coverage on the CCD detector. If this coverage
touches the safety area, the wavelength or wavenumber (central)
will be re-calculated; the shutter will not be activated.
The Inform choice will display a pop-up screen every time the
safety area is touched.

LabSpec Software 71
The Disable choice is only for those who want to manually
explore the near-to-laser area and in this case TAKE CARE
NOT TO DESTROY THE CCD DETECTOR.

First Intermediate Slit optimization (Subtractive)


The First Intermediate Slit performs a filtering function on the
spectrum to suppress the wavelengths interferences. According
to the used gratings, the slit width adapts the pass-band to cover
the current CCD Detector. Please note that a spectrum can not
completely cover the CCD Detector if different gratings type are
selected; in this case, the complete opening of the intermediate
slit cannot cover the CCD Detector width.
The choices are Enable (default), Inform and Disable. Using a
Multichannel CCD Detector, the default Enable choice is highly
recommended. The Inform choice is the same as Enable but a
pop-up screen will clearly inform the user. The Disable choice
allows the user to manually set the first Intermediate slit.

Second Intermediate Slit optimization (Additive)


Using the additive Mode, the Second Intermediate Slit performs
a spectrum filtering.
The Enable choice will optimized the slit width according to the
selected wavelength or wavenumber. The Disable choice will
allows the user to manually set the slit width.

Premonochromator Optimization (Subtraction)


Usually if the Premonochromator Optimization (for subtractive
mode) is enable or disable the action is the same: the Premono-
chromator moves the position with the Spectrometer.
Exception: the Optimization is performed only in this case
For specific choices of gratings and if the first Intermediate Slit
cannot optimize to cover the total CCD area, the wavelength or
wavenumber position of the Premonochromator will slightly
move to shift the spectrum to the first pixel of the CCD (if the
laser beam is located to the left of the spectrum). The spectrum
will be shifted to the right if the laser beam is located on the
right.

Multichannel Security Value


Enter a value which defines the safety area from the laser beam.

Once the LabSpec software is running with the Multichannel option selected (see previous
page), select the Multichannel detector setup screen by clicking on the following icon:

LabSpec Software 72
CCD Detector Setup

The following CCD Detector Setup screen will be displayed:

This option allows the user to select the stripe of the used CCD for single spectrum readout, or
the window of the CCD used in image mode.

The choice of the region of the CCD used for measure allows you to limit the spectral domain
of interest and to avoid reading regions without signal that would only increase the readout
and dark noises.

LabSpec Software 73
This following figure shows an example of a 256 x 1024 detector).

When you acquire a CCD image, the useful area will be clearly seen. So, with the parameters
of the Detector setup, you can select this area. You are allowed to limit the spectral domain and
the spatial domain.

LabSpec Software 74
Monochannel Mode Calibration
The following procedures will explain how to calibrate the System using a monochannel (PMT
or IR) detector.

First Time Calibration

Usually, the T64000 System and the LabSpec software have been installed and started up by
Dilor-Jobin Yvon-Spex or an approved representative. Then, the first time calibration has
been already performed.

Calibration troubleshooting

The troubleshooting calibration can occur if, during a scanning, the power supply shuts down
or if a link fails somewhere. The Premonochromator and Spectrometer position fields will
show ??? . Click on the calibration button of the Spectrometer and enter the
Counter Value.

Spectrometer calibration fine tune

Preliminary
The T64000 System can be perfectly calibrated using a known peak. This adjustment can be
done in accordance with the following limitations:

1. The calibration will be perfectly reached on the wavelength or wavenumber peak used for
the correction. For this reason, try to choose a calibration peak near to your working
region.

2. The resulting calibration offset will be saved (if close to the counter wavelength or wave-
number value). Each grating has its own value but NOT if you change the detector, for
example the Multichannel. In other words, if you change the detector or choose the Mul-
tichannel, verify and eventually create a new calibration offset (the procedure is
explained below).

Procedure

1. Run the LabSpec software,

2. From the Commutations screen (see page 68) select the Monochannel Detection System,

3. Select the Monochannel working session by clicking on Monochannel icon ,

LabSpec Software 75
4. On the Monochannel dedicated icon bar, click on the RTD icon. The RTD will start.

Running Acquisition

Monochannel Parameters Real Time Display

LabSpec Software 76
5. Monochannel Parameters: The Monochannel parameters allows the user to
prpare the acquisition parameters. Follow the instructions describe on the
screen below:

Enter here the name of the new preset


Select the acquisition channel used by the SPECTRALINK controller
Number of total acquisition cycles

Enter region parameters add a region

Enter the
Select the PMT high
hardware voltage wor-
acquisition king value
gain (1,10,100)
of the channel 1 Enter the
(if the channel is hardware
valid) acquisition
gain of the
channel 2
(if valid)

Enter the safety intensity limit

LabSpec Software 77
6. Real Time Display: During the RTD acquisition, the Monochannel icon bar is replaced
by the RTD Control Panel (see below)

Left/Right scanning toggle buttons


Integration Time Increment

Current position
Continuous scanning Stop RTD mode
Step by step scanning Start Time

7. Using the RTD Control Panel shown above, scan the spectrometer to the chosen refer-
ence peak. The current cursor is represented as a vertical red line located on the screen.
When the reference peak is founded, stop the scanning (icon located on the upper right
screen), choose the step by step scanning mode and click on the reverse direction scan-
ning up to the highest intensity level of the reference peak (the intensity level is dis-
played on the right bottom bar of the screen). Stop the scanning at this position. Then do
not change the position and follow the next step.

The figure located on the next page (page 80) shows the general LabSpec monochannel
screen during the reference peak search step.

8. Click on the close button of the RTD Control Panel, then click on the Close button of the
Monochannel icon bar.

9. Running Acquisition: Once the Monochannel Parameters have been correctly setup
and once confirmation has been performed with the Real Time Display feature, you can
run the acquisition.

LabSpec Software 78
10. Click on the Spectrometer Calibration button to display the calibration screen then:.

A. Select the Real Position choice

B. Enter the reference position

C. Click OK to validate
The spectrometer is then calibrated

LabSpec Software 79
Stop RTD
LabSpec Software

Cursor line

Spectrometer Calibration button

RTD Control Panel

Current Intensity
level
80
Multichannel Mode Calibration
The following procedures will explain how to calibrate the System using a multichannel
(CCD) detector.

First Time Calibration

Usually, the T64000 System and the LabSpec software have been installed and started up by
Dilor-Jobin Yvon-Spex or an approved representative. Then, the first time calibration has
been already performed.

Calibration troubleshooting

The troubleshooting calibration can occur if, during a scanning, the power supply shuts down
or if a link fails somewhere. The Premonochromator and Spectrometer wavelength or wave-
number fields will show ??? . Click on the calibration button of the Spectrometer
and enter the Counter Value.

Spectrometer calibration fine tune

Preliminary
The T64000 System can be perfectly calibrated using a known peak. This adjustment can be
done in accordance with the following limitations:

1. The calibration will be perfectly reached on the wavelength peak used for the correction.
For this reason, try to choose a calibration peak near to your working region.

2. The resulting calibration offset will be saved (if close to the counter wavelength or wave-
number value). Each grating has its own value but NOT if you change the detector, for
example the Monochannel. In other word, if you change the detector or choose the
Monochannel, verify and eventually create a new calibration offset (the procedure is
explained below).

Procedure

1. Run the LabSpec software,

2. From the Commutations screen (see page 68) select the Multichannel Detection System,

3. Click on the Multichannel calibration icon to start the calibration mode . The fol-
lowing screen will be displayed:

LabSpec Software 81
Reference peak

Central pixel

Spectrometer position

How to calibrate the spectrometer with a CCD detector?

The page 73 shows how to setup the CCD matrix. On the screen above, the System performs a
Real Time acquisition with this additional important parameter: the central pixel of the CCD
is permanently displayed. To calibrate the spectrometer, follow the procedure:

1. Choose a known reference peak and enter the reference position (see above),

2. If the spectrometer is not too de-calibrated, you should be able to see on the screen this
reference peak.

3. Try, by entering a new position value, to center the reference peak on the central pixel.
This could be performed by successive estimations. Zooming the central area will
increase the calibration setting.

4. Once the reference peak is perfectly set on the central pixel, click on the Calibration but-
ton of the Spectrometer panel. Then follow the procedure described below:

LabSpec Software 82
A. Select the Real Position choice

B. Enter the reference wavelength

C. Click OK to validate
The spectrometer is then calibrated

Premonochromator calibration and optimization (Subtractive mode)

The T64000 System is composed of three stages: the first two stages are called Premonochro-
mator, the last stage is the Spectrometer.
By default, the Premonochromator stages are configured as a subtractive optical design. In this
case, the Premonochromator performs a filtering function. If the highest results are required, a
Premonochromator calibration is necessary to perform a band-pass on a working area. The
procedure described below will show how to optimize a calibration.
The goal of this procedure is to close as much as possible the intermediate slit while the refer-
ence peak stays visible on the center of the CCD detector.

1. Calibrate the Spectrometer using the procedure described on page 81; at the end of this
procedure, the reference peak is displayed at the center of the CCD detector,

2. From the Security and Optimization screen (see page 70), choose Disable the Premono-
chromator and First Slit optimization,

3. From the Premonochromator Control Panel click on the Single Moving choice,

4. On the same Control Panel, click on the following button to display the slits list
and select the First Intermediate Slit.

5. Click on the CCD Calibration icon to run the calibration Real Time acquisition,

6. In the slit width field, enter a smaller value than displayed (about 10% less) and verify
that the peak is always visible and centered on the CCD. Continue to reduce the interme-

LabSpec Software 83
diate slit. If the spectrum disappears, that mean that the position (Premonochromator) is
not centered on the beam path. To re-center the filter, enter a new position value in the
Premonochromator field, more or less you have to try, or slightly open the intermediate
slit to re-display the spectrum. This is a step by step procedure, and once reached the
minimum slit width value, you know that the premonochromator is optimally adjusted
and the Acquisition session can be now performed.

Please refer to the Training Course Manual for detailed explanations.

Control Panel features

1 2 3 4 5 6

7 8 9 10 11
1. Available slits selection list
2. Current slit calibration
3. Single moving (Premonochromator and spectrome-
ter are independent) or double moving mode switch.
4. Premonochromator calibration
5. Security and Optimization modes
6. Spectrometer calibration
7. Close the current slit
8. Slit width field
9. Open the current slit
10. Premonochromator position field
11. Spectrometer wavelength field

LabSpec Software 84
Interac-
tive Index Symbols Deconvolution 35
*Const 20 Definition of the function 18
+Const 20 Delete the object in the window 14
Depth 40
Numerics Description of the different icons 13
3D MODE 50 detection of the peak 30
detector 39
A Detector parameters 42
Acquisition panel 12 Detector setup (T64000) 74
Acquisition parameters 41 Deviation 21
Add a spectrum 25 Deviation factor 33
additive 69 DFT 29
All spectra window 38 Dilor format 15
Analysis mode 68 Double moving 71
Apodisation 29
APPROX 32 E
Attachment 21 Edit, Copy data 48
Auto Repeat 53 Edit, Copy picture 48
Auto save option 52 Edit, Copy Text 48
Autofocus 42 Edit, Paste Data 48
Edit, Paste picture 48
B Edit, Paste Text 48
Baseline correction 19 Exchange a spectrum 24
Baseline correction example 62 Exit LabSpec 47
binning 39, 57, 61 Extended Tiff 15, 16
Extract procedure 35
Extract profile 25
C Extracted spectrum 34
Calibration (spectrometer,
monochannel) 79
Calibration (XY stage) 43 F
CCD detector calibration FALSE 33
(T64000) 82 File, Delete 47
CCD image adjustment 37 File, open 47
CCD Matrix setup (T64000) 73 File, Print 47
Color Tiff 16 File, Save 47
Commutations screen 75 File, Split 47
Compressed Tiff 15, 16 Filter 12
Configuration (system) 45 Filtering 26
confocal hole 56 Fit peak width 14
Confocal mapping 58 Fitting (peak) 63
Confocal value 42 Focusing the laser 57
Constant for addition 18 Format, BEHAVIOUR 48
Constant for multiplication 18 Format, COLORS 49
Correction 21 Format, IMPOSITION 49
cursor for working 13 Format, SUPERPOSITION 49
Cursor normalization 16 Format, VIEW 48
cursors (Red, Green, Blue) 35 Formats (Image) 16
formats for spectra saving 15
Fourier transform (filtering) 29
D
Data size 38
Decomposition 35

LabSpec Software Index - 85


Index G Morphological images 43
Gaussian 32 Move peak maxima 14
Gaussian/Lorentzian 32 MUL, SUB, ADD, DIV 22
grating (choice) 57 Multi window 17
GRAY 33 Multichannel Mode Calibration 81
Green/blue ratio 35 multiply 14

H N
Hole 12 Normalization 16, 22
hole aperture 12 number of accumulations 12
Horizontal shift 13
How to acquire a spectrum 56 O
How to record spectra at selected object 51
points? 57 offset (autofocus) 42
Operations between two spectra 18
I Operations for the baseline 20
IFT 29 Option menu commands 51
Information about object 16
Initialization 69 P
Ins/Del 20 Palette window 33
Insert a spectrum 23 peak detection 30
Integral calculation 33 Peak elimination 13
Intensity adjustment 13 Peak fitting 30, 63
inverse Fourier transform 29 PeakElm 27
Polynomial filtering 28
K Position of the spectrograph 12
Kinetic 60 Premonochromator calibration
(T64000) 83
L Premonochromator calibration and
Label of the peak 14 optimization 83
LabRam 57, 58, 59 Print page 16
LabRam Infinity 57, 58 printer page configuration 47
Laser 12 Printer set-up 47
laser 56 Profile 23
Laser Shutter 69
Line scan illumination 59 Q
Load 14 Quit LabSpec 47
Lorentzian 32
R
M Raman/Fluo 35
Manual addition 13 Recording time 12
Mathematical filtering 29 Refresh time 42
Mathematical processing 17 Removing spectrum 23
Menu Bar Description 47 Reorganize 53
Model 36 RTD acquisition (T64000) 78
model 65
Models 65 S
Monochannel Mode save a TV image 15
Calibration 75 save spectra 15
Monochannel/Multichannel Save the active object 14
Setup 70 scale of a spectrum 13

LabSpec Software Index - 86


Index scanner calibration 44 V
Scanning area 41 Vertical shift 13
Scanning device 59 Video image 36
Scheme 46 video image 57
Second/Third Stage 69
Security and Optimization X
(T64000) 71 X scanning 41
setup Multichannel 71
Shape correction 13 Z
Shift 13 Z scanning 61
Single moving 71 ZERO 22
slit apertures 57 Zoom 13, 20, 34
Spectra Calc format 15
Spectral 39
Spectral images recording 37
Spectral mapping 35
Spectral mapping window 38
spectrograph setup 56
Spectrometer calibration
(monochannel) 75
Spectrum adjustment 36
spectrum adjustment 56
Spectrum correction 22
Spectrum recording 37
Spike removing 41
Standard Tiff 16
Stop 46
subtractive 69
Summa 35
system configuration 45

T
T64000 Configuration Setup 68
T64000 Macro-sample 68
T64000 Microscope 68
T64000 Premonochromator 69
T64000 spectrometer 69
T64000 System 67
Text format 15, 16
thr(%) 21
Threshold 21
TIME 32
Time 12, 39, 40
Time kinetic recording 60
TRUE 34
TSF format 53
types of cursors 46

U
units 51

LabSpec Software Index - 87

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