First round of CIP

 

assembling the input

To run CIPD, the following files should be prepared:

no.

file type

extension

format

to be prepared by user:

1

19

2

1

circular polarization

rotation images

tilt images

control file

.cirpol

.000....180

.eup .sup

.ctrl

Raw Pixel Data

Raw Pixel Data

Raw Pixel Data

ASCII text

on malm (DecAlpha):

2

1

 

calibration files

colour look-up table

 

.CAL

.CLUT

 

ASCII text

Raw Pixel Data

(RGB, non-interleaved)

 

control files

Control files are best copied and edited. Only the dotted lines are used in the program. 

	---------INPUT----------
1) Title of problem
Black Hill quartzite undformed 8 µm thick
2a) x- and y dimension (max = 1524,1012)
620,620
2b) no.(2/4), type(4:-1,0,1,2,3=ssoft/soft/stiff/sf.i/st.i 2:012=softEUP-SUP..)
2,012
2c) Background corrections for ROT, CIRPOL, FLARE? (0=none 1=subtract) 
0,0,0
2d) Reference direction for misorientation (N=0,90 E=90,90)
45,90
3) Rotation images (Number = N$ROT):
   at 10 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.010
   at 20 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.020
   at 30 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.030
   at 40 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.040
   at 50 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.050
   at 60 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.060
   at 70 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.070
   at 80 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.080
   at 90 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.090
   at 100 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.100
   at 110 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.110
   at 120 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.120
   at 130 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.130
   at 140 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.140
   at 150 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.150
   at 160 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.160
   at 170 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.170
   at 180 degrees
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.180
4a) Tilt images (Number = N$TILT):
   First East up
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.eUP
   Second South up
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.sUP
   Third West up
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.eUP
   Fourth North up
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.sUP
4b)  Use CirPOL (=N$INCPOL=2) or AMPlitude (=N$INCAMP=3)
2
5) Circular polarisation (Number = 1):
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.CIRPOL
6a) Background of ROT images
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.000
6b) Background at circular polarisation
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.000
7) Calibration of input
[HEILBRONNER.CIP.CALIB]NIHImage.cal
8) Calibration of inclination
[HEILBRONNER.CIP.CALIB]CIP-direct-quartz.cal
9) Stereographic Colour Lookup Table
[HEILBRONNER.CIP.CLUT]CIP-Standard.CLUT
	---------OUTPUT----------
1) Primary result files (Number = N$CURF):
maxval
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MAX
minval
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MIN
maxphas
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MAXP
minphas
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MINP
error
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.ERR
2) Final result files (Number = N$RESU):
azi
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.AZI
inc from polarization
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.INCP
inc from amplitude
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.INCA
edges from polarization
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.EDGP
edges from amplitude
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.EDGA
        absolute misorientation from North (0,90)
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MISN
        absolute misorientation from East (90,90)
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MISE
        absolute misorientation from UP (0,0)
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MISH
        absolute misorientation from ref.direction
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.MIS-45-55
3) AVA-FILE (NON-INTERLEAVED)
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.COI-CIPD
4)matrix of frequencies of azi/dip 180*180:
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.PIX180
5)matrix with pole figure image (36*36 used of 180*180):
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.PIX036
6) matrix of frequencies of azi/dip 360*90 as from MENTEX -> INVPIMA:
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.CPF
7) Stereographic CLUT
[HEILBRONNER.CIP.clut]selfmade.clut

 

colour look-up tables (CLUTs)

 

The CIP CLUTs are square (2-dimensional) colour look-up tables (CLUTs). Their dimension is 180·180, corresponding to 180° azimuth, clockwise from top (North), and 180° inclination, from up (Heaven) to down (Hell). They arew stored as Raw Data images of non-interleaved RGB. A number of CLUTs are provided. Using CIPLips, square CLUTs can be converted to stereographic projections and vice versa.

CIP-Standard.POL

CIP-Standard.CLUT

 

calibration files

 

In routine CIP calculations, we need not concern ourselves with the calibration file: we use the files:

that are provided.

 

running CIP & INVPIMA

 

Using Fetch, all files are transferred to an account on the DecAlpha (IP 131.152.51.4). Using NCSA Telnet, the user logs into this account. From the appropriate subdirectory, the program, CIPD is started by pressing CIPD. The following dialogue is displayed (the answers which the user has to provide are high-lighted):

  

$ cip
 calling CONTROL
NAME OF CONTROLE FILE > bhq-08.ctrl
    calling READFILES
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.010
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.020
EXIST         T
RECL                  512
 
.....etc.
 
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.180
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.eUP
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.sUP
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.eUP
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.sUP
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.CIRPOL
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.000
EXIST         T
RECL                  512
FILENAME
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.000
EXIST         T
RECL                  512
 calling VIEWPIX
VIEWPIX: end of input = <CTRL-Z>
VIEWPIX: X,Y coordinates > 200,200  	(optional)
   IJ(IX,IY)=   123580
ROT:   190 164 134 100  73  55  43  39  40  51  66  92 124 155 182 202 212 207
TILT:  208 209 208 209
 -> MAX,MIN VALUE:  212  40
 -> MAX,MIN PHASE:  171  81
 -> SUM OF DIFF. :  128
 MAGENTA IS:        100
VIEWPIX: X,Y coordinates > <ctrl Z>
    NOT calling CALIBRATE
XDIM,YDIM,ITOT         620         620      384400
 calling VIEWPIX
VIEWPIX: end of input = <CTRL-Z>
VIEWPIX: X,Y coordinates > 200,200  	(optional)
   IJ(IX,IY)=   123580
ROT:    65  91 121 155 182 200 212 216 215 204 189 163 131 100  73  53  43  48
TILT:   47  46  47  46
 -> MAX,MIN VALUE:  217  44
 -> MAX,MIN PHASE:   81 171
 -> SUM OF DIFF. :  119
 MAGENTA IS:        100
VIEWPIX: X,Y coordinates > <ctrl Z>
    calling CURFIT
 calling WRITEPRIMARY
 calling CONVERT
 
INCA:
 
  16 **********
  32 ****************************
  48 ******************
  64 ********************
  80 **************
  96 ***************
 112 ************************
 128 ********************
 144 ****************************
 160 ******************************
 176 *********************************************
 192 *****
 208
 224
 240
 256
 
Amplitude image INCAMP
min, lower & upper 5%-cut-off, max =          0        10       180       198
Confirm or change cut-offs (2I5) > 0,198	zero to max
    
INCP:
 
  16
  32 ***************************
  48 **************
  64 **********
  80 *****************
  96 *****
 112 *****************
 128
 144 *************
 160 **********
 176 ***********
 192 **************************************************
 208 ******************
 224 *
 240
 256
 
Amplitude image INCPOL
min, lower & upper 5%-cut-off, max =         24        34       208       255
Confirm or change cut-offs (2I5) > 0,255	zero to max
    calling SEGMENT
 calling WRITEFILES
 calling POLEFIGURE
 
*  AZI(=IxMAXEO), INC(=JxMAXEO), xMAXEO, amaxeo:
        173          77   1914.000      0.1332288
 
*  write 36*36 image matrix ---2
*  max of (36*36) cpf matrix (real) at i,j =            8          22
*  xstereo(          40,         110) =    8360.000
*  scaling for real =   3.0502392E-02 36*36 pixstereo scaled
 
*  write CPF text matrix
*  max of scaled (36*36) cpf matrix at i,j =           31           5
*  xstereo(         155,          25) =    9024.694
*  scaling for CPF (max=9999) =    1.107960
 calling AVA
FILENAME
[HEILBRONNER.CIP.CLUT]CIP-Standard.CLUT
EXIST         T
RECL                  180
$

 

To calculate a pole figure presentation of the ***.cpf file (which adopts the convention of the ODF program MENTEX (by Schaeben), INVPIMA is used. INVPIMA is started by pressing INVPIMA. The following dialogue is displayed (the answers which the user has to provide are high-lighted):

  

$ invpima
WHICH ***.CPF FILE ? > bhq-08.cpf
   [HEILBRONNER.CIP.renee.bhq-08]bhq-08.CPF
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.PIX180
[HEILBRONNER.CIP.renee.bhq-08]bhq-08.PIX036
Do you want this pole figure ? (Y/N) > y
   Name of stereonet data file [bhq-08.POLTXT] > <return>
   Name of stereonet IMAGE file ? [bhq-08.POLFIG] > <return>
    
 
I,J,ICPFMAX=    31    5 9999
 
Do you want to rotate and/or tilt pole figure (Y/N) ? > <return>
    
...calculating...
 
 
************************************
 
Maximum of STEREO is at ( 9, 7):      7.63275
 
 
$

 

It is useful to save the dialogues for further reference (use save stream option).

 

Top | Setting up the microscope and the scanner | Acquiring images | Saving input data | Rematching the stack | First round: CIPD & INVPIMA | Viewing the output of CIPD | Correcting the inclination image | Second round: running CIP2 & INVPIMA | Viewing the output of CIP2 | SUMMARY CIP