; Compute 3D reconstruction for each defocus group
;
; SOURCE: bpall.bat
;
; PURPOSE: Compute the 3D reconstruction for each defocus group.
;
; MASTER COPY: /net/bali/usr1/spider/docs/techs/recon/newprogs/
;
; I/O PARAMETERS AND FILES ARE SET HERE:
;
; ------------ DO NOT COPY FROM WEB BROWSER ------------------
;
; --------------------- Parameters -----------------------------------
x41 = -1 ; Radius of restored object (use -1 for 95% winsize / 2)
x42 = 0.2e-5 ; Lambda
x43 = 0.0 ; Correction limit
x44 = 60 ; Iteration limit
; ---------------------- Input files ---------------------------------
FR G
[params]../params ; parameter file
FR G
[order]order_defocus ; Selection file for defocus groups
FR G
[ali]../Alignment/ali/sar****** ; Aligned particles
FR G
[sel]df{***x77}/seltotal ; Selection file for particles
FR G
[angles]../Alignment/align_01_{***x77} ; Alignment parameter files
; ----------------------- Output files -------------------------------
FR G
[vol]vol001 ; Volume (one for each defocus group)
; ------------------------ END BATCH HEADER -----------------------
MD
SET MP
0 ; 0 = use all processors available
IF (x41.eq.-1) THEN
UD 17,x55 ; key 17 = windowsize
[params]
x41 = INT( (0.95*x55)/2.0 )
ENDIF
UD N,x50 ; Find number of defocus groups
[order]
DO LB1 x77=1,x50 ; Loop over all defocus groups
; Compute 3D reconstruction for this group.
BP RP, x90 ; Register has number of iterations
[ali] ; Template for input 2D image files
[sel] ; Selection doc file for input images
x41 ; Radius of restored object
[angles] ; Angles doc file
* ; Symmetries doc file (* means no symmetries)
[vol] ; Output reconstructed 3D volume
x42,x43 ; Lambda, correction limit
x44,0 ; Iteration limit, mode
(.5,.5) ; Minimum, maximum
(.5) ; Smoothing constant
LB1
EN
;