This notebook was created by Svitozar Serkez. Source and license info is on GitHub. August 2016.

Tutorial N5: Genesis preprocessor.

Ocelot is not only a particle tracking code, but a simulation toolkit.

Python is known to be a very good "glue" between different software

Interface to other codes may be (and was) developed. GENESIS interface is under active development and is currently used for studies

-list of papers

This example will cover the following topics:

  • Initialization of the library
  • Preparing the GENESIS simulation
  • running many-stage statistical simulation

Requirements

  • OCELOT - library
  • numpy, scipy, matplotlib
  • beam.txt - input beam file

Import of modules


In [1]:
# the output of plotting commands is displayed inline within frontends, 
# directly below the code cell that produced it
%matplotlib inline
from __future__ import print_function
# this python library provides generic shallow (copy) and deep copy (deepcopy) operations 
from copy import deepcopy

# import from Ocelot graphical modules
import sys, os
from ocelot import *
from ocelot.utils.xfel_utils import *
from ocelot.gui.accelerator import *
from ocelot.gui.genesis_plot import *
#from ocelot.optics.elements import Filter_freq

import numpy as np
from copy import copy
#import matplotlib.pyplot as plt
# load beam distribution


initializing ocelot...

Setting input parameters

electron beam energy and expected radiation photon energy


In [2]:
E_beam=8.5 #[GeV]
E_photon=250 #[eV]

Creating SASE3 lattice

with native ocelot objects


In [3]:
# defining the undulator
lperiod=0.068
nperiods=73
und = Undulator(lperiod=lperiod, nperiods=nperiods, Kx=1.0);
und.Kx = Ephoton2K(E_photon, und.lperiod, E_beam)

# defining of the drifts
d2 = Drift (l=4*und.lperiod)
d3 = Drift (l=7*und.lperiod)

# defining of the quads
qf = Quadrupole (l=6*und.lperiod, k1=-7.3)
qd = Quadrupole (l=6*und.lperiod, k1=7.3)
qdh=deepcopy(qd)
qdh.l/=2

# creating of the cell
extra_fodo = (und, d2, qdh)
cell_ps = (und, d2, qf, d3, und, d2, qd, d3)
l_fodo= MagneticLattice(cell_ps).totalLen/2
sase3 = MagneticLattice((und, d2, qd, d3) + 11*cell_ps)

up = UndulatorParameters(und,E_beam)
up.printParameters()


Undulator parameters:
('L=', 4.964)
('gamma(electron)=', 16634.085776399123)
('K=', 8.8723675084034621)
('B[T]=', 1.397364688791348)
('test', 250.00000000000003)
Radiation parameters:
('w1(first harmonic, zero angle)=', 3.7981687858557933e+17, 'Hz/2pi', 250.00000000000003, '[eV]', 4.959367720369577e-09, 'm')
('Total energy loss [Gev]', 0.00044305322825621829)

Load beam file


In [5]:
beamf = read_beam_file('beam.dat')


['ZPOS', 'GAMMA0', 'DELGAM', 'EMITX', 'EMITY', 'BETAX', 'BETAY', 'XBEAM', 'YBEAM', 'PXBEAM', 'PYBEAM', 'ALPHAX', 'ALPHAY', 'CURPEAK', 'ELOSS']

Plot beamfile


In [7]:
fig=plt.figure()
fig.set_size_inches((20,15))
plot_beam(fig, beamf)


Match beam file


In [8]:
beta_av = 20.0
beam=get_beam_peak(beamf)
beam.E=E_beam
rematch(beta_av, l_fodo, qdh, sase3, extra_fodo, beam, qf, qd)
beamf = transform_beam_file(beamf ,transform = [ [beam.beta_x,beam.alpha_x], [beam.beta_y,beam.alpha_y] ], energy_new = beam.E, emit_scale = 1.0)
beamf = cut_beam(beamf,[-2e-6, 2e-6])

fig=plt.figure()
fig.set_size_inches((20,15))
plot_beam(fig, beamf)


********* calculating fodo parameters *********
fodo parameters:
('k*l=', array([ 0.05283898,  0.15461945]))
('f=', 18.925420799442076, 6.4674915975241269)
('kap1=', 3.0923890195166788)
('kap2=', 1.0567796727980598)
('betaMax=', array([ 26.4674916,  38.9254208]))
('betaMin=', array([ 13.5325084,   1.0745792]))
('betaMean=', array([ 20.,  20.]))
*********                             *********
before rematching k=-7.300000 7.300000   beta=29.813443 19.628544 alpha=1.244151 -0.831963
after rematching k=0.259015 -0.259015   beta=24.470237 14.252958 alpha=1.325022 -0.880831
matching to slice 999
transforming

Tapering the undulator

linear, quadratic,power-law...


In [9]:
def f1(n, n0, a0, a1, a2):
    '''
    piecewise-quadratic tapering function
    '''
    for i in xrange(1,len(n0)):
        if n < n0[i]:
            return a0 + (n-n0[i-1])*a1[i-1] + (n-n0[i-1])**2 * a2[i-1]
        a0 += (n0[i]-n0[i-1])*a1[i-1] + (n0[i]-n0[i-1])**2 * a2[i-1]
    
    return 1.0

tap_start=3 #number of undulators
lin_tap=0.01 #taper step
quad_tap=0.0

n = 60
n0 = [0,tap_start,60]
a0 = und.Kx
a1 = [0,lin_tap*a0]
a2 = [0,quad_tap]

taper_func1 = lambda n : f1(n, n0, a0, a1, a2)

sase3= taper(sase3, taper_func1)
specify the run_dir - directory into which the experimental results will be saved

In [14]:
run_dir = 'gen_stst' #directory to dump data
run_id=0 # run number (subdirectory 'run_#') for statistical studies
try:
    os.makedirs(run_dir)
except:
    pass
launcher = get_genesis_launcher('genesis') # launcher object to start genesis
generate Genesis input object

In [15]:
inp = generate_input(up, beam, itdp=False)
inp.lattice_str = generate_lattice(sase3, unit = up.lw, energy = beam.E) #generate Genesis lattice based on Ocelot lattice object
inp.beam_file_str = beam_file_str(beamf)
#inp.beamfile = 'tmp.beam'

inp.runid = run_id
inp.run_dir = run_dir
inp.ipseed = 17111+7*run_id # defines shot-noise, changes automatically 
# below other Genesis parameters may be specified, like prad0, dgrid, etc.....


********    FEL Parameters    ********
ex= 1.38895798733e-07
ey= 2.13452762304e-07
rxbeam= 1.11421096629e-05  [m]
rybeam= 1.05416158084e-05  [m]
rel energy spread deta= 0.000162368283071  [m]
xlamd= 0.068
aw0= 6.27371123037
gamma0= 16634.1159848
Ip= 4445.33915304  beam peak current [A]
lambda0= 4.95934970746e-09
Pb= 3.77854513472e+13  beam power [W]
N= 153100.938649
rho= 0.00413668812369
power= 2577.28852613  equivalent shot noise power [W]
coupling parameter fc= 0.712953317588
gain length estimate lg= 0.755241144761
Rayleigh length estimate zr= 0.297846800745

Ming Xie gain reduction estimates:
diffraction parameter etad= 2.53566982379
energy spread parameter etad= 0.0226614550422
gain length degradation lscale= 0.766336177728
**************************************
generating lattice file...

now all the genesis input files are created, such as lattice file, beam file, input file.


In [16]:
print(inp.input())


 $newrun 
 aw0   =  6.27371123037 
 xkx   =  0
 xky   =  1
 wcoefz =  0 0 0
 xlamd =  0.068
 fbess0 =  0.712953317588
 delaw =  0
 iertyp =  0
 iwityp =  0
 awd   =  6.27371123037 
 awx   =  0
 awy   =  0
 iseed =  -1
 npart =  2048
 gamma0 =  16634.1159848
 delgam =  2.70085285285
 rxbeam =  1.11421096629e-05
 rybeam =  1.05416158084e-05
 alphax = 1.32502206016
 alphay = -0.880831166291
 emitx =  1.38895798733e-07
 emity =  2.13452762304e-07
 xbeam =  0.0
 ybeam =  0.0
 pxbeam =  0.0
 pybeam =  0.0
 conditx =  0.0
 condity =  0.0
 bunch =  0.0
 bunchphase =  0.0
 emod =  0.0
 emodphase =  0.0
 xlamds =  4.95934970746e-09
 prad0 =  0
 zrayl =  0.297846800745
 zwaist =  2
 ncar  =  151
 lbc   =  0
 rmax0 =  9.0
 dgrid =  0.0
 nscr  =  0
 nscz  =  0
 nptr  =   40
 nwig  =   98
 zsep  =   20
 delz  =   4.0
 nsec  =   1
 iorb  =   0
 zstop =   256.0
 magin =   1
 magout =   0
 quadf =   0
 quadd =   0
 fl    =  0
 dl    =  0
 drl   =  0
 f1st  =  0
 qfdx  =  0
 qfdy  =  0
 solen =  0
 sl    =  0
 ildgam =  5
 ildpsi =  7
 ildx  =  1
 ildy  =  2
 ildpx =  3
 ildpy =  4
 itgaus =  1
 nbins =    4
 igamgaus =  1
 lout  = 1 1 1 1 1 0 1 1 1 1 1 0 0 1 0 0 0 0 0 0 0 0 0 0
 iphsty =  1
 ishsty =  1
 ippart =  0
 ispart =  0
 ipradi =  0
 isradi =  0
 idump =  0
 iotail =    1
 nharm =    1
 curpeak =  4445.33915304
 curlen =  7e-06
 ntail = -500
 nslice = 1000
 itdp  =    0
 isntyp =  0
 iall  =  0
 itdp = 0
 ipseed =   17111
 iscan =  0
 nscan =  3
 svar  =  0.01
 isravg =    1
 isrsig =    1
 cuttail = -1.0
 eloss =  0
 version =  0.1
 ndcut =  -1
 idmpfld =    0
 idmppar =    0
 ilog  =  0
 ffspec =  0
 convharm =    1
 ibfield =  0.0
 imagl =  0.0
 idril =  0.0
 alignradf =  1
 offsetradf =  0
 multconv =  0
 outputfile ='run.0.gout'
 maginfile ='lattice.inp'
 filetype ='ORIGINAL'
 $end


In [17]:
print(inp.lattice_str)


# header is included
? VERSION= 1.00  including new format
? UNITLENGTH= 0.068 :unit length in header
AW    6.27371123037   73.0  0.0
AW    6.27371123037   73.0  17.0
AW    6.27371123037   73.0  17.0
AW    6.33644834267   73.0  17.0
AW    6.39918545498   73.0  17.0
AW    6.46192256728   73.0  17.0
AW    6.52465967959   73.0  17.0
AW    6.58739679189   73.0  17.0
AW    6.65013390419   73.0  17.0
AW    6.7128710165   73.0  17.0
AW    6.7756081288   73.0  17.0
AW    6.8383452411   73.0  17.0
AW    6.90108235341   73.0  17.0
AW    6.96381946571   73.0  17.0
AW    7.02655657802   73.0  17.0
AW    7.08929369032   73.0  17.0
AW    7.15203080262   73.0  17.0
AW    7.21476791493   73.0  17.0
AW    7.27750502723   73.0  17.0
AW    7.34024213953   73.0  17.0
AW    7.40297925184   73.0  17.0
AW    7.46571636414   73.0  17.0
AW    7.52845347645   73.0  17.0
AD    6.27371123037   17.0  73.0
AD    6.27371123037   17.0  73.0
AD    6.33644834267   17.0  73.0
AD    6.39918545498   17.0  73.0
AD    6.46192256728   17.0  73.0
AD    6.52465967959   17.0  73.0
AD    6.58739679189   17.0  73.0
AD    6.65013390419   17.0  73.0
AD    6.7128710165   17.0  73.0
AD    6.7756081288   17.0  73.0
AD    6.8383452411   17.0  73.0
AD    6.90108235341   17.0  73.0
AD    6.96381946571   17.0  73.0
AD    7.02655657802   17.0  73.0
AD    7.08929369032   17.0  73.0
AD    7.15203080262   17.0  73.0
AD    7.21476791493   17.0  73.0
AD    7.27750502723   17.0  73.0
AD    7.34024213953   17.0  73.0
AD    7.40297925184   17.0  73.0
AD    7.46571636414   17.0  73.0
AD    7.52845347645   17.0  73.0
QF    -7.3438282371   6.0  77.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0
QF    7.3438282371   6.0  84.0
QF    -7.3438282371   6.0  84.0


In [18]:
print(inp.beam_file_str)


# 
? VERSION = 1.0
? SIZE =521
? COLUMNS ZPOS GAMMA0 DELGAM EMITX EMITY BETAX BETAY XBEAM YBEAM PXBEAM PYBEAM ALPHAX ALPHAY CURPEAK ELOSS
-1.99578155155e-06 16636.8491332 1.86806646647 8.28193026263e-08 7.92424918988e-08 4.80748057486 3.80534285333 0.0 0.0 0.0 0.0 0.599355677268 0.712462798687 442.445184853 -28725.103293
-1.98809868869e-06 16636.8268689 1.86816506507 8.28118000853e-08 7.9281606531e-08 4.80025726799 3.80890738489 0.0 0.0 0.0 0.0 0.599792994783 0.71370350518 441.588856421 -28709.097391
-1.98041582583e-06 16636.8061321 1.83201981982 8.28122996212e-08 7.93198709845e-08 4.79181451684 3.81410553011 0.0 0.0 0.0 0.0 0.600111350976 0.715128676868 440.747637886 -28693.811591
-1.97273296296e-06 16636.7612831 1.89664444444 8.28251950231e-08 7.93520875772e-08 4.78298211531 3.82083584465 0.0 0.0 0.0 0.0 0.600517671324 0.71686418496 440.181218364 -28680.2052469
-1.9650501001e-06 16636.7647844 1.85702582583 8.28515996559e-08 7.93756996924e-08 4.77444896891 3.82896850927 0.0 0.0 0.0 0.0 0.601054693132 0.718934874804 439.967002789 -28668.1001577
-1.95736723724e-06 16636.7483645 1.86155975976 8.28872664019e-08 7.93918847538e-08 4.76651939666 3.83811519015 0.0 0.0 0.0 0.0 0.601660559938 0.721276033425 439.829129875 -28658.4091289
-1.94968437437e-06 16636.7246685 1.87150880881 8.29220801786e-08 7.94047926524e-08 4.75916026699 3.8481263806 0.0 0.0 0.0 0.0 0.602403175093 0.723879798273 440.671519844 -28651.4039871
-1.94200151151e-06 16636.7112544 1.87304284284 8.2956893151e-08 7.94216966739e-08 4.7524359789 3.85822191896 0.0 0.0 0.0 0.0 0.603209011644 0.726594142735 441.513834285 -28647.5007676
-1.93431864865e-06 16636.6990682 1.86482972973 8.29976057639e-08 7.94418049028e-08 4.7459407646 3.86836184788 0.0 0.0 0.0 0.0 0.604090142678 0.729324200863 443.207359892 -28646.9003866
-1.92663578579e-06 16636.6507064 1.85527197197 8.3030375322e-08 7.94696790087e-08 4.73919987419 3.8783353931 0.0 0.0 0.0 0.0 0.605039099788 0.732075426155 445.25345913 -28649.0983448
-1.91895292292e-06 16636.6382233 1.88051421421 8.30525915509e-08 7.95004882779e-08 4.73216672431 3.88835039864 0.0 0.0 0.0 0.0 0.605995408563 0.734831198835 447.674078975 -28654.6978687
-1.91127006006e-06 16636.60175 1.82969309309 8.30620999257e-08 7.95326997482e-08 4.72516269911 3.89833643115 0.0 0.0 0.0 0.0 0.607013420705 0.737457087752 450.822975382 -28662.2999406
-1.9035871972e-06 16636.5867332 1.86025565566 8.30667956012e-08 7.95578764149e-08 4.71783690682 3.90801544271 0.0 0.0 0.0 0.0 0.608076847688 0.739864446218 453.968053735 -28672.9899857
-1.89590433433e-06 16636.5645093 1.89921611612 8.30697983069e-08 7.95797876404e-08 4.71073034828 3.91697945652 0.0 0.0 0.0 0.0 0.609215806605 0.741867215671 457.888787684 -28684.7933405
-1.88822147147e-06 16636.5289336 1.88808198198 8.30757988504e-08 7.95967967428e-08 4.70375383424 3.92485526292 0.0 0.0 0.0 0.0 0.610531807194 0.74341967968 461.834244338 -28698.7973176
-1.88053860861e-06 16636.5123486 1.8577981982 8.30728969241e-08 7.96133032206e-08 4.69734310817 3.93168678173 0.0 0.0 0.0 0.0 0.612070903413 0.744662429195 466.005781459 -28713.2028045
-1.87285574575e-06 16636.458052 1.85403693694 8.30559127019e-08 7.96310867004e-08 4.69101657126 3.93764425684 0.0 0.0 0.0 0.0 0.613861489074 0.745656067203 470.320772968 -28728.6884188
-1.86517288288e-06 16636.4482911 1.8767963964 8.30322088964e-08 7.96456945195e-08 4.68382314624 3.94241223332 0.0 0.0 0.0 0.0 0.61571874785 0.746482214087 474.632382132 -28744.2941441
-1.85749002002e-06 16636.4238726 1.88838998999 8.30054000699e-08 7.96544999771e-08 4.67542226737 3.9458170136 0.0 0.0 0.0 0.0 0.61755409479 0.747190038265 478.913988843 -28759.1999612
-1.84980715716e-06 16636.3945626 1.89048958959 8.29845194518e-08 7.96576970217e-08 4.6664805074 3.94809554463 0.0 0.0 0.0 0.0 0.619313264698 0.747890904543 483.191015632 -28773.8863186
-1.84212429429e-06 16636.361523 1.88522132132 8.29619126369e-08 7.96641963655e-08 4.65771719742 3.94982097592 0.0 0.0 0.0 0.0 0.621139496728 0.748694156326 487.189765066 -28786.7927869
-1.83444143143e-06 16636.3124926 1.87035825826 8.29369046596e-08 7.96800970365e-08 4.64984323107 3.95124761158 0.0 0.0 0.0 0.0 0.623183522781 0.749745307861 491.144263223 -28798.9977261
-1.82675856857e-06 16636.2997049 1.86484174174 8.29058927405e-08 7.97083072781e-08 4.64304983697 3.95207954618 0.0 0.0 0.0 0.0 0.625509809786 0.750938966326 494.889657639 -28809.7018056
-1.81907570571e-06 16636.2583624 1.86957627628 8.28669289366e-08 7.97473709892e-08 4.63736583438 3.95237259909 0.0 0.0 0.0 0.0 0.627992048532 0.752266606067 498.41937864 -28819.3928029
-1.81139284284e-06 16636.2437271 1.86286886887 8.28233161391e-08 7.97929831206e-08 4.63259492019 3.95215657738 0.0 0.0 0.0 0.0 0.630518690365 0.753609139983 501.900711837 -28827.7968906
-1.80370997998e-06 16636.2219417 1.86295595596 8.27740999026e-08 7.9844600132e-08 4.6283599886 3.95119674125 0.0 0.0 0.0 0.0 0.632985365284 0.754906786955 505.035008154 -28835.1000156
-1.79602711712e-06 16636.1896353 1.8792036036 8.27367346138e-08 7.9895253077e-08 4.62479842616 3.94969044487 0.0 0.0 0.0 0.0 0.635548266808 0.756253596003 508.164101325 -28841.094447
-1.78834425425e-06 16636.1713786 1.89573913914 8.27180103587e-08 7.99428736325e-08 4.62153755346 3.94755989646 0.0 0.0 0.0 0.0 0.638211646169 0.757620566487 511.075388036 -28846.1971749
-1.78066139139e-06 16636.1196193 1.8384008008 8.27121010689e-08 7.99807931336e-08 4.61826882136 3.94485338254 0.0 0.0 0.0 0.0 0.640920564296 0.759045946755 513.916485475 -28850.5992028
-1.77297852853e-06 16636.114346 1.84494714715 8.27067006123e-08 8.00169058361e-08 4.61543970627 3.94169773188 0.0 0.0 0.0 0.0 0.643654686598 0.760520906376 516.701516067 -28854.2006315
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1.41540955956e-06 16625.2237721 2.04450610611 2.38021039284e-07 8.06193974308e-08 5.88167612111 5.00629876298 0.0 0.0 0.0 0.0 0.311278473534 -0.338359247585 222.810991627 -2003.49057005
1.42309242242e-06 16625.2025014 2.04282002002 2.37173835603e-07 8.06162031532e-08 5.99740171032 5.09760261174 0.0 0.0 0.0 0.0 0.30946050641 -0.345874764609 222.956856134 -1994.90846442
1.43077528529e-06 16625.1938639 2.03751051051 2.3614663047e-07 8.05636322909e-08 6.11525284554 5.18770622871 0.0 0.0 0.0 0.0 0.307410688825 -0.353269731986 223.351757511 -1986.83495413
1.43845814815e-06 16625.1834762 2.0129962963 2.34946289352e-07 8.0461524619e-08 6.23508730218 5.27708164989 0.0 0.0 0.0 0.0 0.30509934787 -0.360566222841 223.84888016 -1979.98165172
1.44614101101e-06 16625.1413583 1.96276256256 2.33600574534e-07 8.03062816501e-08 6.35689428183 5.36572135066 0.0 0.0 0.0 0.0 0.302605963606 -0.367808572795 224.427323196 -1973.39770318
1.45382387387e-06 16625.1420444 2.07354144144 2.32103194116e-07 8.01015632836e-08 6.48040115843 5.45477034702 0.0 0.0 0.0 0.0 0.299823666274 -0.375211912948 225.164412115 -1967.82444304
1.46150673674e-06 16625.1157029 2.02466656657 2.30472692594e-07 7.98476078831e-08 6.60564040807 5.54415384409 0.0 0.0 0.0 0.0 0.296827911215 -0.382791839671 225.902686421 -1962.37231573
1.4691895996e-06 16625.0936397 1.99804324324 2.28691092853e-07 7.95552152392e-08 6.73261574306 5.63382454388 0.0 0.0 0.0 0.0 0.293598024108 -0.390588488206 226.779954277 -1957.71024295
1.47687246246e-06 16625.0839132 2.02064534535 2.26730923101e-07 7.92308182625e-08 6.85960911342 5.72390732264 0.0 0.0 0.0 0.0 0.290018725424 -0.398584608492 227.659137447 -1953.06455781
1.48455532533e-06 16625.0722383 2.03858358358 2.24589303187e-07 7.88748166298e-08 6.98663735664 5.81503404838 0.0 0.0 0.0 0.0 0.286026085217 -0.406794186335 228.556454013 -1948.47279385
1.49223818819e-06 16625.0270757 2.02261911912 2.22282544015e-07 7.84922902131e-08 7.11419814526 5.9071738678 0.0 0.0 0.0 0.0 0.281753351232 -0.415208636625 229.464785791 -1943.85108992
1.49992105105e-06 16625.0285422 2.04756156156 2.1983085575e-07 7.80892694416e-08 7.242529742 6.0001574625 0.0 0.0 0.0 0.0 0.277199076996 -0.423865601184 230.363952659 -1939.13549272
1.50760391391e-06 16625.0296573 2.00602252252 2.17248046129e-07 7.76660352895e-08 7.37200395475 6.09329578948 0.0 0.0 0.0 0.0 0.272360066944 -0.432731676004 231.239306598 -1934.30382758
1.51528677678e-06 16625.0051492 2.00508108108 2.14543134843e-07 7.722658437e-08 7.50263197266 6.18694899716 0.0 0.0 0.0 0.0 0.267155467425 -0.441807597782 232.114632771 -1929.26211524
1.52296963964e-06 16624.9779715 2.0211963964 2.11738131569e-07 7.67613218234e-08 7.63468960916 6.28098484307 0.0 0.0 0.0 0.0 0.261622451107 -0.451135916586 232.920962181 -1924.01024634
1.5306525025e-06 16624.972598 2.00715535536 2.08867801081e-07 7.62643849487e-08 7.76823142216 6.37521275784 0.0 0.0 0.0 0.0 0.255847368233 -0.460799113089 233.716223926 -1918.46541107
1.53833536537e-06 16624.9736384 1.9881006006 2.05947761523e-07 7.57363185708e-08 7.90459416926 6.46935120103 0.0 0.0 0.0 0.0 0.249910097568 -0.470834575398 234.462549813 -1912.63351822
1.54601822823e-06 16624.9761757 1.96427927928 2.02997680333e-07 7.5177128961e-08 8.04356365919 6.5632808539 0.0 0.0 0.0 0.0 0.243839537644 -0.481200619071 235.160838972 -1906.54140496
1.55370109109e-06 16624.977464 1.98516466466 2.00023448871e-07 7.45956742503e-08 8.18475081611 6.65767371977 0.0 0.0 0.0 0.0 0.237662604984 -0.49188364715 235.846205265 -1900.11744919
1.56138395395e-06 16624.9784789 1.98037637638 1.97032353864e-07 7.39856800624e-08 8.3280270004 6.75263913493 0.0 0.0 0.0 0.0 0.231414682128 -0.50298319945 236.453522142 -1893.47522731
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1.61516399399e-06 16624.9911182 1.98218228228 1.74983572885e-07 6.88822477571e-08 9.41352138949 7.45162711621 0.0 0.0 0.0 0.0 0.189204557123 -0.592991933519 239.746777121 -1839.17703047
1.62284685686e-06 16624.9936555 1.96485635636 1.71638368577e-07 6.80177536855e-08 9.58865596779 7.55843039971 0.0 0.0 0.0 0.0 0.184635082063 -0.607552825343 240.032882951 -1830.01374885
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1.63821258258e-06 16625.0184947 1.99094654655 1.64856278518e-07 6.61687120819e-08 9.96728592172 7.77934455385 0.0 0.0 0.0 0.0 0.178487787929 -0.637419282342 240.170974922 -1809.09029179
1.64589544545e-06 16625.0506704 1.96483693694 1.61433029386e-07 6.51866821883e-08 10.1759672724 7.89360501338 0.0 0.0 0.0 0.0 0.177455767507 -0.652684501419 240.072058711 -1797.06712835
1.65357830831e-06 16625.0642432 1.91777287287 1.57992757517e-07 6.41690240831e-08 10.3987422537 8.01067035439 0.0 0.0 0.0 0.0 0.177994203864 -0.66801280082 239.678086787 -1784.26281949
1.66126117117e-06 16625.067523 1.92158198198 1.54527981584e-07 6.31148114669e-08 10.636400027 8.1306678135 0.0 0.0 0.0 0.0 0.180277951927 -0.683268116366 239.283453496 -1769.87653253
1.66894403403e-06 16625.0710751 1.96822752753 1.51031714981e-07 6.20260454892e-08 10.8906725171 8.25532907181 0.0 0.0 0.0 0.0 0.184516184204 -0.698447615357 238.312754291 -1754.01232034
1.6766268969e-06 16625.075918 1.95165685686 1.47521417811e-07 6.09042531015e-08 11.161963802 8.38442980133 0.0 0.0 0.0 0.0 0.190903888156 -0.713440771901 237.298409707 -1736.19719613
1.68430975976e-06 16625.0977382 1.90292762763 1.43990110423e-07 5.97549359391e-08 11.450499046 8.51836084426 0.0 0.0 0.0 0.0 0.199538759044 -0.728179440105 235.818046296 -1716.24062406
1.69199262262e-06 16625.1328673 1.94166686687 1.40430418153e-07 5.85866218602e-08 11.7555541965 8.65747221298 0.0 0.0 0.0 0.0 0.210429892399 -0.742474988835 233.977767117 -1694.41096173
1.69967548549e-06 16625.1489287 1.9182004004 1.36841109125e-07 5.74023958701e-08 12.0775763801 8.80283330806 0.0 0.0 0.0 0.0 0.223843156669 -0.756323853503 231.941196817 -1669.49464278
1.70735834835e-06 16625.155018 1.8979015015 1.33224777438e-07 5.62069569953e-08 12.4163163388 8.95463651509 0.0 0.0 0.0 0.0 0.239740828795 -0.769739087907 229.102610337 -1642.79573992
1.71504121121e-06 16625.1632769 1.91744064064 1.29599147531e-07 5.50017786627e-08 12.7718999449 9.11215706959 0.0 0.0 0.0 0.0 0.258189584763 -0.782657048656 226.266244652 -1612.40476657
1.72272407407e-06 16625.1803058 1.92782222222 1.25947816358e-07 5.37921330247e-08 13.1457939848 9.27657796633 0.0 0.0 0.0 0.0 0.279236868029 -0.795103023825 222.51489429 -1580.60452932
1.73040693694e-06 16625.2315577 1.89196486486 1.22278462932e-07 5.25858809169e-08 13.5366729821 9.44714658213 0.0 0.0 0.0 0.0 0.302860779711 -0.806967508107 218.573571415 -1544.70431424
1.7380897998e-06 16625.2452313 1.89182872873 1.1859209606e-07 5.1383331336e-08 13.9435330958 9.62315560491 0.0 0.0 0.0 0.0 0.329025757061 -0.818221972041 214.121116027 -1507.98095695
1.74577266266e-06 16625.2547184 1.88472522523 1.14912514098e-07 5.01957341863e-08 14.3651084365 9.80402481074 0.0 0.0 0.0 0.0 0.357636385278 -0.828759104099 209.075818407 -1466.68943461
1.75345552553e-06 16625.2646132 1.89522972973 1.11245135862e-07 4.90229829982e-08 14.8018702303 9.98910744843 0.0 0.0 0.0 0.0 0.388770082176 -0.838521050453 203.928997548 -1424.82438239
1.76113838839e-06 16625.2762997 1.91042382382 1.07612761948e-07 4.78732411752e-08 15.2525668169 10.1773507001 0.0 0.0 0.0 0.0 0.42237484427 -0.847368682905 197.848275649 -1377.52992148
1.76882125125e-06 16625.2961204 1.88940940941 1.04031078578e-07 4.67541743138e-08 15.7144647329 10.3679946488 0.0 0.0 0.0 0.0 0.458133501552 -0.855165755597 191.774915948 -1329.78436966
1.77650411411e-06 16625.3544765 1.91013813814 1.00497706894e-07 4.56643349068e-08 16.1868836621 10.5615391272 0.0 0.0 0.0 0.0 0.495972653824 -0.861991560614 185.07513329 -1278.69913961
1.78418697698e-06 16625.3708028 1.90127327327 9.70408601635e-08 4.46055166104e-08 16.6670429171 10.7575654612 0.0 0.0 0.0 0.0 0.535709836189 -0.867871315775 178.139728987 -1226.9803503
1.79186983984e-06 16625.3840681 1.87218668669 9.36776701097e-08 4.3581921338e-08 17.1522429484 10.9552989684 0.0 0.0 0.0 0.0 0.577081031555 -0.872871698363 170.983149191 -1173.2311205
1.7995527027e-06 16625.3972441 1.88507027027 9.04193947563e-08 4.25973351738e-08 17.6384436625 11.1534858575 0.0 0.0 0.0 0.0 0.619660767846 -0.876997628591 163.438166344 -1118.94156504
1.80723556557e-06 16625.4102559 1.91683243243 8.72717167324e-08 4.16498468558e-08 18.1229538972 11.3528456259 0.0 0.0 0.0 0.0 0.663115274482 -0.880328667492 155.88435995 -1063.39206304
1.81491842843e-06 16625.4240201 1.8926015015 8.42413198704e-08 4.0742485601e-08 18.6026424652 11.5521577737 0.0 0.0 0.0 0.0 0.707138417007 -0.882973499093 147.988615158 -1007.44144505
1.82260129129e-06 16625.4382286 1.87254144144 8.13413871129e-08 3.98804770967e-08 19.0729379267 11.7501064378 0.0 0.0 0.0 0.0 0.751230080914 -0.884985448512 140.099941998 -951.053916713
1.83028415415e-06 16625.452437 1.91912052052 7.85754045045e-08 3.90635215778e-08 19.5317955441 11.9455930781 0.0 0.0 0.0 0.0 0.795121167284 -0.886472121794 132.161040707 -894.824784284
1.83796701702e-06 16625.4666455 1.89348988989 7.59515187198e-08 3.82954981818e-08 19.9764174351 12.1372560695 0.0 0.0 0.0 0.0 0.83848826987 -0.88750050892 124.198091738 -838.795754025
1.84564987988e-06 16625.4811255 1.85421591592 7.34835385855e-08 3.75792111987e-08 20.4043653925 12.3235557128 0.0 0.0 0.0 0.0 0.880958970938 -0.888115867923 116.286123702 -783.73686083
1.85333274274e-06 16625.4954975 1.84474524525 7.11759797252e-08 3.69137286163e-08 20.8144558889 12.5032622581 0.0 0.0 0.0 0.0 0.922263247681 -0.88844637173 108.531325206 -729.296424604
1.86101560561e-06 16625.5091985 1.86482602603 6.90272289427e-08 3.62962531537e-08 21.2051610186 12.6752015214 0.0 0.0 0.0 0.0 0.962038371216 -0.888530239894 100.766441314 -676.616130783
1.86869846847e-06 16625.5228995 1.8629036036 6.70353970416e-08 3.57279132895e-08 21.5750943307 12.8383358456 0.0 0.0 0.0 0.0 1.00011935924 -0.888357826639 93.381572085 -624.582372537
1.87638133133e-06 16625.5572446 1.89292912913 6.51965747314e-08 3.52089855015e-08 21.9224105135 12.9926231063 0.0 0.0 0.0 0.0 1.03634531298 -0.888022031347 86.0548667987 -575.155768059
1.88406419419e-06 16625.5977114 1.88398108108 6.35056776553e-08 3.47345584783e-08 22.2467036853 13.1381518167 0.0 0.0 0.0 0.0 1.07062804081 -0.887505905734 79.0352043747 -526.148033935
1.89174705706e-06 16625.6235449 1.88111441441 6.19612915392e-08 3.43008661153e-08 22.5480149163 13.2749480995 0.0 0.0 0.0 0.0 1.10292486401 -0.886835362989 72.3083766462 -480.541468742
1.89942991992e-06 16625.6360499 1.88893323323 6.056531455e-08 3.39058041177e-08 22.8256775399 13.4029235298 0.0 0.0 0.0 0.0 1.13312878195 -0.886039193608 65.6948689335 -435.352471013
1.90711278278e-06 16625.6481471 1.88416616617 5.93104787809e-08 3.35486355208e-08 23.0792475624 13.5219603856 0.0 0.0 0.0 0.0 1.16115987808 -0.885164229978 59.7186140377 -394.832064486
1.91479564565e-06 16625.6598184 1.86276876877 5.81848379016e-08 3.32278817716e-08 23.3097107902 13.6328661772 0.0 0.0 0.0 0.0 1.18702238457 -0.884297499265 53.7345915204 -354.935611459
1.92247850851e-06 16625.6700219 1.82130680681 5.71832944182e-08 3.29406557561e-08 23.5160387874 13.7357367026 0.0 0.0 0.0 0.0 1.21057978462 -0.883512510369 48.3871380431 -319.104955439
1.93016137137e-06 16625.6801708 1.84723943944 5.62968954902e-08 3.26832890422e-08 23.7000247684 13.8309920945 0.0 0.0 0.0 0.0 1.23193973998 -0.882893625147 43.2213017148 -284.400975818
1.93784423423e-06 16625.68974 1.86562432432 5.57241295796e-08 3.25109292793e-08 23.8225086206 13.8916534839 0.0 0.0 0.0 0.0 1.24595452529 -0.882356109563 38.4025160661 -252.998563814
1.9455270971e-06 16625.6984935 1.8696962963 5.52055959081e-08 3.23543591542e-08 23.9341378276 13.9485221285 0.0 0.0 0.0 0.0 1.25893040665 -0.881887995414 34.0780338278 -223.099296752
1.95320995996e-06 16625.7065221 1.88058038038 5.47333024613e-08 3.2213700733e-08 24.0348242887 14.0015907696 0.0 0.0 0.0 0.0 1.27078282356 -0.881483691647 29.7946223234 -196.056140933
1.96089282282e-06 16625.7141337 1.87038318318 5.43058992713e-08 3.20890164775e-08 24.1244476809 14.0508050669 0.0 0.0 0.0 0.0 1.28151767565 -0.881181938333 26.2947694889 -171.103310426
1.96857568569e-06 16625.7212471 1.84376956957 5.39224153225e-08 3.19799612318e-08 24.2038934541 14.0955058501 0.0 0.0 0.0 0.0 1.29120464656 -0.880962684279 22.7903679003 -148.681589596
1.97625854855e-06 16625.727554 1.84555155155 5.35839639357e-08 3.18868175951e-08 24.2731536704 14.1357116202 0.0 0.0 0.0 0.0 1.29982303503 -0.880798053268 19.8053638738 -128.495813273
1.98394141141e-06 16625.7333443 1.84240810811 5.32921262323e-08 3.18079881196e-08 24.3335061636 14.1710317316 0.0 0.0 0.0 0.0 1.30744968008 -0.880722487053 17.066162072 -110.197455137
1.99162427427e-06 16625.7387269 1.82275485485 5.30411869807e-08 3.17412497273e-08 24.3860778235 14.2021358444 0.0 0.0 0.0 0.0 1.31416114349 -0.880698420828 14.5334873274 -94.2283991465
1.99930713714e-06 16625.7435023 1.80836766767 5.28278794743e-08 3.16856207259e-08 24.4312998203 14.229112735 0.0 0.0 0.0 0.0 1.31997223317 -0.880741524214 12.4583731221 -79.5507689627

Genesis may be executed with the following command:


In [19]:
#g = run(inp,launcher)

if "run" function is placed in a sctipt, the following post-processing code will be executed after the GENESIS simulation is finished

the following two python scripts would start ocelot/genesis several-stage simulation for many independent runs

Possible post-processing between stages:

  • electron beam: propagation through chicane via second-order tracking +CSR (in development)
  • radiation: hard X-ray Self-seeding
  • radiation: soft X-ray Self-seeding (in development)

In [10]:
exp_dir='/some_directory'

run_number=10
run_ids = xrange(0,run_number)

start_stage = 1
stop_stage = 4

# set simulation parameters
# prepare electron beam file

stage=1
if start_stage <= stage and stop_stage >= stage:
    for run_id in run_ids:   
        run_dir = exp_dir + 'run_' + str(run_id)    
        #prepare input, specify parameters
        #inp.ipseed = 17111*(run_id + 1)
        #
        #
        #
        #g = run(inp,launcher)
        print('run #',run_id, ' of stage ',stage)
        
stage=2
if start_stage <= stage and stop_stage >= stage:
    for run_id in run_ids:   
        run_dir = exp_dir + 'run_' + str(run_id)    
        #prepare input based on stage 1 output
        #inp.ipseed = 27222*(run_id + 1)
        #
        #inp.distfile = 'run.'+ str(inp.runid)+'.s1.gout.dist'
        #
        #g = run(inp,launcher)
        print('run #',run_id, ' of stage ',stage)
        
stage=3
if start_stage <= stage and stop_stage >= stage:
    for run_id in run_ids:   
        run_dir = exp_dir + 'run_' + str(run_id)    
        #prepare input based on stage 1 output
        #inp.ipseed = 37333*(run_id + 1)
        #
        #inp.distfile = 'run.'+ str(inp.runid)+'.s1.gout.dist'
        #
        #g = run(inp,launcher)
        print('run #',run_id, ' of stage ',stage)
    
    #stage=n .........


run # 0  of stage  1
run # 1  of stage  1
run # 2  of stage  1
run # 3  of stage  1
run # 4  of stage  1
run # 5  of stage  1
run # 6  of stage  1
run # 7  of stage  1
run # 8  of stage  1
run # 9  of stage  1
run # 0  of stage  2
run # 1  of stage  2
run # 2  of stage  2
run # 3  of stage  2
run # 4  of stage  2
run # 5  of stage  2
run # 6  of stage  2
run # 7  of stage  2
run # 8  of stage  2
run # 9  of stage  2
run # 0  of stage  3
run # 1  of stage  3
run # 2  of stage  3
run # 3  of stage  3
run # 4  of stage  3
run # 5  of stage  3
run # 6  of stage  3
run # 7  of stage  3
run # 8  of stage  3
run # 9  of stage  3

next: Tutorial N6: Genesis_postprocessor