forked from Vdesnoux/Solex_ser_recon
-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathInti_ser_recon.py
1188 lines (991 loc) · 49.5 KB
/
Inti_ser_recon.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
970
971
972
973
974
975
976
977
978
979
980
981
982
983
984
985
986
987
988
989
990
991
992
993
994
995
996
997
998
999
1000
# -*- coding: utf-8 -*-
"""
Created on Fri Dec 25 16:38:55 2020
Version 20 mai 2021
@author: valerie
Front end de traitements spectro helio de fichier ser
- interface pour selectionner un ou plusieurs fichiers
- appel au module inti_recon qui traite la sequence et genere les fichiers fits
----------------------------------------------------------------------------------------------------------------
Version 17 sept 2022 Paris V3.3.6 > V4.0.0
- image trame mean en cv2 pour pointer une raie avec la souris en mode raie libre
- capture data entete observer, site long & lat, instrument
- transmission data_entete à la routine de traitement
Version 11 sept 2022 Paris V3.3.5
- sauvegarde poly_slit si pas POL ou WEAK flags
Version du 28 Aout 2022 V3.3.4
- gere la selection des onglets, suppression des checkbox
- ajoute des decimales dans raie libre
- avoir possiblité de fixer tilt et scaling dans raie libre
Version du 22 Aout V3.3.3
- revient en arriere sur sauvegarde du polynome calculé
- sauve des coeff de polynome pour raie libre
- raie libre position x bleue et rouge en absolu
Version du 21 Aout Paris V3.3.2
- conservation du dernier nom de fichier unique traité
- gestion disque saturé pour ne pas faire de flat
Version 14 aout 2022 Antibes V3.3.1
- ajout onglet decalage pour raie libre
- ajout lecture des coef du dernier polynome
- ajout calcul constante polynome pour raie libre
- calcul image free et diff
- positionne fenetre à 300,300
- boucle tant que pas cancel ou win_closed ou fichier ser vide
- position depart fenetre dans inti.yaml win_posx et win_posy
- 2 chiffres apres virgule pour constante polynome
Version du 12 mai 2022 - V3.3.0
- ajout fenetre de zoom avec curseur souris sur disk, protus, clahe
version du 27 avril 2022 - Paris
- correction bug multiple fichier test si pas de nom de fichier
version du 23 avril 2022 - Paris
- ajout onglet de calcul d'une sequence doppler
- ajout de generation film mp4
- ajout onglet de la fonction magnetogramme
- ajout de memoire de boucle sur fichier traité pour gérér sequence b et v
- creation d'une version anglaise par swith LG a la compil
- ajout de sauvegarde des coefficients de polynomes
- ajout4
version 18 sept 2021 - antibes
- reserre un peu seuils pour la visu des protuberances
version 16 sept 2021 - antibes
- back to circle display of black disk, not ellipse to really check deviation from circle
- adjust black disk size versus disk edge with disk_limit_percent variable
version 12 sept 2021 - antibes
- affichage disque noir et seuils protus sur suggestion de mattC
Version 8 sept 2021
- gestion erreur absence nom de fichier
- disque noir plus grand de 97% a 98 %
- ne sauve plus les fichiers fits intermediaires par defaut (_mean, _tilt et _flat)
Version 19 aout 2021
- suppression des flags dans la GUI pour simplification
- ajout '_' pour avoir fichier en tete dans explorer/finder
- ajout de _dp pour valeur de decalage différente de zéro dans noms de fichier pour eviter d'ecraser le precedent traitement
Version 16 juillet
- remplacement des methodes des limbes par fit_ellipse
- modification code avec code de Doug & Andrew Smith pour acceleration stupefiante
o vectorisation dans calcul extraction des intensités pour reconstruction du disque
o vectorisation dans le calcul de slant, qui est en fait un calcul de tilt
- fichier ini a la racine du repertoire ou est le script (etait en dur)
- ajout d'un flag pour afficher ou pas le disque noir dans image png ayant les seuils adequats pour les protus
To be noted... image fits data are the image pixels value, no change of dynamic, no thresholding. Only png images are thresholded.
Black disk is a python graphic overlay, not burned into images. Circle data are logged for ISIS processing.
"""
import numpy as np
import cv2
import os
import sys
#import Inti_recon as sol - test gestion multi decalage
import Inti_recon as sol
from astropy.io import fits
from Inti_functions import *
import yaml
# import shutil
# import tkinter as tk
#import time
import PySimpleGUI as sg
# -------------------------------------------------------------
global LG # Langue de l'interfacer (1 = FR ou 2 = US)
LG = 1
# -------------------------------------------------------------
SYMBOL_UP = '▲'
SYMBOL_DOWN = '▼'
current_version = 'Inti V4.0.0 by V.Desnoux et.al. '
def mouse_event_callback( event,x,y,flags,param):
if event == cv2.EVENT_MOUSEMOVE:
try :
param=param[y-150:y+150,x-150:x+150]
cv2.imshow('Zoom', param)
except:
pass
def mouse_event2_callback( event,x,y,flags,param):
global mouse_x, mouse_y
if event==cv2.EVENT_LBUTTONDOWN:
try:
font = cv2.FONT_HERSHEY_DUPLEX
mouse_x, mouse_y=x,y
cv2.putText(param, str(x)+';'+str(y), (x, y),
font, 1,
65000,
1,cv2.LINE_AA)
cv2.imshow('mean', param)
except:
pass
def display_mean_img ():
# Lecture et affiche image disque brut
ImgFile = sg.popup_get_file("Select file")
hdulist = fits.open(ImgFile, memmap=False)
hdu=hdulist[0]
myspectrum=hdu.data
mih=hdu.header['NAXIS2']
miw=hdu.header['NAXIS1']
mean_trame=np.reshape(myspectrum, (mih,miw))
#print(mih, miw)
hdulist.close()
if miw<178:
# window title bar CV2 force image minimal size at 178, so pad to avoid autorescale
mean_trame_pad=np.array(np.zeros((mih, 178)), dtype="uint16")
mean_trame_pad[:mih, :miw]=mean_trame
else:
mean_trame_pad=np.array(mean_trame,dtype='uint16')
#fenetre pour image mean de trame
sc=0.8
cv2.namedWindow('mean', cv2.WINDOW_NORMAL)
cv2.moveWindow('mean', 100, 0)
cv2.resizeWindow('mean', (int(miw*sc), int(mih*sc)))
cv2.imshow('mean',mean_trame_pad)
cv2.setMouseCallback('mean',mouse_event2_callback, mean_trame_pad)
cv2.waitKey(0)
cv2.destroyAllWindows()
def collapse(layout, key):
"""
Helper function that creates a Column that can be later made hidden, thus appearing "collapsed"
:param layout: The layout for the section
:param key: Key used to make this seciton visible / invisible
:return: A pinned column that can be placed directly into your layout
:rtype: sg.pin
"""
return sg.pin(sg.Column(layout, key=key))
def UI_SerBrowse (WorkDir,saved_tilt, saved_ratio, dec_pix_dop, dec_pix_cont, poly, pos_free_blue, pos_free_red,win_pos, previous_serfile, data_entete):
sg.theme('Dark2')
sg.theme_button_color(('white', '#500000'))
#print('ui :', os.path.join(WorkDir,previous_serfile))
Shift=[]
Flags={}
Flags["DOPCONT"]=False
Flags["VOL"]=False
Flags["POL"]=False
Flags["WEAK"]=False
Racines=[]
if LG == 1:
section1 = [
[sg.Checkbox(' Affichage de la reconstruction en temps réel ', default=False, key='-DISP-')],
[sg.Checkbox(' Non sauvegarde des fichiers FITS intermédiaires', default=True, key='-SFIT-')],
[sg.Checkbox(' Force les valeurs tilt et facteur d\'echelle', default=False, key='-F_ANG_SXSY-')],
[sg.Text('Angle Tilt en degrés :', size=(15,1)), sg.Input(default_text=saved_tilt, size=(6,1),key='-TILT-')],
[sg.Text('Ratio SY/SX :', size=(15,1)), sg.Input(default_text=saved_ratio, size=(6,1),key='-RATIO-')]
]
else:
section1 = [
[sg.Checkbox(' Real time reconstruction display ', default=False, key='-DISP-')],
[sg.Checkbox(' No intermediate files FITS saving', default=True, key='-SFIT-')],
[sg.Checkbox(' Force values of tilt and scale ratio', default=False, key='-F_ANG_SXSY-')],
[sg.Text('Tilt angle in degrees :', size=(15,1)), sg.Input(default_text=saved_tilt, size=(6,1),key='-TILT-')],
[sg.Text('SY/SX ratio :', size=(15,1)), sg.Input(default_text=saved_ratio, size=(6,1),key='-RATIO-')]
]
if LG == 1:
section2 = [
[sg.Text('Observateur :', size=(10,1)), sg.Input(default_text=data_entete[0], size=(20,1),key='-OBSERVER-')],
[sg.Text('Site Long :', size=(10,1)), sg.Input(default_text=data_entete[2], size=(10,1),key='-SITE_LONG-'),
sg.Text(' Site Lat :', size=(10,1)), sg.Input(default_text=data_entete[3], size=(10,1),key='-SITE_LAT-'),
sg.Text(' in decimal degree')],
[sg.Text('Instrument :', size=(10,1)), sg.Input(default_text=data_entete[1], size=(35,1),key='-INSTRU-')]
]
else:
section2 = [
[sg.Text('Observer :', size=(10,1)), sg.Input(default_text=data_entete[0], size=(25,1),key='-OBSERVER-')],
[sg.Text('Site Long :', size=(10,1)), sg.Input(default_text=data_entete[2], size=(10,1),key='-SITE_LONG-'),
sg.Text(' Site Lat :', size=(10,1)), sg.Input(default_text=data_entete[3], size=(10,1),key='-SITE_LAT-'),
sg.Text(' in decimal degree')],
[sg.Text('Instrument :', size=(10,1)), sg.Input(default_text=data_entete[1], size=(35,1),key='-INSTRU-')]
]
if LG == 1:
tab1_layout = [
[sg.T("")],
#### Section 1 part ####
[sg.T(SYMBOL_UP, enable_events=True, k='-OPEN SEC1-', text_color='white'),
sg.T('Avancé', enable_events=True, text_color='white', k='-OPEN SEC1-TEXT')],
[collapse(section1, '-SEC1-')],
[sg.T("")],
#### Section 2 part ####
[sg.T(SYMBOL_UP, enable_events=True, k='-OPEN SEC2-', text_color='white'),
sg.T('Entête', enable_events=True, text_color='white', k='-OPEN SEC2-TEXT')],
[collapse(section2, '-SEC2-')],
[sg.T("")],
[sg.Text('Décalage en pixels :',size=(15,1)),sg.Input(default_text='0',size=(4,1),key='-DX-',enable_events=True)]
]
tab2_layout =[
#[sg.Checkbox(' Calcul images Doppler et Continuum ', default=False, key='-DOPCONT-')],
[sg.Text("")],
[sg.Text('Decalage doppler :',size=(16,1)),sg.Input(default_text=dec_pix_dop,size=(4,1),key='-DopX-',enable_events=True)],
[sg.Text('Decalage continuum :',size=(16,1)),sg.Input(default_text=dec_pix_cont,size=(4,1),key='-ContX-',enable_events=True)]
]
tab3_layout =[
#[sg.Checkbox(' Synthèse d\'une séquence d\'images décalées spectralement ', default=False, key='-VOL-')],
[sg.Text("")],
[sg.Text('Plage en pixels :',size=(12,1)),sg.Input(default_text=dec_pix_cont,size=(4,1),key='Volume',enable_events=True), sg.Text('+/- pixels')]
]
tab4_layout =[
#[sg.Checkbox(' Zeeman ', default=False, key='-POL-')],
[sg.Text("")],
[sg.Text('Position raie :'),sg.Input(default_text=poly[2],size=(5,1),key='c'),
sg.Text(' Ecartement en pixels :',size=(17,1)),sg.Input(default_text=2,size=(3,1),key='Zeeman_wide',enable_events=True), sg.Text('+/- pixels'),
sg.Text(' Décalage :'), sg.Input(default_text=0,size=(4,1),key='Zeeman_shift',enable_events=True)],
[sg.Text('Coefficient polynome forme fente : ',size=(24,1)),sg.Input(default_text=poly[0],size=(9,1),key='a'), sg.Text('x2'),
sg.Input(default_text=poly[1],size=(9,1),key='b'), sg.Text('x')],
[sg.Text('Nom fichier racine aile bleue :'), sg.Input(default_text="b-", size=(15,1), key='racine_bleu')],
[sg.Text('Nom fichier racine aile rouge :'), sg.Input(default_text="r-", size=(15,1), key='racine_rouge')]
]
tab5_layout =[
#[sg.Checkbox(' Raie libre ', default=False, key='-WEAK-')],
[sg.Text("")],
[sg.Text('Coefficient polynome forme fente : ',size=(24,1)),sg.Input(default_text="{:.4e}".format(poly[0]),size=(15,1),key='fa'), sg.Text('x2'),
sg.Input(default_text="{:.4e}".format(poly[1]),size=(15,1),key='fb'), sg.Text('x')],
[sg.Text('Constante polynome :'),sg.Input(default_text="{:.2f}".format(poly[2]),size=(8,1),key='fc')],
[sg.Button("trame"),sg.Text('Position raie xmin:'),sg.Input(default_text=0,size=(5,1),background_color='gray',key='xmin'),sg.Text('à hauteur y:'),sg.Input(default_text=0,size=(5,1),background_color='gray',key='y_xmin'), sg.Button("Calcul")],
[sg.Text('Position bleu :'),sg.Input(default_text=pos_free_blue,size=(5,1),key='wb'),sg.Text('Position rouge :'),sg.Input(default_text=pos_free_red,size=(5,1),key='wr')],
[sg.Checkbox(' Force les valeurs tilt et facteur d\'echelle', default=False, key='-F_ANG_SXSY2-')],
[sg.Text('Angle Tilt en degrés :', size=(15,1)), sg.Input(default_text=saved_tilt, size=(6,1),key='-TILT2-'),sg.Text('Ratio SY/SX :', size=(15,1)), sg.Input(default_text=saved_ratio, size=(6,1),key='-RATIO2-')]
]
else:
tab1_layout = [
[sg.T("")],
#### Section 1 part ####
[sg.T(SYMBOL_UP, enable_events=True, k='-OPEN SEC1-', text_color='white'), sg.T('Advanced', enable_events=True, text_color='white', k='-OPEN SEC1-TEXT')],
[collapse(section1, '-SEC1-')],
[sg.T("")],
#### Section 2 part ####
[sg.T(SYMBOL_UP, enable_events=True, k='-OPEN SEC2-', text_color='white'),
sg.T('Header', enable_events=True, text_color='white', k='-OPEN SEC2-TEXT')],
[collapse(section2, '-SEC2-')],
[sg.T("")],
[sg.Text('Shift in pixels :',size=(11,1)),sg.Input(default_text='0',size=(4,1),key='-DX-',enable_events=True)]
]
tab2_layout =[
#[sg.Checkbox(' Compute Doppler and Continuum images ', default=False, key='-DOPCONT-')],
[sg.Text("")],
[sg.Text('Doppler shift :',size=(12,1)),sg.Input(default_text=dec_pix_dop,size=(4,1),key='-DopX-',enable_events=True)],
[sg.Text('Continuum shift :',size=(12,1)),sg.Input(default_text=dec_pix_cont,size=(4,1),key='-ContX-',enable_events=True)]
]
tab3_layout =[
#[sg.Checkbox(' Generate a spectraly shifted images sequence ', default=False, key='-VOL-')],
[sg.Text("")],
[sg.Text('Range in pixels :',size=(12,1)),sg.Input(default_text=dec_pix_cont,size=(4,1),key='Volume',enable_events=True), sg.Text('+/- pixels')]
]
tab4_layout =[
#[sg.Checkbox(' Zeeman ', default=False, key='-POL-')],
[sg.Text("")],
[sg.Text('Line position :'),sg.Input(default_text=poly[2],size=(5,1),key='c'),
sg.Text(' Pixels spacing :',size=(12,1)),sg.Input(default_text=2,size=(3,1),key='Zeeman_wide',enable_events=True), sg.Text('+/- pixels'),
sg.Text(' Shift :'), sg.Input(default_text=0,size=(4,1),key='Zeeman_shift',enable_events=True)],
[sg.Text('Polynom terms of slit distorsion : ',size=(24,1)),sg.Input(default_text=poly[0],size=(9,1),key='a'), sg.Text('x2'),
sg.Input(default_text=poly[1],size=(9,1),key='b'), sg.Text('x')],
[sg.Text('Bleu line wing generic file name :'), sg.Input(default_text="b-", size=(15,1), key='racine_bleu')],
[sg.Text('Red line wing generic file name :'), sg.Input(default_text="r-", size=(15,1), key='racine_rouge')]
]
tab5_layout =[
#[sg.Checkbox(' Free line ', default=False, key='-WEAK-')],
[sg.Text("")],
[sg.Text('Polynom terms of slit distorsion : ',size=(24,1)),sg.Input(default_text="{:.4e}".format(poly[0]),size=(15,1),key='fa'), sg.Text('x2'),
sg.Input(default_text="{:.4e}".format(poly[1]),size=(15,1),key='fb'), sg.Text('x')],
[sg.Text('Polynome constante :'),sg.Input(default_text="{:.2f}".format(poly[2]),size=(10,1),key='fc')],
[sg.Button("frame"),sg.Text('Position line xmin:'),sg.Input(default_text=0,size=(5,1),background_color='gray',key='xmin'),sg.Text('at height y:'),sg.Input(default_text=0,size=(5,1),background_color='gray',key='y_xmin'), sg.Button("Calcul")],
[sg.Text('Blue position :'),sg.Input(default_text=pos_free_blue,size=(5,1),key='wb'),sg.Text('Red position :'),sg.Input(default_text=pos_free_red,size=(5,1),key='wr')],
[sg.Checkbox(' Force values of tilt and scale ratio', default=False, key='-F_ANG_SXSY2-')],
[sg.Text('Tilt angle in degrees :', size=(15,1)), sg.Input(default_text=saved_tilt, size=(6,1),key='-TILT2-'),sg.Text('SY/SX ratio :', size=(15,1)), sg.Input(default_text=saved_ratio, size=(6,1),key='-RATIO2-')]
]
if LG == 1:
layout = [
[sg.Text('Fichier(s) :', size=(6, 1)), sg.InputText(default_text='',size=(66,1),key='-FILE-'),
sg.FilesBrowse(' Ouvrir ',file_types=(("SER Files", "*.ser"),),initial_folder=os.path.join(WorkDir,previous_serfile))],
[sg.TabGroup([[sg.Tab(' Général ', tab1_layout), sg.Tab('Doppler & Continuum', tab2_layout,),
sg.Tab('Séquence Doppler', tab3_layout,),
sg.Tab('Magnétogramme',tab4_layout,),
sg.Tab('Raie libre', tab5_layout)]],change_submits=True,key="TabGr",tab_background_color='#404040')],
[sg.Button('Ok', size=(14,1)), sg.Cancel(' Sortir ')],
[sg.Text(current_version, size=(30, 1),text_color='Tan', font=("Arial", 8, "italic"))]
]
else:
layout = [
[sg.Text('File(s) :', size=(5, 1)), sg.InputText(default_text='',size=(70,1),key='-FILE-'),
sg.FilesBrowse(' Open ',file_types=(("SER Files", "*.ser"),),initial_folder=os.path.join(WorkDir,previous_serfile))],
[sg.TabGroup([[sg.Tab(' General ', tab1_layout), sg.Tab('Doppler & Continuum', tab2_layout,),
sg.Tab('Doppler sequence', tab3_layout,),
sg.Tab('Magnetogram',tab4_layout,),
sg.Tab('Free line', tab5_layout)]],change_submits=True,key="TabGr",tab_background_color='#404040')],
[sg.Button('Ok', size=(14,1)), sg.Cancel(' Exit ')],
[sg.Text(current_version, size=(30, 1),text_color='Tan', font=("Arial", 8, "italic"))]
]
window = sg.Window('INTI', layout, location=win_pos,finalize=True)
opened1 = False
window['-SEC1-'].update(visible=opened1)
opened2=False
window['-SEC2-'].update(visible=opened2)
window['-FILE-'].update(os.path.join(WorkDir,previous_serfile))
window.BringToFront()
Flag_sortie=False
while True:
event, values = window.read()
if event==sg.WIN_CLOSED or event==' Exit ' or event==' Sortir ':
Flag_sortie=True
break
if event=="trame" or event=="frame":
display_mean_img()
window['xmin'].update(str(mouse_x))
window['y_xmin'].update(str(mouse_y))
if event=='TabGr':
tab_sel=values['TabGr']
#print(tab_sel)
if tab_sel== "Doppler & Continuum":
Flags["DOPCONT"]=True
Flags["VOL"]=False
Flags["POL"]=False
Flags["WEAK"]=False
if tab_sel== "Séquence Doppler" or tab_sel=="Doppler Sequence":
Flags["DOPCONT"]=False
Flags["VOL"]=True
Flags["POL"]=False
Flags["WEAK"]=False
if tab_sel=="Magnétogramme" or tab_sel=="Magnetogram":
Flags["DOPCONT"]=False
Flags["VOL"]=False
Flags["POL"]=True
Flags["WEAK"]=False
if tab_sel=="Raie libre" or tab_sel=="Free line":
Flags["DOPCONT"]=False
Flags["VOL"]=False
Flags["POL"]=False
Flags["WEAK"]=True
if tab_sel== " Général " or tab_sel==" General ":
Flags["DOPCONT"]=False
Flags["VOL"]=False
Flags["POL"]=False
Flags["WEAK"]=False
if event=='Ok':
#WorkDir=os.path.dirname(values['-FILE-'])+"/"
#os.chdir(WorkDir)
base=os.path.basename(values['-FILE-'])
basefich=os.path.splitext(base)[0]
if basefich!='':
break
else:
if LG==2:
print('Enter file name')
else:
print('Entrez un nom de fichier')
if event.startswith('-OPEN SEC1-'):
opened1 = not opened1
window['-OPEN SEC1-'].update(SYMBOL_DOWN if opened1 else SYMBOL_UP)
window['-SEC1-'].update(visible=opened1)
if event.startswith('-OPEN SEC2-'):
opened2 = not opened2
window['-OPEN SEC2-'].update(SYMBOL_DOWN if opened2 else SYMBOL_UP)
window['-SEC2-'].update(visible=opened2)
if event=="Calcul" :
y_xmin=int(values['y_xmin'])
if y_xmin!=0 :
xmin=int(values['xmin'])
y_xmin=int(values['y_xmin'])
xline=xmin-float(values['fa'])*y_xmin**2-float(values['fb'])*y_xmin
window["fc"].update("{:.1f}".format(xline))
poly[2]=xline
window.close()
try:
FileNames=values['-FILE-']
except:
FileNames=''
#if FileNames==None :
#FileNames=''
Flags["RTDISP"]=values['-DISP-']
#Flags["DOPCONT"]=values['-DOPCONT-']
Flags["ALLFITS"]=values['-SFIT-']
#Flags["VOL"]=values['-VOL-']
#Flags["POL"]=values['-POL-']
#Flags["WEAK"]=values['-WEAK-']
Flags["sortie"]=Flag_sortie
# print(Flags)
ratio_fixe=float(values['-RATIO-'])
ang_tilt=values['-TILT-']
Data_entete=[values['-OBSERVER-'], values['-INSTRU-'], float(values['-SITE_LONG-']), float(values['-SITE_LAT-'])]
if Flags["WEAK"] :
poly=[]
poly.append(float(values['fa']))
poly.append(float(values['fb']))
poly.append(float(values['fc']))
Shift.append(0)
Shift.append(int(int(values['wb'])-poly[2]))
Shift.append(int(int(values['wr'])-poly[2]))
if values['-F_ANG_SXSY2-']!=True:
ratio_fixe=0
ang_tilt=0
else :
ratio_fixe=float(values['-RATIO2-'])
ang_tilt=values['-TILT2-']
if Flags["POL"]:
poly=[]
poly.append(float(values['a']))
poly.append(float(values['b']))
poly.append(float(values['c']))
if values['-F_ANG_SXSY-']!=True and Flags["WEAK"]!=True:
ratio_fixe=0
ang_tilt=0
Shift.append(int(values['-DX-']))
Shift.append(int(values['-DopX-']))
Shift.append(int(values['-ContX-']))
if Flags["POL"]:
Shift.append(int(values['Zeeman_wide']))
Shift.append(float(values['Zeeman_shift']))
else:
Shift.append(int(values['Volume']))
Shift.append(0.0)
Racines.append(values['racine_bleu'])
Racines.append(values['racine_rouge'])
return FileNames, Shift, Flags, ratio_fixe,ang_tilt, poly, Racines, Data_entete
"""
-------------------------------------------------------------------------------------------
Program starts here !
--------------------------------------------------------------------------------------------
"""
Flag_sortie=False
serfiles=[]
previous_serfile=''
my_ini=os.getcwd()+'/inti.yaml'
global mouse_x, mouse_y
mouse_x,mouse_y=0,0
while not Flag_sortie :
# inti.yaml is a bootstart file to read last directory used by app
# this file is stored in the module directory
#my_ini=os.path.dirname(sys.argv[0])+'/inti.yaml'
#my_ini=os.getcwd()+'/inti.yaml'
my_dictini={'directory':'', 'dec doppler':3, 'dec cont':15, 'poly_slit_a':0, "poly_slit_b":0,'poly_slit_c':0,
'ang_tilt':0, 'ratio_sysx':0, 'poly_free_a':0,'poly_free_b':0,'poly_free_c':0,
'pos_free_blue':0, 'pos_free_red':0,
'win_posx':300, 'win_posy':200, 'observer':'', 'instru':'','site_long':0, 'site_lat':0}
#print('myini de depart:', my_ini)
poly=[]
try:
#my_ini=os.path.dirname(sys.argv[0])+'/inti.yaml'
#print('mon repertoire : ', mydir_ini)
with open(my_ini, "r") as f1:
my_dictini = yaml.safe_load(f1)
except:
if LG == 1:
print('Création de inti.yaml comme : ', my_ini)
else:
print('creating inti.yaml as: ', my_ini)
WorkDir=my_dictini['directory']
dec_pix_dop=int(my_dictini['dec doppler'])
dec_pix_cont=int(my_dictini['dec cont'])
saved_tilt=float(my_dictini['ang_tilt'])
saved_ratio=float(my_dictini['ratio_sysx'])
poly.append(float(my_dictini['poly_free_a']))
poly.append(float(my_dictini['poly_free_b']))
poly.append(float(my_dictini['poly_free_c']))
pos_free_blue=int(my_dictini['pos_free_blue'])
pos_free_red=int(my_dictini['pos_free_red'])
w_posx=int(my_dictini['win_posx'])
w_posy=int(my_dictini['win_posy'])
win_pos=(w_posx,w_posy)
data_entete=[my_dictini['observer'], my_dictini['instru'],float(my_dictini['site_long']),float(my_dictini['site_lat'])]
# Recupere paramatres de la boite de dialogue
#print('serfile previous : ', previous_serfile)
serfiles, Shift, Flags, ratio_fixe,ang_tilt, poly, racines, data_entete= UI_SerBrowse(WorkDir, saved_tilt, saved_ratio,
dec_pix_dop, dec_pix_cont, poly,pos_free_blue, pos_free_red,
win_pos, previous_serfile, data_entete)
serfiles=serfiles.split(';')
#print('serfile : ', len(serfiles))
if len(serfiles)==1 :
#print('ok')
previous_serfile=os.path.basename(serfiles[0])
#print('serfile previous : ', previous_serfile)
ii=1
Flag_sortie=Flags["sortie"]
# pour gerer la tempo des affichages des images resultats dans cv2.waitKey
# si plusieurs fichiers à traiter
if len(serfiles)==1:
tempo=60000 #tempo 60 secondes, pour no tempo mettre tempo=0 et faire enter pour terminer
if Flags["POL"]:
tempo=3000 # tempo raccourcie après extraction zeeman
else:
tempo=1000 #temp 1 sec
# boucle sur la liste des fichers
for serfile in serfiles:
#print (serfile)
if Flag_sortie :
sys.exit()
if serfile=='':
sys.exit()
WorkDir=os.path.dirname(serfile)+"/"
os.chdir(WorkDir)
base=os.path.basename(serfile)
basefich=os.path.splitext(base)[0]
if base=='':
if LG == 1:
logme('Erreur de nom de fichier : '+serfile)
else:
logme('File name error: '+serfile)
sys.exit()
# appel au module d'extraction, reconstruction et correction
#
# basefich: nom du fichier ser sans extension et sans repertoire
# dx: decalage en pixel par rapport au centre de la raie
if Flags['POL'] and ii>1:
ratio_fixe=geom[0]
ang_tilt=geom[1]
# 11 aout 22 ajout coef polynome en param de retour
frames, header, cercle, range_dec, geom, polynome=sol.solex_proc(serfile,Shift,Flags,ratio_fixe,ang_tilt, poly, data_entete)
# met a jour le repertoire et les flags dans le fichier ini, oui a chaque fichier pour avoir le bon rep
my_dictini['directory']=WorkDir
# ajout data entete
my_dictini['observer']=str(data_entete[0])
my_dictini['instru']=str(data_entete[1])
my_dictini['site_long']=data_entete[2]
my_dictini['site_lat']=data_entete[3]
if Flags['WEAK']:
my_dictini['pos_free_blue']=round(poly[2]+Shift[1])
my_dictini['pos_free_red']=round(poly[2]+Shift[2])
else:
my_dictini['dec doppler']=Shift[1]
my_dictini['dec cont']=Shift[2]
my_dictini['ang_tilt']=ang_tilt
my_dictini['ratio_sysx']=ratio_fixe
my_dictini['win_posx']=w_posx
my_dictini['win_posy']=w_posy
if Flags['WEAK']==False and Flags['POL']==False:
my_dictini['poly_slit_a']=float(polynome[0])
my_dictini['poly_slit_b']=float(polynome[1])
my_dictini['poly_slit_c']=float(polynome[2])
else:
my_dictini['poly_free_a']=float(polynome[0])
my_dictini['poly_free_b']=float(polynome[1])
my_dictini['poly_free_c']=float(polynome[2])
my_dictini['poly_slit_a']=0
my_dictini['poly_slit_b']=0
my_dictini['poly_slit_c']=0
try:
with open(my_ini, "w") as f1:
yaml.dump(my_dictini, f1, sort_keys=False)
except:
if LG == 1:
logme ('Erreur lors de la sauvegarde de inti.yaml comme : '+my_ini)
else:
logme ('Error saving inti.yaml as: '+my_ini)
#t0=time.time()
base=os.path.basename(serfile)
basefich='_'+os.path.splitext(base)[0]
#if Shift != 0 :
#add shift value in filename to not erase previous file
#basefich=basefich+'_dp'+str(Shift) # ajout '_' pour avoir fichier en tete dans explorer/finder
ih = frames[0].shape[0]
newiw = frames[0].shape[1]
top_w=0
left_w=0
tw=150
lw=34
# my screensize is 1536x864 - harcoded as tk.TK() produces an error in spyder
# plus petit for speed up
screensizeH = (864-50) - (3*lw)
screensizeW = (1536)-(3*tw)
# gere reduction image png
nw = screensizeW/newiw
nh = screensizeH/ih
sc=min(nw,nh)
if sc >= 1 :
sc = 1
# Lecture et affiche image disque brut
if range_dec[0]==0:
ImgFile=basefich+'_raw.fits'
else:
ImgFile=basefich+'_dp'+str(range_dec[0])+'_raw.fits'
hdulist = fits.open(ImgFile, memmap=False)
hdu=hdulist[0]
myspectrum=hdu.data
rih=hdu.header['NAXIS2']
riw=hdu.header['NAXIS1']
Disk=np.reshape(myspectrum, (rih,riw))
Ratio_lum=(65536/np.max(Disk))*0.8
Disk2=np.array((np.copy(Disk)*Ratio_lum),dtype='uint16')
hdulist.close()
# prepare fenetres pour affichage des images
cv2.namedWindow('Raw', cv2.WINDOW_NORMAL)
cv2.moveWindow('Raw', top_w, left_w)
cv2.resizeWindow('Raw', (int(riw*sc), int(rih*sc)))
top_w=top_w+tw
left_w=left_w+lw
cv2.namedWindow('contrast', cv2.WINDOW_NORMAL)
cv2.moveWindow('contrast', top_w, left_w)
cv2.resizeWindow('contrast', (int(newiw*sc), int(ih*sc)))
top_w=top_w+tw
left_w=left_w+lw
cv2.namedWindow('protus', cv2.WINDOW_NORMAL)
cv2.moveWindow('protus', top_w, left_w)
cv2.resizeWindow('protus', (int(newiw*sc), int(ih*sc)))
top_w=top_w+tw
left_w=left_w+lw
cv2.namedWindow('clahe', cv2.WINDOW_NORMAL)
cv2.moveWindow('clahe', top_w, left_w)
cv2.resizeWindow('clahe',(int(newiw*sc), int(ih*sc)))
if len(frames)==1 and len(serfiles)==1:
cv2.namedWindow('Zoom', cv2.WINDOW_NORMAL)
cv2.resizeWindow('Zoom', 300, 300)
cv2.moveWindow('Zoom',20,20)
# create a CLAHE object (Arguments are optional)
#clahe = cv2.createCLAHE(clipLimit=0.8, tileGridSize=(5,5))
clahe = cv2.createCLAHE(clipLimit=0.8, tileGridSize=(2,2))
cl1 = clahe.apply(frames[0])
# png image generation
# image seuils moyen
frame1=np.copy(frames[0])
#Seuil_bas=np.percentile(frame1, 25)
#Seuil_haut=np.percentile(frame1,99.9999)
sub_frame=frame1[5:,:-5]
Seuil_haut=np.percentile(sub_frame,99.999)
Seuil_bas=(Seuil_haut*0.15)
frame1[frame1>Seuil_haut]=Seuil_haut
#print('seuil bas', Seuil_bas)
#print('seuil haut', Seuil_haut)
fc=(frame1-Seuil_bas)* (65000/(Seuil_haut-Seuil_bas))
fc[fc<0]=0
frame_contrasted=np.array(fc, dtype='uint16')
if len(frames)==1 and len(serfiles)==1:
param=np.copy(frame_contrasted)
cv2.setMouseCallback('contrast',mouse_event_callback, param)
cv2.imshow('contrast',frame_contrasted)
#cv2.imshow('sun',frame_contrasted)
#cv2.waitKey(0)
# image raw
cv2.imshow('Raw',Disk2)
# image seuils serres
frame1=np.copy(frames[0])
sub_frame=frame1[5:,:-5]
Seuil_haut=np.percentile(sub_frame,99.999)
Seuil_bas=(Seuil_haut*0.25)
#print('seuil bas HC', Seuil_bas)
#print('seuil haut HC', Seuil_haut)
frame1[frame1>Seuil_haut]=Seuil_haut
fc2=(frame1-Seuil_bas)* (65500/(Seuil_haut-Seuil_bas))
fc2[fc2<0]=0
frame_contrasted2=np.array(fc2, dtype='uint16')
#cv2.imshow('contrast',frame_contrasted2)
#cv2.waitKey(0)
if 2==1:
# image seuils protus original
frame1=np.copy(frames[0])
Seuil_haut=np.percentile(frame1,99.9999)*0.18
Seuil_bas=0
frame1=seuil_image_force(frame1, Seuil_haut, Seuil_bas)
frame_contrasted3=np.array(frame1, dtype='uint16')
#calcul du disque noir pour mieux distinguer les protuberances
if cercle[0]!=0:
x0=cercle[0]
y0=cercle[1]
wi=round(cercle[2]*0.998)
he=round(cercle[3]*0.998)
r=int(min(wi,he)-3)
r=int(r-round(0.002*r))
#c=(0,0,0)
frame_contrasted3=cv2.circle(frame_contrasted3, (x0,y0),r,80,-1,lineType=cv2.LINE_AA)
#frame_contrasted3=cv2.ellipse(frame_contrasted3, (x0,y0),(wi,he),0,0,360,(0,0,0),-1,lineType=cv2.LINE_AA ) #MattC apply tilt, change color to black
cv2.imshow('protus',frame_contrasted3)
#cv2.waitKey(0)
#improvements suggested by mattC to hide sun with disk
else :
# hide disk before setting max threshold
disk_limit_percent=0.001 # black disk radius inferior by 1% to disk edge
frame2=np.copy(frames[0])
if cercle[0]!=0:
x0=cercle[0]
y0=cercle[1]
wi=round(cercle[2])
he=round(cercle[3])
r=(min(wi,he))
r=int(r- round(r*disk_limit_percent))
# prefer to really see deviation from circle
fc3=cv2.circle(frame2, (x0,y0),r,80,-1,lineType=cv2.LINE_AA)
#frame2=cv2.ellipse(frame2, (x0,y0),(wi,he),0,0,360,(0,0,0),-1,lineType=cv2.LINE_AA ) #MattC draw ellipse, change color to black
frame1=np.copy(fc3)
Threshold_Upper=np.percentile(frame1,99.9999)*0.5 #preference for high contrast
Threshold_low=0
img_seuil=seuil_image_force(frame1, Threshold_Upper, Threshold_low)
frame_contrasted3=np.array(img_seuil, dtype='uint16')
if len(frames)==1 and len(serfiles)==1:
param=np.copy(frame_contrasted3)
cv2.setMouseCallback('protus',mouse_event_callback, param)
cv2.imshow('protus',frame_contrasted3)
else:
if LG == 1:
print("Erreur disque occulteur.")
else:
print("Mask disk error.")
frame_contrasted3=frame_contrasted
Seuil_bas=np.percentile(cl1, 25)
Seuil_haut=np.percentile(cl1,99.9999)*1.05
cc=(cl1-Seuil_bas)*(65000/(Seuil_haut-Seuil_bas))
cc[cc<0]=0
cc=np.array(cc, dtype='uint16')
if len(frames)==1 and len(serfiles)==1:
param=np.copy(cc)
cv2.setMouseCallback('clahe',mouse_event_callback, param)
cv2.imshow('clahe',cc)
if len(frames) >1:
if len(frames)>3:
#creation windows CV2 continuum
top_w=top_w+tw
left_w=left_w+lw
cv2.namedWindow('continuum', cv2.WINDOW_NORMAL)
cv2.moveWindow('continuum', top_w, left_w)
cv2.resizeWindow('continuum',(int(newiw*sc), int(ih*sc)))
# seuils image continuum
frameC=np.copy(frames[len(frames)-1])
sub_frame=frameC[5:,:-5]
Seuil_haut=np.percentile(sub_frame,99.999)
Seuil_bas=(Seuil_haut*0.25)
#print('seuil bas HC', Seuil_bas)
#print('seuil haut HC', Seuil_haut)
frameC[frameC>Seuil_haut]=Seuil_haut
fcc=(frameC-Seuil_bas)* (65500/(Seuil_haut-Seuil_bas))
fcc[fcc<0]=0
frame_continuum=np.array(fcc, dtype='uint16')
# display image
cv2.imshow('continuum',frame_continuum)
# sauvegarde en png de continuum
cv2.imwrite(basefich+'_dp'+str(range_dec[len(range_dec)-1])+'_cont.png',frame_continuum)
top_w=top_w+tw
left_w=left_w+lw
cv2.namedWindow('doppler', cv2.WINDOW_NORMAL)
cv2.moveWindow('doppler', top_w, left_w)
cv2.resizeWindow('doppler',(int(newiw*sc), int(ih*sc)))
if Flags["DOPCONT"] :
#on se tente une image couleur...
flag_erreur_doppler=False
try :
img_doppler=np.zeros([ih, frames[1].shape[1], 3],dtype='uint16')
if Flags["VOL"] :
moy=np.array(((frames[1]+frames[len(frames)-1])/2), dtype='uint16')
else:
moy=np.array(((frames[1]+frames[2])/2), dtype='uint16')
i2,Seuil_haut, Seuil_bas=seuil_image(moy)
i3=seuil_image_force(frames[2],Seuil_haut, Seuil_bas)
i1=seuil_image_force (frames[1],Seuil_haut, Seuil_bas)
#i1,Seuil_haut, Seuil_bas=seuil_image(frames[1])
#i3,Seuil_haut, Seuil_bas=seuil_image(frames[2])
img_doppler[:,:,0] = i1
img_doppler[:,:,1] = i2
img_doppler[:,:,2] = i3
cv2.imshow('doppler',img_doppler)
except:
if LG == 1:
print ('Erreur image doppler.')
else:
print ('Doppler image error.')
flag_erreur_doppler=True
cv2.destroyWindow('doppler')
pass
#sauvegarde en png de doppler
if flag_erreur_doppler==False:
cv2.imwrite(basefich+'_doppler'+str(abs(range_dec[1]))+'.png',img_doppler)
if Flags["WEAK"] :
flag_erreur_weak=False
try :
#moy=(frames[1]+frames[2])/2
#img_weak_array= frames[0]-moy
fr1=np.copy(frames[1])
fr2=np.copy(frames[2])
fr0=np.copy(frames[0])
s=np.array(np.array(fr1, dtype='float32')+np.array(fr2, dtype='float32'),dtype='float32')
moy=s*0.5
img_diff=np.array(np.array(fr1, dtype='float32')-np.array(fr2, dtype='float32'),dtype='int32')
d=np.array((fr0-moy), dtype='int32')
offset=-np.min(d)
#img_weak_array_nooff=np.copy(d)
#print(offset)
img_weak_array=d+offset
img_weak_uint=np.array((img_weak_array), dtype='uint16')
Seuil_bas=int(offset/2)
Seuil_haut=np.percentile(img_weak_array,99.95)
img_weak=seuil_image_force(img_weak_uint, Seuil_haut, Seuil_bas)
img_weak=np.array(img_weak, dtype='uint16')
cv2.imshow('doppler',img_weak)
cv2.setWindowTitle("doppler", "free line")
img_weak_array=d
except:
if LG == 1:
print ('Erreur image ')
else:
print ('Image error.')
flag_erreur_doppler=True
cv2.destroyWindow('doppler')
pass
#sauvegarde en png de doppler
if flag_erreur_weak==False:
cv2.imwrite(basefich+'_free'+'.png',img_weak)
#sauvegarde en png disk quasi sans seuillage de image sans decalage
if range_dec[0]==0:
img_suffix=""
else:
img_suffix="_dp"+str(range_dec[0])
cv2.imwrite(basefich+img_suffix+'_raw.png',Disk2)
#sauvegarde en png disk quasi seuils max
cv2.imwrite(basefich+img_suffix+'_disk.png',frame_contrasted)
#sauvegarde en png seuils serrés
cv2.imwrite(basefich+img_suffix+'_diskHC.png',frame_contrasted2)
#sauvegarde en png seuils protus
cv2.imwrite(basefich+img_suffix+'_protus.png',frame_contrasted3)
#sauvegarde en png de clahe
cv2.imwrite(basefich+img_suffix+'_clahe.png',cc)
# sauve les png multispectraux et cree une video
if Flags["VOL"] or Flags["POL"] :
k=1
#ROi de 200 pixels autour du centre du disque
dim_roi=200
rox1= cercle[0]-dim_roi
rox2=cercle[0]+dim_roi
roy1=cercle[1]-dim_roi
roy2=cercle[1]+dim_roi