pican_pi/settings.py at master · MGNute/pican_pi · GitHub

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
'''
contains user-settings that may not need to be changed regularly.

TODO: change this to be a configparser file
'''
# initial panel settings
# controls_xy = (2300,300)  #cincy monitor
controls_xy = (100,100)  #cincy monitor

# cairo settings
img_width = 1500
img_height = 900
img_aspect = float(img_width)/float(img_height)
tree_color = .70
tree_alpha = 1.0
tree_color_tup = (tree_color, tree_color, tree_color, tree_alpha)
tree_line_pct_of_width = .0005

# histogram settings
alpha_kernel = .10
min_branch_length = 0.
max_branch_length = .20
circle_width_factor = .006
circle_width_pixels = 5
raw_circle_width = .01

reads_scalar = 1000
reads_cap = 500
reads_scale_method = None

# annotation settings
clade_circle_margin = .1
clade_circle_color = .60
clade_circle_alpha = .75
clade_circle_color_tuple = (clade_circle_color, clade_circle_color, clade_circle_color, clade_circle_alpha)
collapsed_clade_color = (119./255., 55./255., 11./255.)
collapsed_clade_wedge = .10472 # pi/30

# color legend settings:
border_font_color = (0., 0., 0.,1.)
tick_height_rel_to_box = 0.025

# reference data settings
annotation_file = None

# Color Scale:
full_hue = True

if full_hue:
# ***full hue scale***
    roygbiv = [
                (255.,0.,0.),    #red
                # (255.,153.,0.),
                (255.,255.,0.), #yellow
                (0.,255.,0.),   #green
                (0.,255.,255.), #teal
                (0.,0.,255.),     #blue
                # (255.,0.,255.),   #purple
                # (255., 0., 0.)
            ]
else:
    # ***accessibility enhanced***
    roygbiv = [
                # (255.,0.,0.),    #red
                # (255.,153.,0.),
                # (255.,255.,0.), #yellow
                # (0.,255.,0.),   #green
                # (0.,255.,255.), #teal
                (0.,0.,255.),     #blue
                (255.,0.,255.),   #purple
                (255., 0., 0.)
            ]