comparison macros_conffiles.xml @ 0:b73148507037 draft default tip

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0:b73148507037

<macros>
  <xml name="configfile_circos_conf">
    <configfile name="circos_conf"><![CDATA[
<<include colors_fonts_patterns.conf>>
<<include housekeeping.conf>>

<colors>
<<include etc/colors.conf>>
</colors>

<fonts>
<<include etc/fonts.conf>>
</fonts>

karyotype = karyotype.txt

<image>
dir = .
svg = yes
file  = circos.svg
# radius of inscribed circle in image
radius         = 2000p
background     = white
# by default angle=0 is at 3 o'clock position
angle_offset   = -90
auto_alpha_colors = yes
auto_alpha_steps  = 5
</image>

<image>
dir = .
file  = circos.png
# radius of inscribed circle in image
radius         = 2000p
background     = white
# by default angle=0 is at 3 o'clock position
angle_offset   = -90
auto_alpha_colors = yes
auto_alpha_steps  = 5
</image>


chromosomes_units           = 1
chromosomes_display_default = yes

<plots>

<plot>
type      = highlight
file = alignment.txt
r1        = 1.51r
r0        = 1.79r
layers    = 1
margin    = 0
stroke_thickness = 4
stroke_color     = 0,132,169
fill_color            = 0,132,169
</plot>

<plot>
type      = highlight
file = gap.txt
r1        = 1.51r
r0        = 1.79r
layers    = 1
margin    = 0u
stroke_thickness = 4
stroke_color     = 255,180,65
fill_color            = 255,180,65
</plot>

<plot>
type = text
file = tick.txt

r0 = 1.05r
r1 = 1.35r

label_size = 96p
padding = 0p
rpadding = 0p
</plot>

</plots>

<<include ideogram.conf>>
    ]]></configfile>
  </xml>
  <xml name="configfile_ideogram_conf">
    <configfile name="ideogram_conf"><![CDATA[
<ideogram>

radius = .5r
thickness = 0r

<spacing>

default = 0u
break   = 0u

axis_break_at_edge = no
axis_break         = no
axis_break_style   = 2

<break_style 1>
stroke_color = black
fill_color   = blue
thickness    = 0.25r
stroke_thickness = 2p
</break>

<break_style 2>
stroke_color     = black
stroke_thickness = 5p
thickness        = 2r
</break>

</spacing>

</ideogram>
]]></configfile>
  </xml>
  <xml name="configfile_tick_base_conf">
    <configfile name="tick_base_conf"><![CDATA[

show_ticks          = yes
show_tick_labels    = yes
label_rorate = no

<ticks>

  radius               = 1.5r
    label_size = 1r 
    orientation = in
    
  <tick>
    spacing = TICK_MAJOR
    size = 125p
    thickness = 7.5p
    show_label = no
  </tick>

  <tick>
    spacing = TICK_MINOR
    size = 75p
    show_label = no
    thickness = 4p
  </tick>


</ticks>
]]></configfile>
  </xml>
</macros>