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

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

<<include ideogram.conf>>
<<include ticks.conf>>

karyotype = data/karyotype.human.txt

<image>
dir  = .
file = orderchr.png
png = yes
svg = no
# radius of inscribed circle in image
radius         = 1500p
background     = white
# by default angle=0 is at 3 o'clock position
angle_offset   = -90
#angle_orientation = counterclockwise
</image>

chromosomes_units           = 1000000
chromosomes_display_default = yes

# 21194
# chromosomes_order = hsY,hs1,hs5,hs6,hs19,hs7,hs3,hs11,hs8,hs4,hs12,hs16,hs10,hs20,hs9,hs2,hs14,hs22,hs13,hs18,hs21,hs15,hs17,hsX

chromosomes_order = hs18,hs2,hs11,hsY,hs13,hs5,hs15,hs7,hs9,hs16,hs8,hs17,hs22,hsX,hs1,hs21,hs3,hs10,hs6,hs20,hs14,hs4,hs12,hs19

# no warmup, sa, maximize, 835->1713
#chromosomes_order = chr3,chr8,chr4,chr6,chr17,chr11,chr15,chr19,chr7,chr14,chr16,chr10,chr12,chr2,chr18,chr9,chr1,chr5,chr13,chr20

<links>

bezier_radius = 0.2r
radius        = 0.95r

<link data1>
color     = black
thickness = 2
file      = data/segdup.50k.nointra.txt

<rules>
<rule>
use = no
importance = 100
condition  = (_CHR1_ eq "chr8" && _CHR2_ eq "chr10") || (_CHR2_ eq "chr8" && _CHR1_ eq "chr10")
show = yes
</rule>

<rule>
use = no
importance = 90
condition  = _CHR1_ eq "chr19" && _CHR2_ eq "chr1"
show = yes
</rule>

<rule>
use = no
importance = 10
condition  = 1
show = no
</rule>
</rules>

</link>
</links>

anglestep       = 0.5
minslicestep    = 10
beziersamples   = 40
debug           = no
warnings        = no
imagemap        = no

units_ok = bupr
units_nounit = n

