Hi,
I am trying to create a circos plot using the following data:
chr - assembly_contig_1 ch01 1 12773 lum70chr_11
chr - assembly_contig_2 ch02 107 12722 lum70chr_12
chr - assembly_contig_3 ch03 80 7881 lum70chr_14
chr - assembly_contig_4 ch04 2 5805 lum70chr_13
chr - assembly_contig_5 ch05 2 5684 pred_vvd
chr - assembly_contig_6 ch06 500 4740 purple_vvd
chr - assembly_contig_7 ch07 432 3970 chr_1
chr - assembly_contig_8 ch08 785 4379 pyellow_vvd
chr - assembly_contig_9 ch09 1 3542 red_vvd
chr - assembly_contig_10 ch10 994 3171 lum70chr_16
chr - assembly_contig_11 ch11 1 695 lum70chr_18
chr - assembly_contig_12 ch12 223 2835 lum70chr_22
chr - assembly_contig_13 ch13 1 2598 lum70chr_3
chr - assembly_contig_14 ch14 134 2773 lum70chr_6
chr - assembly_contig_15 ch15 134 2773 chr_un
chr - assembly_contig_16 ch16 473 2721 ppurple_vvd
chr - assembly_contig_17 ch17 389 2472 lum70chr_9
chr - assembly_contig_18 ch18 1011 1874 lum70chr_17
chr - assembly_contig_19 ch19 2 1689 lum70chr_20
chr - assembly_contig_20 ch20 2 1689 blue_vvd
My configure file is as follows:
karyotype = simple_data.txt
<ideogram>
<spacing>
default = 0.005r
</spacing>
radius = 0.80r
thickness = 20p
fill = yes
stroke_color = dgrey
stroke_thickness = 2p
#BANDS
#show_bands = yes
#fill_bands = yes
#band_transparency = 4
#LABELS
show_label = yes
lable_font = default
lable_radius = 1r + 75p
lable_size = 30
lable_parallel = yes
</ideogram>
<image>
#Included from Circos distribution.
<<include etc/image.conf>>
#To modify the size of the ouput image , default is 1500
#radius* = 3000p
</image>
<<include /etc/colors_fonts_patterns.conf>>
<<include /etc/housekeeping.conf>>
I am not getting an image but getting an error as below :
debuggroup summary 0.17s welcome to circos v0.69-8 15 Jun 2019 on Perl 5.034000
debuggroup summary 0.17s current working directory /home/sowmiya/Desktop/Data/Phage/Circos
debuggroup summary 0.17s command /home/sowmiya/Tools/circos-0.69-9/bin/circos -conf circos.conf
debuggroup summary 0.17s loading configuration from file circos.conf
debuggroup summary 0.17s found conf file circos.conf
debuggroup summary 0.32s debug will appear for these features: output,summary
debuggroup summary 0.32s bitmap output image ./circos.png
debuggroup summary 0.32s SVG output image ./circos.svg
debuggroup summary 0.32s parsing karyotype and organizing ideograms
debuggroup summary 0.32s karyotype has 20 chromosomes of total size 81,532
debuggroup summary 0.33s applying global and local scaling
debuggroup summary 0.33s allocating image, colors and brushes
debuggroup summary 2.11s drawing 20 ideograms of total size 81,532
debuggroup summary 2.11s drawing highlights and ideograms
Use of uninitialized value in subroutine entry at ../lib/Circos/Font.pm line 164.
Use of uninitialized value $radius in division (/) at ../lib/Circos/Text.pm line 317.
Illegal division by zero at /../lib/Circos/Text.pm line 317.
Hope someone would help me to rectify this error.
Thank you.