Error: not enough space for calls at track index

[evoJDG]

Hello. Love the package, it makes beautiful plots.

I saw that this error was previously addressed in issue #260 but the advice does not solve it for me.

I am trying to plot the position of genes on multiple chromosomes. I am currently looping through each chromosome using circos.genomicTrackPlotRegion and to set the region and circos.lines to add the lines. I have >6000 genes in total on 29 chromosomes.

It produces the error Error: not enough space for cells at track index '9'. The index number where it breaks depends on the number and size of the chromosomes. I guess this is to do with the number of lines not fitting in the space for a cell, but reducing the track height does not work, even if it is so small (0.01) that the lines are not really useful. I have tried various combinations of y values, y limits and track heights, but can't find one that plots successfully. Do you have any suggestions?

Thanks.
James

Code:

YLIM=1

circos.clear()
circos.initializeWithIdeogram(df_plot)

loop through

for (i in unique(df_plot$shrt_chrom) ) {

subset for each chromosome

df <- df_plot[ , ] %>%
filter(shrt_chrom == i)

add tracks

circos.genomicTrackPlotRegion(df, ylim = c(0, YLIM),
bg.border = NA,
track.height = 0.1, # have tried various heights, even 0.01 does not work
panel.fun = function(region, value, ...) {
col = value$colour # specified in df
circos.lines(x = df$start,
y=df$y,
type = 'h',
col = "grey",
sector.index = i,
track.index = 2 )
},
cell.padding = c(0, 0, 0, 0)
)

Sample data attached. Let me know if you need more to recreate the error.

Circlize_Question_SampleData.xlsx