unused argument (na.rm = TRUE) error occur when I use compartment_matrixplot function

[hanshanmengqi]

Hi,

Thank you for your powerful tool. Now I met a problem that is unused argument (na.rm = TRUE) when I use compartment_matrixplot

The screenshot is shown below:

However, it's normal when I just have one sample. Please take a look at screenshot 2

Could you please help me?

Thank you for your time. Han

[ZHONGHONGXIN]

l meet the same error.

[amodrek]

CS_out A GENOVA 'CS_discovery' object involving the following 2 experiment(s): 'parental', 'c142_3hr' at a resolution of 250 kb.

Contains the following slots:

• compart_scores: A 12091 x 6 data.frame containing signed compartment scores.

0 centromeres spanning a total of 0 bins have been ignored.

any(is.na(CS_out)) [1] FALSE any(is.na(CS_out$compart_scores)) [1] TRUE head(CS_out$compart_scores) chrom start end bin parental c142_3hr 1 M 0 250000 1 NA NA 2 1 0 250000 2 -0.7955663 -0.8143696 3 1 250000 500000 3 -0.8040515 -0.8178153 4 1 500000 750000 4 -0.7916306 -0.7965462 5 1 750000 1000000 5 -0.3235744 -0.2550182 6 1 1000000 1250000 6 -0.2391273 -0.1980523 CS_out$compart_scores <- na.omit(CS_out$compart_scores) any(is.na(CS_out)) [1] FALSE compartment_matrixplot(

• exp1 = parental_mat,
• exp2= cuts142_3hr_mat,
• CS_discovery= CS_out,
• metric = "obsexp",
• chrom = "1", arm="all"
• ) Error in rev(range(compbreaks), na.rm = TRUE) : unused argument (na.rm = TRUE)

[amodrek]

same error!

[teunbrand]

Thanks for the report everyone, I think it should be fixed in the dev version now