About plot.bedtools.log

[linyuiz]

my plot.cmd.sh:

min_quality=1
cool_binsize=10k
heatmap_binsize=500k

if [ ! -f HiC.clean.q${min_quality}.${cool_binsize}.cool ]; then
    cphasing pairs2cool ../HiC.clean.pairs.pqs \
        ../used.genome.contigsizes HiC.clean.q${min_quality}.${cool_binsize}.cool \
        -q ${min_quality} -bs ${cool_binsize}
fi
cphasing plot -a ../4.scaffolding/groups.agp \
    -m HiC.clean.q${min_quality}.${cool_binsize}.cool \
        -o groups.q${min_quality}.${heatmap_binsize}.wg.png -bs ${heatmap_binsize} -oc

Why does plot.bedtools.log display the following information, and does it have any impact?

***** WARNING: File /project2//99.test/02.hic/tmp_of_HIC/01.C-Phasing/HIC/cphasing_output/5.plot/tmp_24psbhf.b has a record where naming convention (leading zero) is inconsistent with other files:
Chr10g1	0	7891	h2tg000034l	10780000	10787891	-

***** WARNING: File /project2//99.test/02.hic/tmp_of_HIC/01.C-Phasing/HIC/cphasing_output/5.plot/tmp_24psbhf.b has a record where naming convention (leading zero) is inconsistent with other files:
Chr10g1	0	7891	h2tg000034l	10780000	10787891	-

[wangyibin]

Hi,

This is only a warning related to chromosome naming. It occurs because our chromosome names use a leading zero (Chr0X) when Chr10 and Chr0X appear simultaneously. The warning is simply reminding us that inconsistent use of leading zeros in chromosome names may cause issues.

Best, Yibin