Unite function output is methylBase object with 1 row

[fafaris39]

Hello ! I am using unite() function to merge samples but it produced a methylBase object with 1 row, i don't understand where is the problem?!

` library("methylKit")

file.list = list("/test1-TechRep_1-BioRep_2018.deduplicated.CX_report.txt", "/test2-TechRep_1-BioRep_2019.deduplicated.CX_report.txt", "/ctrl1-TechRep_1-BioRep_2018.deduplicated.CX_report.txt", "/ctrl2-TechRep_1-BioRep_2019.deduplicated.CX_report.txt")

readingReports=methRead(file.list, sample.id=list("test1","test2","ctrl1","ctrl2"), assembly="bismark", treatment=c(1,1,0,0), context="CpG", mincov = 10, pipeline= "bismarkCytosineReport", dbtype = "tabix", dbdir = "methylDB" )

meth=methylKit::unite(readingReports, destrand=FALSE ) head(meth)`

The head of each sample: ` head ctrl2-TechRep_1-BioRep_2019.deduplicated.CX_report.txt NC_041792.1 1 + 0 0 CHH CTA NC_041792.1 5 + 0 0 CHH CCC NC_041792.1 6 + 0 0 CHH CCT NC_041792.1 7 + 0 0 CHH CTA NC_041792.1 12 + 0 0 CHH CCC

head ctrl1-TechRep_1-BioRep_2018.deduplicated.CX_report.txt NC_041792.1 1 + 0 0 CHH CTA NC_041792.1 5 + 0 0 CHH CCC NC_041792.1 6 + 0 0 CHH CCT NC_041792.1 7 + 0 0 CHH CTA NC_041792.1 12 + 0 0 CHH CCC

head test1-TechRep_1-BioRep_2018.deduplicated.CX_report.txt NC_041792.1 1 + 0 0 CHH CTA NC_041792.1 5 + 0 0 CHH CCC NC_041792.1 6 + 0 0 CHH CCT NC_041792.1 7 + 0 0 CHH CTA NC_041792.1 12 + 0 0 CHH CCC

head test2-TechRep_1-BioRep_2019.deduplicated.CX_report.txt NC_041792.1 1 + 0 0 CHH CTA NC_041792.1 5 + 0 0 CHH CCC NC_041792.1 6 + 0 0 CHH CCT NC_041792.1 7 + 0 0 CHH CTA NC_041792.1 12 + 0 0 CHH CCC `
this is what i got in meth object

` head(meth) methylBase object with 1 rows chr start end strand coverage1 numCs1 numTs1 coverage2 numCs2 numTs2 coverage3 numCs3 numTs3 coverage4 numCs4 numTs4 1 NC_041792.1 16095130 16095130 + 14 0 14 10 0 10 17 2 15 13 0 13

sample.ids: test1 test2 ctrl1 ctrl2 destranded FALSE assembly: bismark context: CpG treament: 1 1 0 0 resolution: base `