The rule freec_exome_somatic_pass1 fails with the following error:
Loading required package: IRanges
Loading required package: GenomeInfoDb
Error in if (class(resultks) == "try-error") { :
the condition has length > 1
Calls: KS
In addition: Warning message:
In ks.test.default(values, score(normals)) :
p-value will be approximate in the presence of ties
Execution halted
Possible explanation:
In the script assess_signficance.R, on line 51, the code is:
if (class(resultks) == "try-error")
but class(resultks) gives the output:
> class(resultks)
[1] "ks.test" "htest"
Proposed solution:
collapse class(resultks) output into a single string, and then compare.
Issue
The rule
freec_exome_somatic_pass1fails with the following error:Possible explanation:
In the script assess_signficance.R, on line 51, the code is:
if (class(resultks) == "try-error")but
class(resultks)gives the output:Proposed solution:
collapse
class(resultks)output into a single string, and then compare.