A while ago Martin and I discussed the possibility of idempotence for
TabixFile ... this seemed
to make sense and so
> TabixFile
function (file, index = paste(file, "tbi", sep = "."), ..., yieldSize =
NA_integer_)
{
if (is(file, "TabixFile"))
return(file)
tryCatch({
.
hi Lori,
thanks for the clarification. if this is an intended change then i'd say
the documentation needs to be updated since, as i showed in my email
below, it currently says that for functions such as 'TabixFileList()'
the input 'file' argument should be a 'TabixFile' instance and not a
char
A couple more things about this: The Hits class is defined in the
S4Vectors package. The changes to the internals of the class happened
in BioC 3.3, almost 1 year ago. The NEWS file in S4Vectors has an entry
under "CHANGES IN VERSION 0.10.0" that describes these changes:
o Many changes to the
