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In flowjo_to_gatingset, for some reason, I cannot use a data.frame as path anymore.
After some digging, it looks like flowjo_to_gatingset runs , path = suppressWarnings(normalizePath(path)) directly on the path, throwing an Error in path.expand(path) : invalid 'path' argument if path is a data.frame.
Is this only happening to me?
PS: I need to parse the FJ-wsp file always only one sample at a time. I used to be able to provide a data.frame with one row (just the sample of interest) and column names "sampleID" and "file" but that does not seem to work anymore.
Right, data.frame historically allow users to manually provide the mapping between flowJo sampleID and fcs file path for each sample when the automated matching failed to match them up (mostly due to the renaming fcs files at some point).
But we've introduced a more robust fcs searching method ever since, which matches both file name and keyword contents and pretty much resolved that issue.
So, this functionality is currently dropped. Unless you can provide a compelling reason to restore such feature.
In
flowjo_to_gatingset
, for some reason, I cannot use adata.frame
aspath
anymore.After some digging, it looks like
flowjo_to_gatingset
runs, path = suppressWarnings(normalizePath(path))
directly on thepath
, throwing anError in path.expand(path) : invalid 'path' argument
ifpath
is a data.frame.Is this only happening to me?
PS: I need to parse the FJ-wsp file always only one sample at a time. I used to be able to provide a data.frame with one row (just the sample of interest) and column names "sampleID" and "file" but that does not seem to work anymore.
Any help would be much appreciated.
EDIT:
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