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jtlovell / GENESPACE

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run_orthofinder usage issues #161

Open xiaoguizz opened 2 months ago

xiaoguizz commented 2 months ago

Hi, When I call the existing Orthofinder result, there is something like this Error in run_orthofinder(gsParam = gsParam, verbose = TRUE) : orthofinder directory PWD/orthofinder exists, remove this before proceeding.My command is gpar<- init_genespace( wd = wd, rawOrthofinderDir=rawOrthofinderDir, nCores=5, path2orthofinder = path2orthofinder, path2mcscanx = path2mcscanx)

out <- run_genespace(gpar, overwrite = FALSE) Thouk you, Zhou

jtlovell commented 1 month ago

Was the orthofinder run done on exactly the genomes in /wd?