Mysterious warning message: "...in .local... ignoring 'pos' argument
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jon.young • 0
@jonyoung-7657
Last seen 6.5 years ago
United States

I am conducting GO enrichment using GOstats, and upon executing the hyperGTest function

overBP <- hyperGTest(params)

a series of warning messages are printed out:

## Warning in .local(name, pos, envir, all.names, pattern): ignoring 'pos' argument
## Warning in .local(name, pos, envir, all.names, pattern): ignoring 'envir' argument
## Warning in .local(name, pos, envir, all.names, pattern): ignoring 'all.names' argument

I've been unable to find anything about these warnings. The script seems to run fine otherwise; I'm using R 3.2 with Bioconductor 3.1. Any help on this matter would be appreciated.

warnings gostats • 813 views
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@james-w-macdonald-5106
Last seen 1 day ago
United States

The short answer is that you don't have to worry - these are just warnings and things are proceeding as expected. We do however probably need to make changes so people don't have to see these warnings.

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Okay, thanks for the help.

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