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dplyr::summarise message

Open mikelove opened this issue 5 months ago • 0 comments

The following messages appears at the end of a (successful) run of bambu, it's a minor warning from dplyr:

...
--- Start extending annotations ---
 Using a novel discovery rate (NDR) of: 0.063
 --- Start isoform quantification ---
 --- Finished running Bambu ---
 Warning messages:
 1: There was 1 warning in `summarise()`.
 ℹ In argument: `intersectWidth = max(intersectWidth)`.
 Caused by warning in `max()`:
 ! no non-missing arguments to max; returning -Inf
 2: Returning more (or less) than 1 row per `summarise()` group was deprecated in dplyr 1.1.0.
 ℹ Please use `reframe()` instead.
 ℹ When switching from `summarise()` to `reframe()`, remember that `reframe()` always returns an ungrouped data frame and adjust accordingly.
 ℹ The deprecated feature was likely used in the bambu package.
   Please report the issue to the authors.
 This warning is displayed once every 8 hours.
 Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated.
 3: There was 1 warning in `summarise()`.
 ℹ In argument: `intersectWidth = max(intersectWidth)`.
 Caused by warning in `max()`:
 ! no non-missing arguments to max; returning -Inf

This is with R 4.3.2 and Bioc 3.18 / bambu (3.4.0)

mikelove avatar Jan 08 '24 02:01 mikelove