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dynverse / dyno

Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕
https://dynverse.github.io/dyno
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Error during trajectory inference: unused argument (env = processx_env) #29

Closed squirrelandr closed 5 years ago

squirrelandr commented 5 years ago

I am following the dyno demo (https://github.com/dynverse/dyno#installation) and run into error at the following step. Prior to this step, because the "guidelines <- guidelines_shiny(dataset)" doesn't work, so I manually set the value of "methods_selected" to "scorpius".

model <- infer_trajectory(dataset, first(methods_selected)) Error traceback: 2: unused argument (env = processx_env) 1: processx::run processx_command processx_args processx_env verbose verbose TRUE FALSE Error: Error during trajectory inference unused argument (env = processx_env)

zouter commented 5 years ago

Hi @squirrelandr

This is most probably due to an old verison of processx (https://github.com/r-lib/processx/issues/117)

I think running install.packages("processx") should fix the issue.

Wouter

squirrelandr commented 5 years ago

Thank you Zouter, installing processx version 3.2.0 solves the problem.

Stepping forward, I ran into another error (I am on R3.4.4):

plot_dimred(model, expression_source = dataset$expression, grouping = fibroblast_reprogramming_treutlein$grouping) Error in filter_impl(.data, quo) : Evaluation error: argument "x" is missing, with no default.

zouter commented 5 years ago

Hi @squirrelandr

Sorry for not getting back to you. A lot has changed to dyno since you got this error. Are you still having problems with this if you reinstall it now?

Thanks Wouter

rcannood commented 5 years ago

This problem should have been fixed, closing this issue.