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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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System command error with infer_trajectory and ti_paga() #80

Open repeat-pipettor opened 4 years ago

repeat-pipettor commented 4 years ago

Hello,

I hope this is the right repository to post this issue. I am working with a dataset of 26,000 cells and 5,000 features, and have provided start cells as prior information. I am running dyno locally, on my Windows laptop with Docker toolbox.

I tried to infer trajectories using dynwrap and ti_paga(), which was the only method that was selected by the shiny app. However, I ran into the following error: 

library(dyno)
library(tidyverse)

set.seed(1)
model = dynwrap::infer_trajectory(dataset, ti_paga(), verbose = TRUE)

# Error in processx::run("docker", c("images", paste0("--format=", format),  : 
# System command error

I'd appreciate any advice on how to interpret the error message and start troubleshooting this. Thank you!

repeat-pipettor commented 4 years ago

It appears that this error is due to the same exact issue involving Docker Toolbox that several other users have reported here: https://github.com/dynverse/dynmethods/issues/156

Any insight from the dyno developers would be greatly appreciated, otherwise I will direct the rest of my questions to that thread. Thank you!