egeulgen / pathfindR

pathfindR: Enrichment Analysis Utilizing Active Subnetworks
https://egeulgen.github.io/pathfindR/
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Error producing HTML file #152

Closed lucasrocmoreira closed 1 year ago

lucasrocmoreira commented 1 year ago

Hi, I'm getting the following error when attempting to run the run_pathfindR function:

## Testing input
The input looks OK
## Processing input. Converting gene symbols,
          if necessary (and if human gene symbols provided)
Number of genes provided in input: 839
Number of genes in input after p-value filtering: 839

Could not find any interactions for 65 (7.75%) genes in the PIN
Final number of genes in input: 774
## Performing Active Subnetwork Search and Enrichment
## Processing the enrichment results over all iterations
## Annotating involved genes and visualizing enriched terms
Downloading pathway diagrams of 10 KEGG pathways

  |===========================================================================================================| 100%
Saving colored pathway diagrams of 10 KEGG pathways

  |===========================================================================================================| 100%
By default, the top 10 KEGG pathways are visualized
Please use `visualize_terms()` if you'd like to plot all enriched pathways
## Creating HTML report
Error in xfun::normalize_path(path, ..., must_work = must_work, resolve_symlink = FALSE) : 
  unused argument (resolve_symlink = FALSE)

Any idea what this error might be?

Thank you

lucasrocmoreira commented 1 year ago

It worked after I installed the package via pak. The version of xfun was wrong. I'm closing the issue.