egeulgen / pathfindR

pathfindR: Enrichment Analysis Utilizing Active Subnetworks
https://egeulgen.github.io/pathfindR/
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Issue with KEGG server connection when running pathfindr #124

Closed junli1988 closed 2 years ago

junli1988 commented 2 years ago

Describe the bug I keep getting an error message when downloading the KEGG pathway in the first step

To Reproduce Steps to reproduce the behavior:

  1. Prepare input as '...'
  2. Run the following function: mmu_kegg_descriptions <- keggList("pathway", "mmu")
  3. See error: Error in curl::curl_fetch_memory(url, handle = handle) : Failure when receiving data from the peer

Expected behavior Download the KEGG list for pathway info on mus musculus

Desktop (please complete the following information):

egeulgen commented 2 years ago

What version of KEGGREST are you using? 1.36.2 works for me.

keggList() is a function of KEGGREST, please raise an issue with them if this persists