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takaram / kofam_scan

CLI tool to annotate genes with KOfam
https://www.genome.jp/tools/kofamkoala/
MIT License
66 stars 11 forks source link

Incorrect hmmscan settings cause popen3 to hang rather than an error #24

Open lguangyu opened 2 years ago

lguangyu commented 2 years ago

I have manually assigned hmmscan in the config.yml file. Recently discovered that when it is pointing to a broken path, the call to exec_annotation will hang up forever at lib/kofam_scan/parallel.rb:28 rather than throw a file not found error.

jjkoehorst commented 1 year ago

I have the same issue with the current conda version. Any clue how to solve this? As it just hangs, no error, no message or anything...

mahmudhera commented 1 year ago

Is there a near-future plan to resolve this issue? I am also at a loss on how to solve this.