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yuwwu / ezTree

A Perl pipeline for identifying marker genes and build phylogenetic trees for a set of genomes
GNU General Public License v3.0
13 stars 4 forks source link

Error after Hmmer finished #9

Open Anna-pro opened 2 years ago

Anna-pro commented 2 years ago

Hello, I received an error for each line in the script with the infinite repetitions: print() on closed filehandle OUT at /path/ezTree/ezTree line 291, line 4.

"Predicting genes for " and "Running hmmscan on " finished without any issues.

What might went wrong? What does this error mean? How can I force script to work? The main aim for me is extracting marker genes from my fasta files. Thank you! Looking forward for your fast response. Best, Anna

joeweaver commented 7 months ago

Hi Anna, I'm not associated with ezTree, but ran into this issue while trying it out.

For me, the problem was caused by having the list file in a different directory than ezTree itself.

e.g. -list test_example/list_species' didn't work, but copyinglist_speciesto the ezTree location did (-list list_species`).

I see your issue is from 2 years ago, but I'm posting this in the hopes that may save future users some time down the line.