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steineggerlab / ufcg

UFCG: Universal Fungal Core Genes
https://ufcg.steineggerlab.com
GNU General Public License v3.0
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Error! metadata file improperly formatted #22

Open Ellouzlab opened 10 months ago

Ellouzlab commented 10 months ago

Hi -

I installed ufcg using conda, and used the setup commands in the instructions. I am hit with this error when using the ufcg profile:

ufcg profile -i directory_with_sequences -o outdir

Any insight would be helpful.

endixk commented 10 months ago

Hello,

The error you mentioned normally should not occur when -m option is not given. The program will write a temporary metadata file /tmp/meta_tmp.tsv for you, which is supposed not to be improperly formatted.

There might be two possibilities:

  1. Your permission to /tmp directory is improperly set
  2. The temporary metadata file was modified or wiped out during the run

If you encounter this error consistently, please run the same command with --dev option and share the results for me to examine further.

Ellouzlab commented 10 months ago

Hi -

I found the issue. Our input directory had a hidden file under the name .assemlinks that led to an improperly formatted metadata table.

Thank you for the help.