ValueError with informant.py

[NFernandes86]

Hello,

When I run informant.py, it returns the following error:

db_taxa_dict = tools.parse_metadata(args.metadata)
File "~/miniconda3/envs/fisher/lib/python3.7/site-packages/phylofisher/tools.py", line 64, in parse_metadata
org, long_name, group, subtax, _, _ = line.split('\t')
ValueError: not enough values to unpack (expected 6, got 5)

I am stuck at this stage, following the "Detailed example workflow". Can someone help me with this?
I am using Ubuntu 22.4 LTS

[atice]

Hello, We have a PhyloFisher development team meeting tomorrow at noon. We will add your issue as a talking point. In the mean time, could you provide us with your input_metadata.tsv file so we can best trouble shoot your issue? Could you also let me know which version of PhyloFisher you are running currently. Alex Alexander K. Tice, Ph.D. Assistant Professor Department of Biological Sciences Texas Tech University Office: 313 Lab: 308 & 313A Phone: (806) 834-6444

…

________________________________ From: NFernandes86 ***@***.***> Sent: Tuesday, January 16, 2024 5:22 AM To: TheBrownLab/PhyloFisher ***@***.***> Cc: Subscribed ***@***.***> Subject: [TheBrownLab/PhyloFisher] ValueError with informant.py (Discussion #113) This email originated outside TTU. Please exercise caution<https://askit.ttu.edu/phishing>! Hello, When I run informant.py, it returns the following error: db_taxa_dict = tools.parse_metadata(args.metadata) File "~/miniconda3/envs/fisher/lib/python3.7/site-packages/phylofisher/tools.py", line 64, in parse_metadata org, long_name, group, subtax, _, _ = line.split('\t') ValueError: not enough values to unpack (expected 6, got 5) I am stuck at this stage, following the "Detailed example workflow". Can someone help me with this? I am using Ubuntu 22.4 LTS — Reply to this email directly, view it on GitHub<#113>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ADA4OK43KIQ4HAWDCMG54QTYOZPHLAVCNFSM6AAAAABB4ULUKSVHI2DSMVQWIX3LMV43ERDJONRXK43TNFXW4OZWGA4DCNRSGU>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[NFernandes86]

Thank you for your quick reply. Im running with the latest version 1.2.13. The input_metadata.tsv file is attached.
input_metadata.txt

[atice]

Hi @NFernandes86 ,

Can you send me your metadata.tsv as well. Thanks.

Alex

[NFernandes86]

Hi Alexander,
It's the original you provided. I didn't modify it.
metadata.txt

[atice]

Interesting. Somehow the Source column for the ciliates in the dataset was blank and the information that should have been in it was moved into the Data Type column. Try replacing the file with this one and running informant.py

metadata.txt

[NFernandes86]

Now it's working :) thank you!