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If change the product to "gene" in the configuration file, mmseqs and -w options will fail. #20

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Dx-wmc opened this issue Mar 4, 2025 · 1 comment

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@Dx-wmc
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Dx-wmc commented Mar 4, 2025

Lovis4u typically displays the product information in the figure, but when there are too many products, the visualization becomes cluttered. To improve clarity, I opted to display the gene name instead. I modified the cfg file by setting gff_CDS_name_source = gene. While this works fine under --mmseqs-off option, it results in an error when used with the -w option or normal mmseqs running.

lovis4u -gff ../lovis4u_data/guide/gff_files -hl --set-category-colour -c A4L.cfg -o lv
○ Warning: the output folder already exists. Results will be rewritten (without removal other files in this folder)
○ Reading gff files...
⦿ 5 loci were loaded from the gff files folder
○ Running mmseqs for protein clustering...
lovis4uError 💔: Unable to run mmseqs clustering. In case you use a linux machine,  have you run a post-install 'lovis4u --linux` command to switch to the linux mmseqs binary?
@art-egorov
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Hi again!
Unfortunately, I couldn't reproduce the error. I tried to put different values on this config parameter, including those that don't exist and highly duplicated, and never was able to get the same error. Could you share the gff file you're using, where you get such problem?
Best

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