NameError: name 'featureName' is not defined

[madhubioinfo]

This is the command I have used to run for fungal genomes

singularity run mitofinder_v1.4.1.sif -j A5_mito -s A5_HiFi_reads.fastq -r Rhizophagus_irregularis_DAOM197198_mtDNA.gb -o 1 -p 5 -m 10

I am getting following error Command line: /opt/MitoFinder/mitofinder -j A5_mito -s A5_HiFi_reads.fastq -r Rhizophagus_irregularis_DAOM197198_mtDNA.gb -o 1 -p 5 -m 10

Now running MitoFinder ...

Start time : 2023-07-31 16:01:30

Job name = A5_mito

Creating Output directory : /home/eniac/A5_mito All results will be written here

Program folders: MEGAHIT = /opt/MitoFinder/megahit/ MetaSPAdes folder = /opt/MitoFinder/metaspades/bin/ IDBA-UD folder = /opt/MitoFinder/idba/bin/ Blast folder = /opt/MitoFinder/blast/bin/ ARWEN folder = /opt/MitoFinder/arwen/ MiTFi folder = /opt/MitoFinder/mitfi/ tRNAscan-SE folder = /opt/MitoFinder/trnascanSE/tRNAscan-SE-2.0/

Traceback (most recent call last): File "/opt/MitoFinder/mitofinder", line 574, in featureName = ''.join(featureName.split()) NameError: name 'featureName' is not defined

[RemiAllio]

Hi,

Please, could you send me the file Rhizophagus_irregularis_DAOM197198_mtDNA.gb? It seems that something is wrong with this file...

Thank you, Rémi

[madhubioinfo]

Rhizophagus_irregularis_DAOM197198_mtDNA.zip Hi, Please find the attached file

[RemiAllio]

Hi,

Unfortunately, this file needs some edits to be usable by MitoFinder. I can make these edits but otherwise, the easiest way to use MitoFinder on your sample might be to use this reference instead.

Also, since you are using HiFi reads, I would recommend to perform the assembly before using MitoFinder (with a dedicated software) and give the assembly to MitoFinder using the -aoption.

Let me know if it helps, Best, Rémi