BjoerlingTaul

I have this problem too, thanks.

How to solve the following problem, please! Can't locate Bio/SeqIO.pm in @INC (you may need to install the Bio::SeqIO module) (@INC contains: /home/qiime2/miniconda3/bin/../perl5 /home/qiime2/miniconda3/lib/site_perl/5.26.2/x86_64-linux-thread-multi /home/qiime2/miniconda3/lib/site_perl/5.26.2 /home/qiime2/miniconda3/lib/5.26.2/x86_64-linux-thread-multi /home/qiime2/miniconda3/lib/5.26.2 .) at /home/qiime2/miniconda3/bin/snippy...

Thanks for your kindnss.

conda create --name snippy snippy conda activate snippy

Hello jody，following is the output of the command with "snpEff download Mycobacterium_tuberculosis_h37rv".  

Hi Jodyphelan, this problem is still not well solved. 

Hi jodyphelan, I have updated TBProfiler to version4.2.0, however something was always wrong with the command "tb-profiler update_tbdb". wrong information was as followings: (base) taobilin@taobilin-VirtualBox:~$ tb-profiler usage: tb-profiler {profile,vcf_profile,fasta_profile,lineage,spoligotype,collate,reprofile,reformat,create_db,update_tbdb,batch,version} ......

Thanks very much for you! It might be the problem of conda environments, TBProfiler does work by following command line： taobilin@VirtualBox:~$ conda info --envs # base /home/taobilin/miniconda3 # TBprofiler2 /home/taobilin/miniconda3/envs/TBprofiler2...

You may try to delete the old TBProfiler version 4.0.3, and reinstall the newest version 4.3.0. Lastly,check conda environment by enter commend "conda info --envs", and activate it!