djbradshaw2

--version not showing a bowtie2 version

18

Dear Whom It May Concern, I ran into this problem while using humann3 from biobakery. It was not recognizing bowtie2 because it seems it could not recognize a version https://forum.biobakery.org/t/humann-3-cannot-call-bowtie2-version/576/5....

KeyError: '3045' from make_kreport.py

2

Thank you very much for your powerful tools! I ran into the following error while running the make_kreport.py script. python make_kreport.py -i P1_S7_L001_R_kraken2.txt -t nt_ktaxonomy -o P1 PROGRAM START TIME:...

Restart from iteration 4 stopping when entering main loop for Iteration 5

5

Dear Gubbins Creators, Thank you for such a great tool! I am having issues with restarting a run from the core.full.aln from snippy results for comparing 4,149 bacterial short read...

Making a core SNP tree to go along with final.tre

3

Dear Gubbins Creators, Thanks again for a great tool! Sorry to open up so many questions. This is a multiple tools question, so please let me know if anything is...

REF and Reference do not match, is this expected?

2

Dear Gubbins Creators, Thanks for such a great tool! I wanted to check on an observation that I made looking through the *.summary_of_snp_distribution.vcf file. There seems to be a difference...