Snippy annotation issue in final file

[Juthy12]

Hello tseemann,

I am a student, doing small review on snippy. I took fastq files for one sample to compare with reference genome but when I run snippy I got only few columns which are showing snp indel presence but other columns like where the cds, rRNA or the things like effects , gene types should be mentioned did not get those. Those columns are blank. Why is that happening? Can you please help?