I am unable to view my data which I was able to view and manipulate with similar commands prior to this. Running on a Linux server. This is what I run and the errors I get:
tabix sequence.snps.vcf.gz chr37>chr37.vcf bgzip -c chr37.vcf > chr37.vcf.gz tabix -p vcf chr37.vcf.gz >chr37.vcf.gz.tbi
tabix the index file already exists. please use '-f- to overwrite
I saw that I had the tbi file so thought I could just run this to see some of the file
tabix chr37.vcf.gz chr37:1-20000 [ti_index_load] wrong magic number [ti_index_load] fail to load the index: chr.37.vcf.gz.tbi [tabix] failed to load the index file
I removed the index file and remade it didn't fix the problem. I tried
tabix -p -f vcf chr37.vcf.gz > chr37.vcf.gz.tbi [main] unrecognized preset
I tried moving the -f in front of the -p, removing the -p, and the vcf still get same error. I even reloaded the sequence.snp file and remade the files. I have no idea what the issue is. Any help would be greatly appreciated.