This is due to a mismatch is chromosome names between your hg19.len file (UCSC
naming) and the VCF (Ensembl naming). This should be handled better by Galaxy,
and I’ve created a card for it:
https://trello.com/c/bjmNesZj
In the meantime, I used this command to convert chromosome names for this
I am trying to visualise VCF exported from:
ftp://ngs.sanger.ac.uk/production/cosmic/CosmicCodingMuts_v68.vcf.gz
However I get the following error: (Both on Galaxy Main and Local installation)
Input error: Chromosome 1 found in your input file but not in your genome file.
needLargeMem: trying to
