Dear Samtools Support,
When I submit the following command I got the following error messages:
bcftools +fixref GWA1MHCregionforHRC.vcf.gz -Ov -o
GWA1MHCregionforHRCfixref.vcf -- -d -f All_20151104.vcf.gz
[fai_load] build FASTA index.
[fai_build_core] different line length in sequence '(null)'.
Failed to load the fai index: All_20151104.vcf.gz
The All_20151104.vcf.gz and the All_20151104.vcf.gz.tbi files were downloaded
based on the information from the fixref plugin webpage:
wget
ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/VCF/All_20151104.vcf.gz
wget
ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606_b146_GRCh37p13/VCF/All_20151104.vcf.gz.tbi
I re-built the All_20151104.vcf.gz.tbi file using the command: tabix -p vcf
All_20151104.vcf.gz and re-submitted the above command and still got the same
error messages. How should I proceed with this?
Thank you very much in advance!
Ying
Ying Jin, M.D., Ph.D.
Senior Instructor,
Human Medical Genetics and Genomics Program
Department of Pediatrics
University of Colorado School of Medicine
12800 E. 19th Ave., Rm. 3400, mail stop 8300
Aurora, CO 80045 USA
Tel. 303-724-3110
Fax 303-724-3100
Email ying....@ucdenver.edu<mailto:ying....@ucdenver.edu>
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