build-in dbsnp download fail
die4live opened this issue · comments
hi, I just installed transvar (from pip
) and following the manual in readthedoc, however, for transvar config --download_dbsnp
, I got
[download] warning: file not available: ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/VCF/00-All.vcf.gz or target directory not found
[download] warning: file not available: ftp://ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b144_GRCh37p13/VCF/00-All.vcf.gz.tbi or target directory not found
I guess it was an out-dated link, and hope it will be fixed:)
Thanks for reporting this. Could you try again with the new version (both updated on github and pypi)? The file is pretty big. will take a while to download though.
@zwdzwd thanks for the quick response:)
actually I am mirroring all anno files from transvar.info. and another idea: as you said some files are large and may be corrupted due to network issues, so maybe add a md5 file and check after download command finished will ensure downloading successfully.