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zwdzwd / transvar

TransVar - multiway annotator for precision medicine
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build-in dbsnp download fail #5

Open die4live opened 8 years ago

die4live commented 8 years ago

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:)

zwdzwd commented 8 years ago

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.

die4live commented 8 years ago

@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.