Using Hail 0.1 import_vcf error

Help [0.1]
1

Note:
I was using Hail0.2 and the following script works:
import hail as hl
hl.import_vcf(’/tmp/resources/sample.vcf’).write(’/tmp/output/sample.vds’)

But I switch to 0.1 because we are using SEQR and using some pipelines.
When I run the same script:
I get:
hl.import_vcf(’/tmp/resources/sample.vcf’).write(’/tmp/output/sample.vds’)
AttributeError: ‘module’ object has no attribute ‘import_vcf’

is that function in 0.1?
Do you have additional examples for 0.1?
Thanks,

2

Indeed, 0.1 and 0.2 have very different interfaces so be sure to see the corresponding documentation. In 0.1, import is done using the HailContext:
https://hail.is/docs/stable/hail.HailContext.html#hail.HailContext.import_vcf

In 0.2, there is no explicit HailContext. You can get a sense of the differences from the overviews and tutorials, which contain many examples. As stated on the homepage, we recommend users move to 0.2 even though it’s still in beta.

1 Like
3

Thanks a lot. I am using 0.1 for compatibility reasons. Now everything is working