Question: deepvariant cannot import name locked_file
0
gravatar for 372910137
2.1 years ago by
3729101370
3729101370 wrote:

when i tried to install the DeepVariant (./build-prereq.sh) cannot import name locked_file

deepvariant genome • 672 views
ADD COMMENTlink modified 15 months ago by alaincoletta160 • written 2.1 years ago by 3729101370

You should directly follow up with google cloud genomics support. While Dr. DePristo seems to have joined Biostars I don't think he is going to provide regular support for deepvariant here.

ADD REPLYlink written 2.1 years ago by genomax76k

We implemented the DeepVariant pipeline with Docker and Nextflow. You can try it here https://lifebit.page.link/gnbR with example parameters.

There is also a post with benchmarks across various AWS instances here: https://blog.lifebit.ai/post/deepvariant/.

ADD REPLYlink written 15 months ago by alaincoletta160

Tagging: arostami

ADD REPLYlink written 2.1 years ago by genomax76k

Hi Mark, we implemented the DeepVariant pipeline with Docker and Nextflow here

Lifebit integrate it the pipeline with example parameters

Would love your feedback on this.

Thanks!

ADD REPLYlink modified 15 months ago • written 15 months ago by alaincoletta160
1
gravatar for mdepristo
2.1 years ago by
mdepristo60
mdepristo60 wrote:

First, it's better if you tag these posts with deepvariant so we get pinged by biostars that people are asking about DeepVariant. Second, I'd recommend you post this as an issue on github repo: https://github.com/google/deepvariant/issues with a bunch more details so we can reproduce and fix.

ADD COMMENTlink written 2.1 years ago by mdepristo60

Just thought to let you know... Saddly, the "watched tag" feature of biostars is there but it doesn't work (see Biostars meta: Does "Watched tags" work? ). (If it works for you let me know, please!)

ADD REPLYlink modified 2.1 years ago • written 2.1 years ago by dariober10k
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