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Bgi-LUSH / LUSH-DNASeq-pipeline

Fast and accurate DNASeq Variant Calling workflow composed of LUSH-toolkits
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Dockerized container #2

Open ghost opened 1 year ago

ghost commented 1 year ago

I want to test this using docker. What are the dependencies and install instructions? how much RAM is required?

Bgi-LUSH commented 1 year ago

We have released the binary version of the Lush tools, which can be run in a CentOS-based Docker environment, such as centos:centos7.6.1810. For 30x WGS data, approximately 40GB of memory is required.

husamia commented 1 year ago

We have released the binary version of the Lush tools, which can be run in a CentOS-based Docker environment, such as centos:centos7.6.1810. For 30x WGS data, approximately 40GB of memory is required.

@Bgi-LUSH that's great. Can you publish a docker container that we can pull and run?

Bgi-LUSH commented 1 year ago

You can use "docker pull wonderfulv1/lush-toolkit:v1" to pull the corresponding image. The respective lush tools are located in the "/usr/local/lush/LUSH-DNASeq-pipeline/bin/" directory.

husamia commented 1 year ago

@Bgi-LUSH do you have a command for pulling the latest in the future?

Bgi-LUSH commented 1 year ago

Yes, we will continue to update, and in the future, we will label the latest version as 'latest'.

Bgi-LUSH commented 2 weeks ago

hi，we have added a Dockerfile to build the latest image. Just run :

git clone https://github.com/Bgi-LUSH/LUSH-DNASeq-pipeline.git
docker build -t lush-toolkit:latest  -f LUSH-DNASeq-pipeline/Dockerfile  .