20765: Adding gvcf regions subdir.

[lightning.git] / docker / cgivar2vcfbed / Dockerfile

diff --git a/docker/cgivar2vcfbed/Dockerfile b/docker/cgivar2vcfbed/Dockerfile
index eb8ee227abd4f03dfd60c1a016f6b0c3a20fb9d3..f6aa205c860660be718b4f20155ca31a5f4e1bc2 100644 (file)
--- a/docker/cgivar2vcfbed/Dockerfile
+++ b/docker/cgivar2vcfbed/Dockerfile
@@ -2,8 +2,10 @@
 #
 # SPDX-License-Identifier: AGPL-3.0
 
-FROM arvados/jobs
-MAINTAINER Jiayong Li <jli@curii.com>
+# build instruction:
+# docker build -t dockername --file=/path/to/lightning/docker/lightning/Dockerfile /path/to/lightning
+
+FROM python:3.11-buster
 
 USER root
 
@@ -11,6 +13,9 @@ RUN apt-get update -q
 
 RUN apt-get install -qy build-essential wget cmake zlib1g-dev git
 
+# Seting up gvcf_regions
+COPY ./gvcf_regions /gvcf_regions
+
 # Installing cgatools 1.8.0
 
 RUN wget https://sourceforge.net/projects/cgatools/files/1.8.0/cgatools-1.8.0.1-linux_binary-x86_64.tar.gz && \
@@ -35,6 +40,4 @@ RUN wget https://github.com/arq5x/bedtools2/releases/download/v2.25.0/bedtools-2
 
 WORKDIR /
 
-# Installing gvcf_regions
 
-RUN git clone https://github.com/lijiayong/gvcf_regions