use ecr public repositories for base images

Author: wleepang

src/containers/bcftools/Dockerfile

@@ -1,9 +1,9 @@
-FROM ubuntu:18.04 AS build
+FROM public.ecr.aws/lts/ubuntu:18.04 AS build
 
 ARG VERSION=1.9
 
 # Metadata
-LABEL container.base.image="ubuntu:18.04"
+LABEL container.base.image="public.ecr.aws/lts/ubuntu:18.04"
 LABEL software.name="BCFtools"
 LABEL software.version=${VERSION}
 LABEL software.description="Utilities for variant calling and manipulating files in the Variant Call Format (VCF) and its binary counterpart BCF"
@@ -37,7 +37,7 @@ RUN wget -O /bcftools-${VERSION}.tar.bz2 \
 WORKDIR /bcftools-${VERSION}
 RUN ./configure && make
 
-FROM ubuntu:18.04 AS final
+FROM public.ecr.aws/lts/ubuntu:18.04 AS final
 COPY --from=build /bcftools-*/bcftools /usr/local/bin
 
 RUN apt-get -y update && \

src/containers/bwa/Dockerfile

@@ -1,4 +1,4 @@
-FROM ubuntu:18.04 AS build
+FROM public.ecr.aws/lts/ubuntu:18.04 AS build
 
 ARG BWA_VERSION=0.7.17
 
@@ -19,7 +19,7 @@ RUN wget https://github.com/lh3/bwa/releases/download/v${BWA_VERSION}/bwa-${BWA_
  && cp bwa /opt/src
 
 
-FROM ubuntu:18.04 AS final
+FROM public.ecr.aws/lts/ubuntu:18.04 AS final
 
 RUN apt-get update -y \
  && apt-get install -y \

src/containers/nextflow/Dockerfile

@@ -3,7 +3,7 @@ FROM nextflow/nextflow:${VERSION} AS build
 
 # The upstream nextflow containers are based on alpine
 # which are not compatible with the aws cli
-FROM amazonlinux:2 AS final
+FROM public.ecr.aws/amazonlinux/amazonlinux:2 AS final
 COPY --from=build /usr/local/bin/nextflow /usr/bin/nextflow
 
 RUN yum update -y \

src/containers/samtools/Dockerfile

@@ -1,4 +1,4 @@
-FROM ubuntu:18.04 AS build
+FROM public.ecr.aws/lts/ubuntu:18.04 AS build
 
 ARG VERSION=1.9
 
@@ -37,7 +37,7 @@ RUN wget -O /samtools-${VERSION}.tar.bz2 \
 WORKDIR /samtools-${VERSION}
 RUN ./configure && make
 
-FROM ubuntu:18.04 AS final
+FROM public.ecr.aws/lts/ubuntu:18.04 AS final
 COPY --from=build /samtools-*/samtools /usr/local/bin
 
 RUN apt-get -y update && \