1 # Copyright (C) The Lightning Authors. All rights reserved.
3 # SPDX-License-Identifier: AGPL-3.0
8 RUN apt-get update --fix-missing -qy
10 RUN apt-get install -qy wget \
24 RUN apt-get update && \
25 apt-get install -y openjdk-8-jdk && \
26 apt-get install -y ant && \
29 #Fixing certificate issues
30 RUN apt-get update && \
31 apt-get install ca-certificates-java && \
33 update-ca-certificates -f
36 RUN wget https://faculty.washington.edu/browning/beagle/beagle.05May22.33a.jar
37 RUN wget https://faculty.washington.edu/browning/beagle/bref3.05May22.33a.jar
39 # Getting HTSLIB 1.9 for tabix/bgzip
41 RUN wget https://github.com/samtools/htslib/releases/download/1.9/htslib-1.9.tar.bz2 && tar -xjvf htslib-1.9.tar.bz2 && \
42 cd htslib-1.9 && ./configure && make && make install
46 # Installing samtools 1.9
48 RUN wget https://github.com/samtools/samtools/releases/download/1.9/samtools-1.9.tar.bz2 && tar -xjvf samtools-1.9.tar.bz2 && \
49 cd samtools-1.9 && ./configure && make && make install
53 # Installing bcftools 1.9
55 RUN wget https://github.com/samtools/bcftools/releases/download/1.9/bcftools-1.9.tar.bz2 && tar -xjvf bcftools-1.9.tar.bz2 && \
56 cd bcftools-1.9 && ./configure && make && make install