Rebuild Docker image based on debian zlib-ng base

- #325

src/popscle/Dockerfile

@@ -1,19 +1,21 @@
-FROM vibsinglecellnf/samtools:1.10
-# source: https://github.com/vib-singlecell-nf/bwamaptools/blob/master/Dockerfile.samtools
+FROM vibsinglecellnf/samtools:1.12
 
-RUN apk add --virtual build-dependencies git cmake g++ curl
+RUN echo 'deb http://deb.debian.org/debian testing main' > /etc/apt/sources.list.d/testing.list && \
+    apt-get update && \
+    apt-get install -y --no-install-recommends \
+        build-essential \
+        cmake
 
 # Install popscle
-RUN git clone --depth 1 https://github.com/statgen/popscle.git && \
-    cd popscle && \
-    mkdir build && \
-    cd build && \
+RUN git clone --depth 1 https://github.com/statgen/popscle.git /tmp/popscle && \
+    mkdir -p /tmp/popscle/build && \
+    cd /tmp/popscle/build && \
     cmake .. && \
     make && \
-    cp /popscle/bin/popscle /usr/local/bin
+    cp /tmp/popscle/bin/popscle /usr/local/bin
 
 # install bedtools
-ENV BEDTOOLS_VERSION 2.29.2
+ENV BEDTOOLS_VERSION 2.30.0
 RUN curl -L -o /usr/local/bin/bedtools \
     https://github.com/arq5x/bedtools2/releases/download/v${BEDTOOLS_VERSION}/bedtools.static.binary && \
     chmod a+x /usr/local/bin/bedtools
@@ -23,6 +25,3 @@ RUN curl -L -o /usr/local/bin/bedtools \
 RUN git clone --depth 1 https://github.com/aertslab/popscle_helper_tools.git /tmp/popscle_helper_tools && \
     mv /tmp/popscle_helper_tools/*sh /usr/local/bin
 
-RUN apk del build-dependencies && \
-    rm -rf /var/cache/apk/*
-