update image to include STAR aligner

hugp-ri · Nov 8, 2023 · 91f3b0a · 91f3b0a
1 parent 766d700
commit 91f3b0a
Showing 1 changed file with 12 additions and 1 deletion.
diff --git a/Dockerfile b/Dockerfile
@@ -56,9 +56,20 @@ RUN git clone https://github.com/Illumina/DRAGMAP.git \
 &&  HAS_GTEST=0 make \
 &&  HAS_GTEST=0 make install
 
+# Install STAR aligner
+RUN wget https://github.com/alexdobin/STAR/archive/2.5.3a.tar.gz \
+ && tar -xf 2.5.3a.tar.gz \
+ && rm 2.5.3a.tar.gz \
+ && cd STAR-2.5.3a \
+ && make \
+ && mv bin/Linux_x86_64/STAR* /usr/bin \
+ && cd source \
+ && make \
+ && cd /
+
 ENV LC_ALL C.UTF-8
 ENV LANG C.UTF-8
 
-RUN git clone "https://github.com/hugp-ri/hicup-plus.git" && cd hicup-plus && git checkout $(./hicup --version|cut -d " " -f2)
+RUN git clone "https://github.com/hugp-ri/hicup-plus.git" && cd hicup-plus && git checkout $(./hicup --version|cut -d " " -f2) && echo $(./hicup --version|cut -d " " -f2)
 
 ENTRYPOINT ["/usr/bin/perl", "/hicup-plus/hicup-plus"]