Merge pull request BD2KGenomics#288 from akmorrow13/bamQC

updated Gencode v23 new path
amanpruthi · Nov 29, 2018 · dc2dc31 · dc2dc31
2 parents c11f15b + c6a9ce9
commit dc2dc31
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diff --git a/bamQC/Dockerfile b/bamQC/Dockerfile
@@ -15,7 +15,7 @@ RUN wget -qO- https://github.com/GregoryFaust/samblaster/releases/download/v.0.1
   && cd /tmp/samblaster-v.0.1.24/ && make && mv samblaster /usr/local/bin && rm -rf /tmp/samblaster-v-0.1.24
 
 WORKDIR /ref
-RUN wget -qO- https://downloads.sourceforge.net/project/rseqc/BED/Human_Homo_sapiens/hg38_GENCODE_v23_basic.bed.gz \
+RUN wget -qO- http://courtyard.gi.ucsc.edu/~jvivian/bamqc/hg38_GENCODE_v23.bed.gz \
   | gunzip -c > /ref/hg38_GENCODE_v23_basic.bed
 
 #WORKDIR /app
@@ -30,4 +30,4 @@ ADD . /app
 RUN mkdir /data
 WORKDIR /data
 
-ENTRYPOINT ["/bin/bash", "/app/run.sh"]
+ENTRYPOINT ["/bin/bash", "/app/run.sh"]
diff --git a/bamQC/Makefile b/bamQC/Makefile
@@ -7,7 +7,7 @@ build: ${build_tool}
 
 ${build_tool}: Dockerfile
 	docker build -t ${name}:${tag} .
-	docker tag -f ${name}:${tag} ${name}:latest
+	docker tag ${name}:${tag} ${name}:latest
 	touch ${build_tool}
 
 push: build