Update Dockerfile

hallamlab · Mar 12, 2024 · 32cbd81 · 32cbd81
1 parent a7df85b
commit 32cbd81
Showing 1 changed file with 7 additions and 11 deletions.
diff --git a/dev_utils/Dockerfile b/dev_utils/Dockerfile
@@ -1,17 +1,18 @@
-FROM ubuntu:bionic
+FROM ubuntu:focal
 
 ENV TREESAPP_VERSION="0.11.4"\
- MAFFT_VERSION="7.475-1"\
+ MAFFT_VERSION="7.520-1"\
  BWA_VERSION="0.7.17"\
  PRODIGAL_VERSION="2.6.3"\
- HMMER_VERSION="3.3"\
+ HMMER_VERSION="3.3.2"\
  RAXML_VERSION="1.0.1"\
  EPA_VERSION="0.3.8"\
- VSEARCH_VERSION="2.15.0"\
  MMSEQS_VERSION="12-113e3"
+ENV TZ=America/Vancouver
+RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone
 
-LABEL base.image="ubuntu:bionic"
-LABEL container.version="0.3"
+LABEL base.image="ubuntu:focal"
+LABEL container.version="0.4"
 LABEL software="TreeSAPP"
 LABEL software.version=${TREESAPP_VERSION}
 LABEL description="A Python package for gene-centric taxonomic and functional classification using phylogenetic placement"
@@ -54,11 +55,6 @@ RUN curl -LJ0 --output mafft.deb https://mafft.cbrc.jp/alignment/software/mafft_
  dpkg -i mafft.deb && \
  rm mafft.deb
 
-RUN wget https://github.com/torognes/vsearch/archive/v${VSEARCH_VERSION}.tar.gz && \
- tar xzf v${VSEARCH_VERSION}.tar.gz && \
- cd vsearch-${VSEARCH_VERSION} && \
- ./autogen.sh && ./configure && make && make install && cd -
-
 RUN curl -LJ0 --output mmseqs-linux-sse41.tar.gz https://github.com/soedinglab/MMseqs2/releases/download/${MMSEQS_VERSION}/MMseqs2-Linux-SSE4_1.tar.gz && \
  tar xvzf mmseqs-linux-sse41.tar.gz && \
  cp mmseqs/bin/mmseqs /usr/local/bin