Commit 3bf69372 authored by Amandine  PERRIN's avatar Amandine PERRIN
Browse files

Add tbl2asm installation

parent 8a98b06f
Pipeline #46166 passed with stage
in 26 minutes and 58 seconds
......@@ -54,7 +54,7 @@ RUN make &&\
make install
# Install prokka:
# Install dependencies for prokka:
WORKDIR /install_dir
RUN DEBIAN_FRONTEND="noninteractive" apt install -y\
libdatetime-perl \
......@@ -63,8 +63,17 @@ RUN DEBIAN_FRONTEND="noninteractive" apt install -y\
hmmer \
default-jre \
bioperl
# Install hmmer
RUN echo yes | cpan Bio::SearchIO::hmmer
# Install bioperl
RUN echo yes | cpan Bio::Perl
# install tbl2asn
RUN wget -O tbl2asn.gz ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools/converters/by_program/tbl2asn/linux.tbl2asn.gz &&\
gunzip tbl2asn.gz &&\
chmod +x tbl2asn &&\
ln -s /install_dir/tbl2asn /usr/local/bin
# Install prokka
RUN git clone https://github.com/tseemann/prokka.git
RUN /install_dir/prokka/bin/prokka --setupdb &&\
ln -s /install_dir/prokka/bin/prokka /usr/local/bin
......
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