From 0551d988b12f93408afdaa7a3b08bcc573d31042 Mon Sep 17 00:00:00 2001 From: Daniel Cameron Date: Thu, 23 Dec 2021 15:46:52 +1100 Subject: [PATCH] #535 added makeblastdb to image (thanks @scwatts) --- Dockerfile | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/Dockerfile b/Dockerfile index 928fd509..49733ff6 100644 --- a/Dockerfile +++ b/Dockerfile @@ -96,12 +96,12 @@ RUN mkdir /opt/trf && \ wget http://tandem.bu.edu/trf/downloads/trf407b.linux64 && \ chmod +x trf*.linux64 && \ ln -s trf*.linux64 trf +# Turns out we need makeblastdb as well as rmblastn (https://github.com/PapenfussLab/gridss/issues/535) RUN mkdir /opt/rmblast && \ cd /opt/rmblast && \ - wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/rmblast/2.2.28/ncbi-rmblastn-2.2.28-x64-linux.tar.gz && \ - tar zxf ncbi-rmblastn-*.tar.gz && \ - mv ncbi-rmblastn-*/bin/* . && \ - rm -r ncbi-rmblastn-* + wget http://www.repeatmasker.org/rmblast-2.11.0+-x64-linux.tar.gz && \ + tar --no-anchored --strip-components 2 -xvzf rmblast-2.11.0+-x64-linux.tar.gz rmblastn makeblastdb && \ + rm rmblast-2.11.0+-x64-linux.tar.gz RUN cd /opt/ && \ wget http://www.repeatmasker.org/RepeatMasker/RepeatMasker-4.1.2-p1.tar.gz && \ tar zxf RepeatMasker-*.tar.gz && \