Commit 67b48e62 authored by peguerin's avatar peguerin
Browse files

add DEMORT to container

parent 32dd907f
......@@ -9,7 +9,7 @@ Include: bash vim less man-db apt-utils tzdata
PATH="${PATH}":/usr/local/bin/bin/
%runscript
echo "Opening container...ubuntu xenial: freebayes, STACKS1, dDocent, parallel, gnuplot, mawk, VCFtools, VCFlib, trimmomatic, bwa, CD-HIT, samtools, bedtools, PEAR, fastp, seqtk, curl, wget, python2, java8"
echo "Opening container...ubuntu xenial: freebayes, STACKS1, dDocent, DEMORT, parallel, gnuplot, mawk, VCFtools, VCFlib, trimmomatic, bwa, CD-HIT, samtools, bedtools, PEAR, fastp, seqtk, curl, wget, python2, java8"
%labels
......@@ -37,6 +37,7 @@ Include: bash vim less man-db apt-utils tzdata
parallel 20161222
seqtk 1.0
BWA 0.7.17
DEMORT 0.2.4
%post
......@@ -73,6 +74,22 @@ Include: bash vim less man-db apt-utils tzdata
## lib-python
yes | apt-get install libpython-dev unzip bc
## python3 minimal
yes | apt-get install python3
## DEMORT
yes | apt-get install python3
yes | apt-get install python3-pip
python3 -m pip install demort
python3 -m pip install --user --upgrade pip==9.0.3
python3 -m pip install --user demort
pip3 install demort
## install STACKS
wget http://catchenlab.life.illinois.edu/stacks/source/stacks-1.48.tar.gz
......
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