Optimized_AHRD/ahrd.def at main · legumeinfo/Optimized_AHRD · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
Bootstrap: docker

From: python:3.11-slim-bullseye

%labels
    Author Evan
    Version 5.72-103.0

%files
    /home/elavelle/tmp_interproscan_build/nf_sandbox/bin /bin
    /home/elavelle/tmp_interproscan_build/nf_sandbox/bin/scripts /bin/scripts
    /home/elavelle/tmp_interproscan_build/nf_sandbox/opt /opt
    /home/elavelle/tmp_interproscan_build/nf_sandbox/opt/interproscan-5.72-103.0 /opt/interproscan-5.72-103.0
/home/elavelle/software/diamond /usr/local/bin/diamond
    /home/elavelle/tmp_interproscan_build/nf_sandbox/resources /resources
    /data/elavelle/databases/interpro.dtd /interpro.dtd
    #/home/elavelle/tmp_interproscan_build/nf_sandbox/usr/local/lib64/python3.9/site-packages /usr/local/lib64/python3.9/site-packages
    #/home/elavelle/tmp_interproscan_build/nf_sandbox/usr/local/lib64/python3.9/site-packages/yaml /usr/local/lib64/python3.9/site-packages/yaml

%post
    apt-get update && \
    apt-get install -y openjdk-17-jre-headless curl libgomp1 libc6-dev build-essential unzip perl zlib1g procps python3-yaml python3-pip && \
    apt-get clean
    pip3 install PyYAML
    echo "/opt/interproscan-*/lib" >> /etc/ld.so.conf
    ldconfig
    #export PYTHONPATH=/usr/local/lib64/python3.9/site-packages:$PYTHONPATH
    mkdir -p /opt/scripts


    # Nextflow
    cd /opt
    curl -s https://get.nextflow.io | bash
    chmod +x nextflow
    pip install biopython

    #IPS
    #curl -O https://ftp.ebi.ac.uk/pub/software/unix/iprscan/5/5.72-103.0/interproscan-5.72-103.0-64-bit.tar.gz
    #tar -xzf interproscan-5.72-103.0-64-bit.tar.gz
    #rm interproscan-5.72-103.0-64-bit.tar.gz

%environment
    #export PATH=/opt:$PATH
    #echo 'PATH="/opt/interproscan-5.72-103.0:$PATH"' >> /etc/environment
    #export PATH=/opt/interproscan-5.72-103.0:/opt:$PATH

%runscript
    exec bash