Commit 246171da authored by Alexander, William's avatar Alexander, William
Browse files

Update 12 files 

- /docker/.gitkeep
- /scripts/diagnostic.py
- /scripts/motif.py
- /scripts/preprocess.py
- /scripts/query.py
- /requirements.txt
- /scripts/diagnostic
- /scripts/motif
- /scripts/preprocess
- /scripts/query
- /scripts/setupScript
- /dockerfile
parent 2d6361ca

docker/.gitkeep

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dockerfile

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# syntax=docker/dockerfile:1



FROM ubuntu:22.04

WORKDIR /home

COPY scripts/* /usr/local/bin

COPY testData/ /home/testData

ENV OMPI_ALLOW_RUN_AS_ROOT=1

ENV OMPI_ALLOW_RUN_AS_ROOT_CONFIRM=1

ENV OMPI_MCA_rmaps_base_oversubscribe=1

ENV HOME=/home

RUN chmod u+x /usr/local/bin/* 

RUN apt update 

RUN apt upgrade -y

RUN apt install -y nano wget

requirements.txt

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In your path

meme==5.5.5 (from www.meme-suite.org, not the funny internet picture maker)

modkit==0.3.1

minimap2==2.24-r1122

samtools==1.13

python==3.10.12



Python packages

pandas==2.2.2

biopython==1.84

xmltodict==0.13.0
 
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scripts/diagnostic.py→scripts/diagnostic

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scripts/motif.py→scripts/motif

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