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@@ -19,3 +19,4 @@ test_rna_size_factors.ipynb | |
tests/data/* | ||
pytestdebug.log | ||
sps* | ||
seqnado.sif |
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BootStrap: docker | ||
From: mambaorg/micromamba:bookworm | ||
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%post | ||
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# Pre set up | ||
cd /opt/ | ||
apt update | ||
apt install -y curl gcc git cmake make wget | ||
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# Install singularity | ||
wget https://github.com/apptainer/apptainer/releases/download/v1.3.3/apptainer_1.3.3_amd64.deb | ||
apt install -y ./apptainer_1.3.3_amd64.deb | ||
apptainer remote add --no-login SylabsCloud cloud.sylabs.io | ||
apptainer remote use SylabsCloud | ||
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# Mamba packages | ||
#micromamba install -y -n base -f /opt/environment.yml | ||
micromamba install -y -n base -c conda-forge python pip | ||
export PATH="/opt/conda/bin:$PATH" | ||
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# Install Seqnado | ||
git clone https://github.com/alsmith151/SeqNado.git | ||
cd SeqNado | ||
/opt/conda/bin/python -m pip install . | ||
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# Clean | ||
#curl gcc git cmake make libtool g++ pkgconfig openssl-dev linux-headers | ||
micromamba clean -afy | ||
/opt/conda/bin/python -m pip cache purge | ||
find /opt/conda/ -follow -type f -name '*.a' -delete | ||
find /opt/conda/ -follow -type f -name '*.pyc' -delete | ||
find /opt/conda/ -follow -type f -name '*.js.map' -delete | ||
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%environment | ||
export PATH=/opt/conda/bin:$PATH |
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