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impute-gene-expression
impute-gene-expression
Commit bb621e28 authored by Kevin Kunzmann's avatar Kevin Kunzmann
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parent 6716970d
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View file @ bb621e28
...@@ -2,7 +2,14 @@ singularity: "library://kkmann/default/center-grex-imputation:latest" ...@@ -2,7 +2,14 @@ singularity: "library://kkmann/default/center-grex-imputation:latest"
configfile: "config/parameters.yml" configfile: "config/parameters.yml"
localrules: data localrules: container, data
# download container
rule container:
shell:
"""
echo done.
"""
# download vcf files using gsutil (needs to be set up and configured!) and # download vcf files using gsutil (needs to be set up and configured!) and
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scripts/singularity.def
View file @ bb621e28
...@@ -45,7 +45,7 @@ From: rocker/verse:3.6.2 ...@@ -45,7 +45,7 @@ From: rocker/verse:3.6.2
chmod +x /usr/bin/predixcan chmod +x /usr/bin/predixcan
pip3 install \ pip3 install \
numpy==1.18.1 scipy==1.4.1 pandas==1.0.1 mock==4.0.1 sqlalchemy==1.3.13 \ numpy==1.18.1 scipy==1.4.1 pandas==1.0.1 mock==4.0.1 sqlalchemy==1.3.13 \
patsy==0.5.1 statsmodels==0.11.1 h5py==2.10.0 h5py-cache=1.0.1 patsy==0.5.1 statsmodels==0.11.1 h5py==2.10.0 h5py-cache==1.0.1
# download, extract and store weights # download, extract and store weights
apt-get -y install wget apt-get -y install wget
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