Add FastQE (#103)

* Add FastQE Dockerfile * Add FastQE version to images.toml * linting issue fixed * making fastqe image slim * Add FastQE Dockerfile * Add FastQE version to images.toml * linting issue fixed * making fastqe image slim * linting --------- Co-authored-by: Michael Franklin <illusional@users.noreply.github.com>
populationgenomics · Dec 4, 2023 · 892f7a4 · 892f7a4
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diff --git a/images.toml b/images.toml
@@ -7,6 +7,7 @@ dragmap = '1.3.0-tokenizer-next-fix'
 expansionhunter = '5.0.0'
 expansionhunter_bw2 = 'b85cba004fba4e0223e632fae576bc7fad0da804'
 fastp = '0.23.4'
+fastqe = '0.3.1'
 fastqc = '0.11.9'
 gatk = '4.2.6.1'
 hap-py = '0.3.15'

diff --git a/images/fastqe/Dockerfile b/images/fastqe/Dockerfile
@@ -0,0 +1,4 @@
+FROM python:3.10-slim
+
+ARG VERSION=${VERSION:-0.3.1}
+RUN pip install fastqe==${VERSION}