Add fall back on SRA if ENA fails

.gitignore

@@ -1,2 +1,3 @@
 *.fastq.gz
 *.json
+.idea

Dockerfile

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+# Lots of help from the following blog posts:
+# https://jcristharif.com/conda-docker-tips.html
+# https://opensourcelibs.com/lib/micromamba-docker
+# https://uwekorn.com/2021/03/01/deploying-conda-environments-in-docker-how-to-do-it-right.html
+FROM mambaorg/micromamba:0.23.3
+
+ENV PYTHONDONTWRITEBYTECODE=true
+
+COPY --chown=$MAMBA_USER:$MAMBA_USER environment.yml /tmp/env.yml
+
+RUN micromamba install -y --freeze-installed -n base -f /tmp/env.yml \
+    && micromamba clean -afy \
+    && 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
+
+COPY --chown=$MAMBA_USER:$MAMBA_USER fastq-dl.py /bin/fastq-dl
+ENV PATH "$MAMBA_ROOT_PREFIX/bin:$PATH"

environment.yml

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+channels:
+  - conda-forge
+  - bioconda
+dependencies:
+  - pigz
+  - executor
+  - python >=3.6
+  - sra-tools >=2.9
+  - wget
+  - requests