diff --git a/geo-importer/image_tag b/geo-importer/image_tag new file mode 100644 index 0000000..778fc88 --- /dev/null +++ b/geo-importer/image_tag @@ -0,0 +1 @@ +geo-importer-base:1.0 diff --git a/geo-importer/post_install_dockerfile b/geo-importer/post_install_dockerfile new file mode 100644 index 0000000..48c9f26 --- /dev/null +++ b/geo-importer/post_install_dockerfile @@ -0,0 +1,3 @@ +ARG MAMBA_DOCKERFILE_ACTIVATE=1 +RUN sed -i '/ProxyAny/d' /opt/conda/atlasprod/perl_modules/EBI/FGPT/Converter/GEO/GeoExperiment.pm + diff --git a/geo-importer/templated-conda-env.yaml b/geo-importer/templated-conda-env.yaml new file mode 100644 index 0000000..5189e67 --- /dev/null +++ b/geo-importer/templated-conda-env.yaml @@ -0,0 +1,13 @@ +name: base +channels: + - conda-forge + - bioconda + - ebi-gene-expression-group +dependencies: + - perl-atlas-modules==0.3.1 + - magetab-curation-scripts + - perl-capture-tiny + - perl-config-tiny + - perl-xml-parser + - pandas + - requests