Add build-configs for automation

nextstrain · Dec 16, 2024 · a9b09a1 · a9b09a1
1 parent 865788a
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diff --git a/phylogenetic/build-configs/nextstrain-automation/config.yaml b/phylogenetic/build-configs/nextstrain-automation/config.yaml
@@ -0,0 +1,4 @@
+custom_rules:
+  - build-configs/nextstrain-automation/deploy.smk
+
+deploy_url: "s3://nextstrain-data"
diff --git a/phylogenetic/build-configs/nextstrain-automation/deploy.smk b/phylogenetic/build-configs/nextstrain-automation/deploy.smk
@@ -0,0 +1,15 @@
+"""
+This part of the workflow handles automatic deployments of the measles build.
+Uploads the build defined as the default output of the workflow through
+the `all` rule from Snakefille
+"""
+
+rule deploy_all:
+    input: *rules.all.input
+    output: touch("results/deploy_all.done")
+    params:
+        deploy_url = config["deploy_url"]
+    shell:
+        """
+        nextstrain remote upload {params.deploy_url} {input}
+        """