From 3acadf5810c2c16f761dcb3cf7acbfb74174c203 Mon Sep 17 00:00:00 2001 From: Jover Lee Date: Mon, 15 Apr 2024 16:59:23 -0700 Subject: [PATCH] phylogenetic: Add root-sequence.json to rule `all` Explicitly state that the root-sequence.json file is an expected output of the core phylogenetic workflow. This also ensures that the Nextstrain automation rule `deploy_all` will include the root-sequence.json in the upload. --- phylogenetic/Snakefile | 1 + 1 file changed, 1 insertion(+) diff --git a/phylogenetic/Snakefile b/phylogenetic/Snakefile index d1697fd..23653ec 100644 --- a/phylogenetic/Snakefile +++ b/phylogenetic/Snakefile @@ -3,6 +3,7 @@ configfile: "defaults/config_zika.yaml" rule all: input: auspice_json = "auspice/zika.json", + root_sequence = "auspice/zika_root-sequence.json" include: "rules/prepare_sequences.smk" include: "rules/merge_sequences_usvi.smk"