From 13bcd8a16130446d7d5438693b24569c665f3310 Mon Sep 17 00:00:00 2001
From: Jover Lee <joverlee521@gmail.com>
Date: Thu, 10 Oct 2024 10:59:58 -0700
Subject: [PATCH] ingest/automation: Update S3 URLs to uppercase

Automated uploads of files have been failing because of mismatch in
casing. Update all S3 URLs to match expected uppercase since change in
https://github.com/nextstrain/infra/pull/31.
---
 .github/workflows/ingest-to-phylogenetic.yaml          | 4 ++--
 .github/workflows/ingest.yaml                          | 6 +++---
 .github/workflows/phylogenetic.yaml                    | 6 +++---
 ingest/build-configs/nextstrain-automation/config.yaml | 2 +-
 phylogenetic/defaults/config.yaml                      | 4 ++--
 5 files changed, 11 insertions(+), 11 deletions(-)

diff --git a/.github/workflows/ingest-to-phylogenetic.yaml b/.github/workflows/ingest-to-phylogenetic.yaml
index bd4e298..9254c13 100644
--- a/.github/workflows/ingest-to-phylogenetic.yaml
+++ b/.github/workflows/ingest-to-phylogenetic.yaml
@@ -65,8 +65,8 @@ jobs:
           AWS_DEFAULT_REGION: ${{ vars.AWS_DEFAULT_REGION }}
         run: |
           s3_urls=(
-            "s3://nextstrain-data/files/workflows/wnv/all/metadata.tsv.zst"
-            "s3://nextstrain-data/files/workflows/wnv/all/sequences.fasta.zst"
+            "s3://nextstrain-data/files/workflows/WNV/all/metadata.tsv.zst"
+            "s3://nextstrain-data/files/workflows/WNV/all/sequences.fasta.zst"
           )
 
           # Code below is modified from ingest/upload-to-s3
diff --git a/.github/workflows/ingest.yaml b/.github/workflows/ingest.yaml
index 98d6c12..e9be895 100644
--- a/.github/workflows/ingest.yaml
+++ b/.github/workflows/ingest.yaml
@@ -26,8 +26,8 @@ on:
       trial_name:
         description: |
           Trial name for outputs.
-          If not set, outputs will overwrite files at s3://nextstrain-data/files/workflows/wnv/
-          If set, outputs will be uploaded to s3://nextstrain-data/files/workflows/wnv/trials/<trial_name>/
+          If not set, outputs will overwrite files at s3://nextstrain-data/files/workflows/WNV/
+          If set, outputs will be uploaded to s3://nextstrain-data/files/workflows/WNV/trials/<trial_name>/
         required: false
         type: string
 
@@ -43,7 +43,7 @@ jobs:
           config=""
           if [[ "$TRIAL_NAME" ]]; then
             config+="--config"
-            config+=" s3_dst='s3://nextstrain-data/files/workflows/wnv/trials/"$TRIAL_NAME"'"
+            config+=" s3_dst='s3://nextstrain-data/files/workflows/WNV/trials/"$TRIAL_NAME"'"
           fi
 
           echo "config=$config" >> "$GITHUB_OUTPUT"
diff --git a/.github/workflows/phylogenetic.yaml b/.github/workflows/phylogenetic.yaml
index 0f51220..fd57349 100644
--- a/.github/workflows/phylogenetic.yaml
+++ b/.github/workflows/phylogenetic.yaml
@@ -26,8 +26,8 @@ on:
       trial_name:
         description: |
           Trial name for deploying builds.
-          If not set, builds will overwrite existing builds at s3://nextstrain-data/wnv*
-          If set, builds will be deployed to s3://nextstrain-staging/wnv_trials_<trial_name>_*
+          If not set, builds will overwrite existing builds at s3://nextstrain-data/WNV*
+          If set, builds will be deployed to s3://nextstrain-staging/WNV_trials_<trial_name>_*
         required: false
         type: string
       sequences_url:
@@ -57,7 +57,7 @@ jobs:
           config=""
 
           if [[ "$TRIAL_NAME" ]]; then
-            config+=" deploy_url='s3://nextstrain-staging/wnv_trials_"$TRIAL_NAME"_'"
+            config+=" deploy_url='s3://nextstrain-staging/WNV_trials_"$TRIAL_NAME"_'"
           fi
 
           if [[ "$SEQUENCES_URL" ]]; then
diff --git a/ingest/build-configs/nextstrain-automation/config.yaml b/ingest/build-configs/nextstrain-automation/config.yaml
index 3520dac..a7f68b7 100644
--- a/ingest/build-configs/nextstrain-automation/config.yaml
+++ b/ingest/build-configs/nextstrain-automation/config.yaml
@@ -12,7 +12,7 @@ cloudfront_domain: "data.nextstrain.org"
 
 # Nextstrain AWS S3 Bucket with pathogen prefix
 # Replace <pathogen> with the pathogen repo name.
-s3_dst: "s3://nextstrain-data/files/workflows/wnv"
+s3_dst: "s3://nextstrain-data/files/workflows/WNV"
 
 # Mapping of files to upload
 files_to_upload:
diff --git a/phylogenetic/defaults/config.yaml b/phylogenetic/defaults/config.yaml
index 78f9b72..8330df5 100644
--- a/phylogenetic/defaults/config.yaml
+++ b/phylogenetic/defaults/config.yaml
@@ -7,8 +7,8 @@ root: "AF481864"
 
 # Sequences must be FASTA and metadata must be TSV
 # Both files must be zstd compressed
-sequences_url: "https://data.nextstrain.org/files/workflows/wnv/sequences.fasta.zst"
-metadata_url: "https://data.nextstrain.org/files/workflows/wnv/metadata.tsv.zst"
+sequences_url: "https://data.nextstrain.org/files/workflows/WNV/sequences.fasta.zst"
+metadata_url: "https://data.nextstrain.org/files/workflows/WNV/metadata.tsv.zst"
 
 # Pull in metadata and sequences from the ingest workflow
 input_metadata: "data/metadata.tsv"