From b45b7b944ff7d17c5a2d867978ba49cc923f2b3b Mon Sep 17 00:00:00 2001 From: Jennifer Chang Date: Tue, 12 Mar 2024 15:23:11 -0700 Subject: [PATCH] Update upload docs Since "defaults/config.yaml" is always loaded by default, update the upload instructions Co-authored-by: Jover Lee --- ingest/README.md | 7 ++++++- 1 file changed, 6 insertions(+), 1 deletion(-) diff --git a/ingest/README.md b/ingest/README.md index 0e8ad81..51c86be 100644 --- a/ingest/README.md +++ b/ingest/README.md @@ -31,7 +31,12 @@ This will produce two files (within the `ingest` directory): Run the complete ingest pipeline and upload results to AWS S3 with ```sh -nextstrain build . --configfiles defaults/config.yaml build-defaults/nextstrain-automation/config.yaml +nextstrain build \ + --env AWS_ACCESS_KEY_ID \ + --env AWS_SECRET_ACCESS_KEY \ + . \ + upload_all \ + --configfile build-configs/nextstrain-automation/config.yaml ``` ### Adding new sequences not from GenBank