From f021e762f2bdab67f081658c7bb044bc77c5887b Mon Sep 17 00:00:00 2001 From: Jover Lee Date: Fri, 29 Mar 2024 13:53:58 -0700 Subject: [PATCH] ingest tutorials: Update "Next steps" Include our intention to write phylogenetic tutorials --- .../creating-a-pathogen-repo/creating-an-ingest-workflow.rst | 3 ++- .../using-a-pathogen-repo/running-an-ingest-workflow.rst | 3 +++ 2 files changed, 5 insertions(+), 1 deletion(-) diff --git a/src/tutorials/creating-a-pathogen-repo/creating-an-ingest-workflow.rst b/src/tutorials/creating-a-pathogen-repo/creating-an-ingest-workflow.rst index 2deb50cf..8b6ca5c8 100644 --- a/src/tutorials/creating-a-pathogen-repo/creating-an-ingest-workflow.rst +++ b/src/tutorials/creating-a-pathogen-repo/creating-an-ingest-workflow.rst @@ -466,4 +466,5 @@ Next steps ========== * Learn more about :doc:`augur curate commands ` -* Learn how to create a phylogenetic workflow (TKTK) +* We are planning to write another detailed tutorial for creating a phylogenetic workflow, + but until that is ready you can follow the :doc:`simple phylogenetic workflow tutorial <../creating-a-phylogenetic-workflow>`. diff --git a/src/tutorials/using-a-pathogen-repo/running-an-ingest-workflow.rst b/src/tutorials/using-a-pathogen-repo/running-an-ingest-workflow.rst index 29a1c06f..f050d556 100644 --- a/src/tutorials/using-a-pathogen-repo/running-an-ingest-workflow.rst +++ b/src/tutorials/using-a-pathogen-repo/running-an-ingest-workflow.rst @@ -294,4 +294,7 @@ Next steps $ mv ingest/results/* phylogenetic/data/ $ nextstrain build phylogenetic + If you've customized the ingest workflow then you may need to modify the phylogenetic workflow to use the new ingested data file. + We are planning to write another tutorial to cover other modifications to your phylogenetic workflow. + * :doc:`Learn how to create an ingest workflow `