From 3ff6ae824e98bf992b18b4d477bc6efa73beb421 Mon Sep 17 00:00:00 2001 From: John SJ Anderson Date: Mon, 5 Aug 2024 16:32:14 -0700 Subject: [PATCH] Update CDC anchors to current [#14] N.b., for the flu link, there are no longer anchors present in the page, so I removed it completely. Measles did still have an appropriate anchor to link to. --- .../creating-a-pathogen-repo/creating-an-ingest-workflow.rst | 2 +- 1 file changed, 1 insertion(+), 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 d909dfb2..6cad602b 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 @@ -414,7 +414,7 @@ If you write a custom script that follows the same pattern, you can add your scr curation pipeline before the final ``augur curate apply-record-annotations`` command. A typical pathogen-specific step for curation is the standardization of strain names since pathogens usually have different naming conventions -(e.g. `influenza `_ vs `measles `_). +(e.g. `influenza `_ vs `measles `_). For example, we've added a step in the curation pipeline to normalize the strain names for the `Zika ingest workflow `_. 1. We added a `custom Python script `_