refactor: Return PopPUNK create-db outputs (#166)

* refactor: Return PopPunk create-db output * docs: Add create-db to poppunk outputs
beiko-lab · Sep 20, 2023 · 339620c · 339620c
1 parent 758422f
commit 339620c
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diff --git a/conf/modules.config b/conf/modules.config
@@ -308,6 +308,14 @@ process {
         ]
     }
 
+    withName: POPPUNK_CREATEDB {
+        publishDir = [
+            path: { "${params.outdir}/poppunk_results" },
+            mode: params.publish_dir_mode,
+            saveAs: { filename -> filename.equals('versions.yml') ? null : filename }
+        ]
+    }
+
     withName: POPPUNK_FITMODEL {
         publishDir = [
             path: { "${params.outdir}/poppunk_results" },

diff --git a/docs/output.md b/docs/output.md
@@ -231,6 +231,7 @@ See the [PhiSpy documentation](https://github.com/linsalrob/PhiSpy#output-files)
 
 - `poppunk_results/`
 
+      - `poppunk_db/` - Results from PopPUNK's create-db command
       - `poppunk_${poppunk_model}/` - Results from PopPUNK's fit-model command
       - `poppunk_visualizations/` - Results from the poppunk_visualise command