zip outputs recursive (#348)

* zip outputs recursive * update manifest
chanzuckerberg · Apr 17, 2024 · 7e6d8a4 · 7e6d8a4
1 parent 79a4f29
commit 7e6d8a4
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diff --git a/workflows/bulk-download/manifest.yml b/workflows/bulk-download/manifest.yml
@@ -31,6 +31,7 @@ input_loaders:
       bulk_download_type: ~
     outputs:
       files: ~
+      concatenated_output_name: ~
   - name: passthrough
     version: ">=0.0.1"
     inputs:

diff --git a/workflows/bulk-download/run.wdl b/workflows/bulk-download/run.wdl
@@ -92,7 +92,7 @@ task zip {
             mkdir zip_folders
             for f in ~{sep=" " files}; do unzip "$f" -d zip_folders/$(basename "${f%.zip}"); done
             cd zip_folders
-            zip ../result.zip *
+            zip -r ../result.zip *
         else
             zip --junk-paths result.zip ~{sep=" " files}
         fi