pass through biosample_attributes if it was non empty

dpark01 · dpark01 · commit 1f49bd691873 · 2021-08-17T20:40:04.000-04:00
diff --git a/pipes/WDL/workflows/sarscov2_illumina_full.wdl b/pipes/WDL/workflows/sarscov2_illumina_full.wdl
@@ -512,7 +512,7 @@ workflow sarscov2_illumina_full {
         File?         sequencing_reports           = sequencing_report.all_zip
 
         File?         id_map_tsv                   = sarscov2_biosample_load.id_map_tsv
-        File?         biosample_attributes_out     = sarscov2_biosample_load.biosample_attributes
+        Array[File]   biosample_attributes_out     = select_all(flatten([[sarscov2_biosample_load.biosample_attributes], biosample_attributes]))
         
         Array[String] data_tables_out              = select_first([data_tables.tables, []])
     }

Original file line number	Diff line number	Diff line change
`@@ -512,7 +512,7 @@ workflow sarscov2_illumina_full {`
`512`	`512`	`File? sequencing_reports = sequencing_report.all_zip`
`513`	`513`
`514`	`514`	`File? id_map_tsv = sarscov2_biosample_load.id_map_tsv`
`515`		`- File? biosample_attributes_out = sarscov2_biosample_load.biosample_attributes`
	`515`	`+ Array[File] biosample_attributes_out = select_all(flatten([[sarscov2_biosample_load.biosample_attributes], biosample_attributes]))`
`516`	`516`
`517`	`517`	`Array[String] data_tables_out = select_first([data_tables.tables, []])`
`518`	`518`	`}`