Merge pull request #646 from prototaxites/fix_gtdb_dir_input

Fix GTDB-Tk directory input
nf-core · Aug 3, 2024 · a4adc3d · a4adc3d
2 parents 65c4fd8 + 5b9c4f1
commit a4adc3d
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -11,6 +11,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### `Fixed`
 
+- [#646](https://github.com/nf-core/mag/pull/646) - GTDB-Tk directory input now creates a value channel so it runs for all entries to the process and not just the first (by @prototaxites).
+
 ### `Dependencies`
 
 ### `Deprecated`

diff --git a/subworkflows/local/gtdbtk.nf b/subworkflows/local/gtdbtk.nf
@@ -74,8 +74,8 @@ workflow GTDBTK {
         gtdb_dir = gtdb.listFiles()
         ch_db_for_gtdbtk = Channel
                             .of(gtdb_dir)
-                            .map{['gtdb', it]}
-                            .groupTuple()
+                            .collect()
+                            .map { ["gtdb", it] }
     } else {
         error("Unsupported object given to --gtdb, database must be supplied as either a directory or a .tar.gz file!")
     }