diff --git a/conf/modules.config b/conf/modules.config
index f85df30..d9e9125 100644
--- a/conf/modules.config
+++ b/conf/modules.config
@@ -226,7 +226,7 @@ process {
             pattern: '*.txt'
         ]
         ext.args = { "${meta.db_params}" }
-        ext.prefix = { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
+        ext.prefix = params.perform_runmerging ? { "${meta.id}-${meta.db_name}" } : { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
     }
 
     withName: CUSTOM_DUMPSOFTWAREVERSIONS {
@@ -252,6 +252,6 @@ process {
             pattern: '*.tsv'
         ]
         ext.args = { "${meta.db_params}" }
-        ext.prefix = { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
+        ext.prefix = params.perform_runmerging ? { "${meta.id}-${meta.db_name}" } : { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
     }
 }
diff --git a/conf/test.config b/conf/test.config
index 884ff32..107beb5 100644
--- a/conf/test.config
+++ b/conf/test.config
@@ -24,14 +24,14 @@ params {
     // TODO nf-core: Give any required params for the test so that command line flags are not needed
     input                                 = 'https://raw.githubusercontent.com/nf-core/test-datasets/taxprofiler/samplesheet.csv'
     databases                             = 'https://raw.githubusercontent.com/nf-core/test-datasets/taxprofiler/database.csv'
-    run_kraken2                           = true
-    run_malt                              = true
-    run_metaphlan3                        = true
-    run_centrifuge                        = true
     perform_shortread_clipmerge           = true
     perform_longread_clip                 = false
     perform_shortread_complexityfilter    = true
     perform_shortread_hostremoval         = true
     shortread_hostremoval_reference       = 'https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/genomics/homo_sapiens/genome/genome.fasta'
     run_kaiju                             = true
+    run_kraken2                           = true
+    run_malt                              = true
+    run_metaphlan3                        = true
+    run_centrifuge                        = true
 }
diff --git a/docs/usage.md b/docs/usage.md
index 239a55d..2b6937b 100644
--- a/docs/usage.md
+++ b/docs/usage.md
@@ -86,6 +86,11 @@ Column specifications are as follows:
 
 > 💡 You can also specify the same database directory/file twice (ensuring unique `db_name`s) and specify different parameters for each database to compare the effect of different parameters during profiling.
 
+## Profilers
+
+- `kaiju`
+  - The file `nodes.dmp` must be inside the database directory that is specified to `--databases` file
+
 ## Running the pipeline
 
 The typical command for running the pipeline is as follows: