Using realpath so we don't have to pass the bam around like a wally

sanger-tol · Nov 28, 2024 · 3d24a42 · 3d24a42
1 parent 5dd28da
commit 3d24a42
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/modules/local/generate_samplesheet.nf b/modules/local/generate_samplesheet.nf
@@ -20,7 +20,7 @@ process GENERATE_SAMPLESHEET {
     """
     generate_samplesheet.py \\
         $prefix \\
-        $pacbio_path
+        "\$(realpath $pacbio_path)"
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":