Stage mmcif folder instead of file by file

Author: JoseEspinosa

conf/dbs.config

@@ -47,7 +47,7 @@ params {
     alphafold3_small_bfd_path  = "${params.alphafold3_db}/small_bfd/*"
     alphafold3_params_path     = "${params.alphafold3_db}/params/*"
     alphafold3_mgnify_path     = "${params.alphafold3_db}/mgnify/*"
-    alphafold3_pdb_mmcif_path  = "${params.alphafold3_db}/mmcif_files/*"
+    alphafold3_pdb_mmcif_path  = "${params.alphafold3_db}/mmcif_files"
     alphafold3_uniref90_path   = "${params.alphafold3_db}/uniref90/*"
     alphafold3_pdb_seqres_path = "${params.alphafold3_db}/pdb_seqres/*"
     alphafold3_uniprot_path    = "${params.alphafold3_db}/uniprot/*"

modules/local/run_alphafold3/main.nf

@@ -13,7 +13,7 @@ process RUN_ALPHAFOLD3 {
     path "params/*"
     path "small_bfd/*"
     path "mgnify/*"
-    path "mmcif_files/*"
+    path "mmcif_files"
     path "uniref90/*"
     path "pdb_seqres/*"
     path "uniprot/*"