Merge pull request nf-core#318 from ziadbkh/dev

remove unused input for mmseq

Author: JoseEspinosa

main.nf

@@ -456,7 +456,6 @@ workflow NFCORE_PROTEINFOLD {
             ch_versions,
             PREPARE_BOLTZ_DBS.out.boltz_ccd,
             PREPARE_BOLTZ_DBS.out.boltz_model,
-            PREPARE_COLABFOLD_DBS.out.params,
             PREPARE_COLABFOLD_DBS.out.colabfold_db,
             PREPARE_COLABFOLD_DBS.out.uniref30,
             params.boltz_use_msa_server

modules/local/mmseqs_colabfoldsearch/main.nf

@@ -6,7 +6,6 @@ process MMSEQS_COLABFOLDSEARCH {
 
     input:
     tuple val(meta), path(fasta)
-    path ('db/params')
     path colabfold_db
     path uniref30
 
@@ -26,6 +25,7 @@ process MMSEQS_COLABFOLDSEARCH {
     def VERSION = '1.5.2' // WARN: Version information not provided by tool on CLI. Please update this string when bumping container versions.
 
     """
+    mkdir ./db
     ln -r -s $uniref30/uniref30_* ./db
     ln -r -s $colabfold_db/colabfold_envdb* ./db
 

workflows/boltz.nf

@@ -48,7 +48,6 @@ workflow BOLTZ {
     ch_versions     // channel: [ path(versions.yml) ]
     ch_boltz_ccd    // channel: [ path(boltz_ccd) ]
     ch_boltz_model  // channel: [ path(model) ]
-    ch_colabfold_params // channel: [ path(colabfold_params) ]
     ch_colabfold_db // channel: [ path(colabfold_db) ]
     ch_uniref30     // channel: [ path(uniref30) ]
     msa_server
@@ -76,7 +75,6 @@ workflow BOLTZ {
 
         MMSEQS_COLABFOLDSEARCH (
                 ch_input.monomer.mix(MULTIFASTA_TO_CSV.out.input_csv),
-                ch_colabfold_params,
                 ch_colabfold_db,
                 ch_uniref30
         )

workflows/colabfold.nf

@@ -78,15 +78,13 @@ workflow COLABFOLD {
             ch_versions = ch_versions.mix(MULTIFASTA_TO_CSV.out.versions)
             MMSEQS_COLABFOLDSEARCH (
                 MULTIFASTA_TO_CSV.out.input_csv,
-                ch_colabfold_params,
                 ch_colabfold_db,
                 ch_uniref30
             )
             ch_versions = ch_versions.mix(MMSEQS_COLABFOLDSEARCH.out.versions)
         } else {
             MMSEQS_COLABFOLDSEARCH (
                 ch_samplesheet,
-                ch_colabfold_params,
                 ch_colabfold_db,
                 ch_uniref30
             )