Removed cache_merge_component pipeline function.

This function was used by the URB project, no longer required.
mgcam · Feb 1, 2024 · 0f79fd8 · 0f79fd8
1 parent e61386e
commit 0f79fd8
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diff --git a/MANIFEST b/MANIFEST
@@ -38,7 +38,6 @@ lib/npg_pipeline/function/autoqc.pm
 lib/npg_pipeline/function/autoqc/generic.pm
 lib/npg_pipeline/function/autoqc_archiver.pm
 lib/npg_pipeline/function/bqsr_calc.pm
-lib/npg_pipeline/function/cache_merge_component.pm
 lib/npg_pipeline/function/cluster_count.pm
 lib/npg_pipeline/function/current_analysis_link.pm
 lib/npg_pipeline/function/definition.pm
@@ -104,7 +103,6 @@ t/20-function-autoqc.t
 t/20-function-autoqc-generic.t
 t/20-function-autoqc_archiver.t
 t/20-function-bqsr_calc.t
-t/20-function-cache_merge_component.t
 t/20-function-cluster_count.t
 t/20-function-current_analysis_link.t
 t/20-function-definition.t

diff --git a/data/config_files/function_list_post_qc_review.json b/data/config_files/function_list_post_qc_review.json
@@ -26,11 +26,6 @@
                 "source": "update_ml_warehouse",
                 "target": "archive_to_s3"
             },
-            {
-                "relation": "dependsOn",
-                "source": "update_ml_warehouse",
-                "target": "cache_merge_component"
-            },
             {
                 "relation": "dependsOn",
                 "source": "archive_run_data_to_irods",
@@ -56,11 +51,6 @@
                 "source": "archive_irods_locations_to_ml_warehouse",
                 "target": "run_run_archived"
             },
-            {
-                "relation": "dependsOn",
-                "source": "cache_merge_component",
-                "target": "run_run_archived"
-            },
             {
                 "relation": "dependsOn",
                 "source": "run_run_archived",
@@ -204,14 +194,6 @@
                     "resources": {}
                 }
             },
-            {
-                "id": "cache_merge_component",
-                "label": "cache_merge_component",
-                "metadata": {
-                    "description": "Cached products that are due for a top-up in a directory outside the run folder (if configured)",
-                    "resources": {}
-                }
-            },
             {
                 "id": "upload_auto_qc_to_qc_database",
                 "label": "upload_auto_qc_to_qc_database",

diff --git a/lib/npg_pipeline/base/options.pm b/lib/npg_pipeline/base/options.pm
@@ -62,20 +62,6 @@ sub _default_to_local {
   return $self->local;
 }
 
-=head2 no_cache_merge_component
-
-Switches off caching of data products suitable for later merging
-
-=cut
-
-has q{no_cache_merge_component} => (
-  isa           => q{Bool},
-  is            => q{ro},
-  lazy          => 1,
-  builder       => '_default_to_local',
-  documentation => q{Switches off caching of data products suitable for later merging.},
-);
-
 =head2 no_s3_archival
 
 Switches off archival to s3.

diff --git a/lib/npg_pipeline/function/cache_merge_component.pm b/lib/npg_pipeline/function/cache_merge_component.pm
diff --git a/lib/npg_pipeline/pluggable/registry.pm b/lib/npg_pipeline/pluggable/registry.pm
@@ -58,7 +58,6 @@ Readonly::Hash my %REGISTRY => (
   'bam_cluster_counter_check'=> {'cluster_count' => 'create'},
   'seqchksum_comparator'     => {'seqchksum_comparator' => 'create'},
   'archive_to_s3'            => {'s3_archiver' => 'create'},
-  'cache_merge_component'    => {'cache_merge_component' => 'create'},
 
   'archive_to_irods_samplesheet' => {'seq_to_irods_archiver' =>
      {method => 'create', lims_driver_type =>'samplesheet'}},