From f08a9cd5389ade482166a81e7f6ddbba8da1c9f1 Mon Sep 17 00:00:00 2001
From: jemten <jemten@users.noreply.github.com>
Date: Tue, 11 Nov 2025 17:58:46 +0100
Subject: [PATCH] adding dv report to deliverables

---
 CHANGELOG.md                            |  4 ++++
 lib/MIP/Constants.pm                    |  2 +-
 lib/MIP/Recipes/Analysis/Deepvariant.pm | 14 ++++++++++++--
 templates/mip_install_config.yaml       |  2 +-
 4 files changed, 18 insertions(+), 4 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 87ccc785a..9482a02d9 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,6 +3,10 @@
 All notable changes to this project will be documented in this file.
 This project adheres to [Semantic Versioning](http://semver.org/).
 
+## [12.1.1]
+
+- Write Deepvariant report html file to deliverables
+
 ## [12.1.0]
 
 - Adds optional trimming of reads with Fastp for the DNA workflow, turned on by default
diff --git a/lib/MIP/Constants.pm b/lib/MIP/Constants.pm
index 93b0bc2dd..24d104c04 100644
--- a/lib/MIP/Constants.pm
+++ b/lib/MIP/Constants.pm
@@ -82,7 +82,7 @@ Readonly our %ANALYSIS => (
 );
 
 ## Set MIP version
-Readonly our $MIP_VERSION => q{12.1.0};
+Readonly our $MIP_VERSION => q{12.1.1};
 
 ## Cli
 Readonly our $MOOSEX_APP_SCEEN_WIDTH => 160;
diff --git a/lib/MIP/Recipes/Analysis/Deepvariant.pm b/lib/MIP/Recipes/Analysis/Deepvariant.pm
index 7229bda4c..aef772a91 100644
--- a/lib/MIP/Recipes/Analysis/Deepvariant.pm
+++ b/lib/MIP/Recipes/Analysis/Deepvariant.pm
@@ -16,7 +16,7 @@ use autodie qw{ :all };
 use Readonly;
 
 ## MIPs lib/
-use MIP::Constants qw{ $CONTAINER_MANAGER $EQUALS $LOG_NAME $NEWLINE $SPACE $UNDERSCORE };
+use MIP::Constants qw{ $CONTAINER_MANAGER $DOT $EQUALS $LOG_NAME $NEWLINE $SPACE $UNDERSCORE };
 
 BEGIN {
 
@@ -124,7 +124,7 @@ sub analysis_deepvariant {
     use MIP::Program::Gnu::Bash qw{ gnu_export };
     use MIP::Program::Deepvariant qw{ deepvariant };
     use MIP::Recipe qw{ parse_recipe_prerequisites };
-    use MIP::Sample_info qw{ set_recipe_metafile_in_sample_info set_recipe_outfile_in_sample_info };
+    use MIP::Sample_info qw{ set_file_path_to_store set_recipe_metafile_in_sample_info set_recipe_outfile_in_sample_info };
     use MIP::Script::Setup_script qw{ setup_script };
 
     ### PREPROCESSING:
@@ -239,6 +239,16 @@ sub analysis_deepvariant {
             }
         );
 
+        set_file_path_to_store(
+            {
+                format           => q{meta},
+                id               => $sample_id,
+                path             => $outfile_path_prefix . $DOT . q{visual_report.html},
+                recipe_name      => $recipe_name,
+                sample_info_href => $sample_info_href,
+            }
+        );
+
         submit_recipe(
             {
                 base_command                      => $profile_base_command,
diff --git a/templates/mip_install_config.yaml b/templates/mip_install_config.yaml
index 20c723f33..b67cb660d 100644
--- a/templates/mip_install_config.yaml
+++ b/templates/mip_install_config.yaml
@@ -129,7 +129,7 @@ container:
   mip:
     executable:
       mip:
-    uri: docker.io/clinicalgenomics/mip:v12.1.0
+    uri: docker.io/clinicalgenomics/mip:v12.1.1
   multiqc:
     executable:
       multiqc: