From 12826112ebc344a815ad4637bb5d8e53e9d432ee Mon Sep 17 00:00:00 2001
From: "renovate[bot]" <29139614+renovate[bot]@users.noreply.github.com>
Date: Fri, 15 Nov 2024 14:14:49 +0000
Subject: [PATCH 1/3] chore(deps): update dotnet monorepo to v9

---
 modules/nf-core/wittyer/Dockerfile | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/modules/nf-core/wittyer/Dockerfile b/modules/nf-core/wittyer/Dockerfile
index fbf732f32bd..ddf7658d354 100644
--- a/modules/nf-core/wittyer/Dockerfile
+++ b/modules/nf-core/wittyer/Dockerfile
@@ -1,4 +1,4 @@
-FROM mcr.microsoft.com/dotnet/sdk:6.0@sha256:6df1177e48b55272316d08f19cb383483af82aca5cdc67a76c414bc200847624 as builder
+FROM mcr.microsoft.com/dotnet/sdk:9.0@sha256:7d24e90a392e88eb56093e4eb325ff883ad609382a55d42f17fd557b997022ca as builder
 
 WORKDIR /src
 COPY . /src
@@ -6,7 +6,7 @@ RUN cd Wittyer \
     && dotnet publish -f net6.0 -r linux-x64 -c Release -o /output \
     && chmod +x /output/Wittyer
 
-FROM mcr.microsoft.com/dotnet/runtime:6.0@sha256:437cda84bdce26ce074d88b63abeec567c7226d73e8b911605077468e1d5c8d5
+FROM mcr.microsoft.com/dotnet/runtime:9.0@sha256:1e5eb0ed94ca96a34a914456db80e48bd1bb7bc3e3c8eda5e2c3d89c153c3081
 
 LABEL git_repository=https://git.illumina.com/DASTE/Ilmn.Das.App.Wittyer.git
 WORKDIR /opt/Wittyer

From a83fd348ab5609d411dd77f5c4833245e515381a Mon Sep 17 00:00:00 2001
From: Edmund Miller <git@edmundmiller.dev>
Date: Fri, 15 Nov 2024 12:56:44 -0600
Subject: [PATCH 2/3] build: Swap COPY for ADD

---
 modules/nf-core/wittyer/Dockerfile | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/modules/nf-core/wittyer/Dockerfile b/modules/nf-core/wittyer/Dockerfile
index ddf7658d354..5d1236d5985 100644
--- a/modules/nf-core/wittyer/Dockerfile
+++ b/modules/nf-core/wittyer/Dockerfile
@@ -1,7 +1,7 @@
 FROM mcr.microsoft.com/dotnet/sdk:9.0@sha256:7d24e90a392e88eb56093e4eb325ff883ad609382a55d42f17fd557b997022ca as builder
 
+ADD https://github.com/Illumina/witty.er.git#v0.5.2 /src
 WORKDIR /src
-COPY . /src
 RUN cd Wittyer \
     && dotnet publish -f net6.0 -r linux-x64 -c Release -o /output \
     && chmod +x /output/Wittyer

From 15f6da9cdf3157be144cbba454b35ef2969bd419 Mon Sep 17 00:00:00 2001
From: Edmund Miller <git@edmundmiller.dev>
Date: Fri, 15 Nov 2024 13:13:20 -0600
Subject: [PATCH 3/3] build: Bump container version

---
 modules/nf-core/wittyer/main.nf | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/modules/nf-core/wittyer/main.nf b/modules/nf-core/wittyer/main.nf
index 5cee35c8fd8..da0f7efbbd9 100644
--- a/modules/nf-core/wittyer/main.nf
+++ b/modules/nf-core/wittyer/main.nf
@@ -2,7 +2,7 @@ process WITTYER {
     tag "$meta.id"
     label 'process_single'
 
-    container "nf-core/wittyer:0.5.2.0"
+    container "nf-core/modules/wittyer:4c55c27c711b558f"
 
     // Exit if running this module with -profile conda / -profile mamba
     if (workflow.profile.tokenize(',').intersect(['conda', 'mamba']).size() >= 1) {