From 4555d0458446fb6fca0f668d67b32971448d7a96 Mon Sep 17 00:00:00 2001
From: William Rowell <wrowell@pacificbiosciences.com>
Date: Tue, 26 Nov 2024 11:53:54 -0800
Subject: [PATCH 1/3] Updated to hifiasm v0.20.0

---
 workflows/assemble_genome/assemble_genome.wdl | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/workflows/assemble_genome/assemble_genome.wdl b/workflows/assemble_genome/assemble_genome.wdl
index c7db8e1..8cb796e 100644
--- a/workflows/assemble_genome/assemble_genome.wdl
+++ b/workflows/assemble_genome/assemble_genome.wdl
@@ -141,7 +141,7 @@ task hifiasm_assemble {
 	}
 
 	runtime {
-		docker: "~{runtime_attributes.container_registry}/hifiasm@sha256:9e5fd8743f2668de04f595913c4f4ef07e717a19647a2be75ecf83a9488b726e"
+		docker: "~{runtime_attributes.container_registry}/hifiasm@sha256:434c2aa706fd67fa0f2f5b7c6c16eb897c736a5a17a7aae9a3501a2ee06dd405"
 		cpu: threads
 		memory: mem_gb + " GB"
 		disk: disk_size + " GB"

From 850860f0f96df04017cd6e685f50d85645098f31 Mon Sep 17 00:00:00 2001
From: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Date: Tue, 26 Nov 2024 20:27:36 +0000
Subject: [PATCH 2/3] update wdl-ci config file after successful tests

---
 wdl-ci.config.json | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/wdl-ci.config.json b/wdl-ci.config.json
index 57bb750..046c22e 100644
--- a/wdl-ci.config.json
+++ b/wdl-ci.config.json
@@ -139,7 +139,7 @@
       "tasks": {
         "hifiasm_assemble": {
           "key": "hifiasm_assemble",
-          "digest": "yt7mrvhlur5xzn5sxbhe52kvvu6r4ejr",
+          "digest": "uc6632gg3jp67k3sz6yqwrzc6y3x6c4l",
           "tests": [
             {
               "inputs": {

From 4d2dc2128cc93ccca44797fc85306c30aa5fea16 Mon Sep 17 00:00:00 2001
From: William Rowell <wrowell@pacificbiosciences.com>
Date: Tue, 26 Nov 2024 12:27:51 -0800
Subject: [PATCH 3/3] Updated tool version in README

---
 README.md | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/README.md b/README.md
index afb9db6..ec633f0 100644
--- a/README.md
+++ b/README.md
@@ -202,7 +202,7 @@ The Docker image used by a particular step of the workflow can be identified by
 | align_hifiasm | <ul><li>[minimap2 2.17](https://github.com/lh3/minimap2/releases/tag/v2.17)</li><li>[samtools 1.14](https://github.com/samtools/samtools/releases/tag/1.14)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/align_hifiasm) |
 | bcftools | <ul><li>[bcftools 1.14](https://github.com/samtools/bcftools/releases/tag/1.14)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/bcftools) |
 | gfatools | <ul><li>[gfatools 0.4](https://github.com/lh3/gfatools/releases/tag/v0.4)</li><li>[htslib 1.14](https://github.com/samtools/htslib/releases/tag/1.14)</li><li>[k8 0.2.5](https://github.com/attractivechaos/k8/releases/tag/0.2.5)</li><li>[caln50 01091f2](https://github.com/lh3/calN50/tree/01091f25bc24e17fbf0da3407ea24aa448c489ae)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/gfatools) |
-| hifiasm | <ul><li>[hifiasm 0.19.4](https://github.com/chhylp123/hifiasm/releases/tag/0.19.4)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/hifiasm) |
+| hifiasm | <ul><li>[hifiasm 0.20.0](https://github.com/chhylp123/hifiasm/releases/tag/0.20.0)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/bcc1ca9f0c214a9d151b1b43b543cfbc7e4cb556/docker/hifiasm) |
 | htslib | <ul><li>[htslib 1.14](https://github.com/samtools/htslib/releases/tag/1.14)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/htslib) |
 | paftools | <ul><li>[paftools 2.26-r1182-dirty](https://github.com/lh3/minimap2/blob/bc588c0eeb26426d0d90a93fb0877358a389c515/misc/paftools.js)</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/3560fcc5a84e044067cea9c9a7669cfc2659178e/docker/align_hifiasm) |
 | pyyaml | <ul><li>python 3.8.10; custom scripts</li></ul> | [Dockerfile](https://github.com/PacificBiosciences/wdl-dockerfiles/tree/e421243d68aed4c7ed85bf90d6a82d738f292a28/docker/pyyaml) |