From 6d44a36038fbd2b2ffe2c8b23b12d36f95642c58 Mon Sep 17 00:00:00 2001
From: Dr Marco Claudio De La Pierre <marco.delapierre@gmail.com>
Date: Thu, 2 Nov 2023 14:55:53 +0800
Subject: [PATCH 1/2] Add conda to PATH

Miniconda docker image had this, Micromamba does not.
Required for usage with Singularity.
---
 docker/Dockerfile | 1 +
 1 file changed, 1 insertion(+)

diff --git a/docker/Dockerfile b/docker/Dockerfile
index 04a0ced..d902d64 100644
--- a/docker/Dockerfile
+++ b/docker/Dockerfile
@@ -8,4 +8,5 @@ RUN \
       multiqc=1.15 \
    && micromamba clean -a -y
 
+ENV PATH /opt/conda/bin:$PATH
 USER root

From 6c084fd289a80d3324b01eb741f49bd2e5c88de9 Mon Sep 17 00:00:00 2001
From: Dr Marco Claudio De La Pierre <marco.delapierre@gmail.com>
Date: Thu, 2 Nov 2023 16:59:44 +0800
Subject: [PATCH 2/2] using MAMBA variable to specify mamba installation in
 PATH variable

---
 docker/Dockerfile | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/docker/Dockerfile b/docker/Dockerfile
index d902d64..3734849 100644
--- a/docker/Dockerfile
+++ b/docker/Dockerfile
@@ -8,5 +8,5 @@ RUN \
       multiqc=1.15 \
    && micromamba clean -a -y
 
-ENV PATH /opt/conda/bin:$PATH
+ENV PATH="$MAMBA_ROOT_PREFIX/bin:$PATH"
 USER root