From efef1d385a4f331b03c0562d6d77ce327ef7ecff Mon Sep 17 00:00:00 2001
From: Yaroslav Halchenko <debian@onerussian.com>
Date: Tue, 14 Mar 2023 11:59:19 -0400
Subject: [PATCH] [DATALAD RUNCMD] produce updated dockerfile

=== Do not change lines below ===
{
 "chain": [
  "e179ee94e55f524620bea09c4d29fe56a7908fff"
 ],
 "cmd": "utils/gen-docker-image.sh",
 "exit": 0,
 "extra_inputs": [],
 "inputs": [],
 "outputs": [],
 "pwd": "."
}
^^^ Do not change lines above ^^^
---
 Dockerfile | 34 ++++++++++++++++++++++++++++++++++
 1 file changed, 34 insertions(+)

diff --git a/Dockerfile b/Dockerfile
index c65ba1ea..5ec60639 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -1,6 +1,28 @@
 # Generated by Neurodocker and Reproenv.
 
 FROM neurodebian:bullseye
+ENV PATH="/opt/dcm2niix-v1.0.20220720/bin:$PATH"
+RUN apt-get update -qq \
+    && apt-get install -y -q --no-install-recommends \
+           ca-certificates \
+           cmake \
+           g++ \
+           gcc \
+           git \
+           make \
+           pigz \
+           zlib1g-dev \
+    && rm -rf /var/lib/apt/lists/* \
+    && git clone https://github.com/rordenlab/dcm2niix /tmp/dcm2niix \
+    && cd /tmp/dcm2niix \
+    && git fetch --tags \
+    && git checkout v1.0.20220720 \
+    && mkdir /tmp/dcm2niix/build \
+    && cd /tmp/dcm2niix/build \
+    && cmake  -DCMAKE_INSTALL_PREFIX:PATH=/opt/dcm2niix-v1.0.20220720 .. \
+    && make -j1 \
+    && make install \
+    && rm -rf /tmp/dcm2niix
 RUN apt-get update -qq \
            && apt-get install -y -q --no-install-recommends \
                   gcc \
@@ -67,6 +89,18 @@ RUN printf '{ \
         "base_image": "neurodebian:bullseye" \
       } \
     }, \
+    { \
+      "name": "env", \
+      "kwds": { \
+        "PATH": "/opt/dcm2niix-v1.0.20220720/bin:$PATH" \
+      } \
+    }, \
+    { \
+      "name": "run", \
+      "kwds": { \
+        "command": "apt-get update -qq\\napt-get install -y -q --no-install-recommends \\\\\\n    ca-certificates \\\\\\n    cmake \\\\\\n    g++ \\\\\\n    gcc \\\\\\n    git \\\\\\n    make \\\\\\n    pigz \\\\\\n    zlib1g-dev\\nrm -rf /var/lib/apt/lists/*\\ngit clone https://github.com/rordenlab/dcm2niix /tmp/dcm2niix\\ncd /tmp/dcm2niix\\ngit fetch --tags\\ngit checkout v1.0.20220720\\nmkdir /tmp/dcm2niix/build\\ncd /tmp/dcm2niix/build\\ncmake  -DCMAKE_INSTALL_PREFIX:PATH=/opt/dcm2niix-v1.0.20220720 ..\\nmake -j1\\nmake install\\nrm -rf /tmp/dcm2niix" \
+      } \
+    }, \
     { \
       "name": "install", \
       "kwds": { \