From bca65a6af6392ac9c7eea01910ea9b97fa160028 Mon Sep 17 00:00:00 2001
From: Neurodesk Github Action Runner <mail.neurodesk@gmail.com>
Date: Fri, 15 Nov 2024 00:27:14 +0000
Subject: [PATCH] samsrfx v10

---
 recipes/samsrfx/README.md | 10 +++++-----
 recipes/samsrfx/build.sh  | 16 ++++++++--------
 2 files changed, 13 insertions(+), 13 deletions(-)

diff --git a/recipes/samsrfx/README.md b/recipes/samsrfx/README.md
index 9bc90c57..b85719da 100644
--- a/recipes/samsrfx/README.md
+++ b/recipes/samsrfx/README.md
@@ -1,15 +1,15 @@
 
 ----------------------------------
-## samsrfx/toolVersion ##
-conn standalone with Matlab Compiler Runtime
+## samsrfx/v10 ##
+SamsrfX standalone with Matlab Compiler Runtime
 
 Example:
 ```
-/opt/samsrfx-toolVersion/samsrf/run_SamSrfX.sh /opt/MCR-2023b/R2023b/
+samsrfx
 ```
 
-More documentation can be found here: 
+More documentation can be found here: https://github.com/samsrf/samsrf
 
-To run container outside of this environment: ml samsrfx/toolVersion
+To run container outside of this environment: ml samsrfx/v10
 
 ----------------------------------
diff --git a/recipes/samsrfx/build.sh b/recipes/samsrfx/build.sh
index 486c35ee..dabd0794 100644
--- a/recipes/samsrfx/build.sh
+++ b/recipes/samsrfx/build.sh
@@ -2,7 +2,7 @@
 set -e
 
 export toolName='samsrfx'
-export toolVersion='0.0.2'
+export toolVersion='v10'
 
 if [ "$1" != "" ]; then
     echo "Entering Debug mode"
@@ -20,17 +20,17 @@ neurodocker generate ${neurodocker_buildMode} \
    --matlabmcr version=2023b method=binaries \
    --install wget openjdk-8-jre dbus-x11 libgbm-dev \
    --workdir /opt/${toolName}-${toolVersion}/ \
-   --run="wget --no-check-certificate --progress=bar:force -P /opt/${toolName}-${toolVersion}/ https://object-store.rc.nectar.org.au/v1/AUTH_dead991e1fa847e3afcca2d3a7041f5d/build/samsrf_241003.zip \
-      && unzip -q samsrf_241003.zip -d /opt/${toolName}-${toolVersion}/ \
+   --run="wget --no-check-certificate --progress=bar:force -P /opt/${toolName}-${toolVersion}/ https://object-store.rc.nectar.org.au/v1/AUTH_dead991e1fa847e3afcca2d3a7041f5d/build/samsrf_${toolVersion}.zip \
+      && unzip -q samsrf_${toolVersion}.zip -d /opt/${toolName}-${toolVersion}/ \
       && chmod a+x /opt/${toolName}-${toolVersion}/samsrf/SamSrfX \
-      && rm -f samsrf_241003.zip" \
-   --env DEPLOY_BINS=SamSrfX \
-   --env PATH=/opt/${toolName}-${toolVersion}/:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin \
+      && rm -f samsrf_${toolVersion}.zip" \
+   --env DEPLOY_BINS=samsrfx \
+   --run="echo '/opt/samsrfx-${toolVersion}/samsrf/run_SamSrfX.sh /opt/MCR-2023b/R2023b/' > samsrfx \
+         && chmod a+x samsrfx" \
+   --env PATH='$PATH':/opt/${toolName}-${toolVersion}/ \
    --copy README.md /README.md \
   > ${toolName}_${toolVersion}.Dockerfile
 
-#note: neurodocker installs a specific update version of the matlab runtime environment - this could cause problems.
-
 if [ "$1" != "" ]; then
    ./../main_build.sh
 fi