From e4b9bea9df706b68af54afe0ec9ad7d5e80db64b Mon Sep 17 00:00:00 2001
From: Aljen Uitbeijerse <aljen.uitbeijerse@vortech.nl>
Date: Thu, 25 Nov 2021 11:11:56 +0100
Subject: [PATCH] Try python as trigger script language

---
 .github/workflows/aa_unittest.yml    |  6 ++--
 .github/workflows/tools_install_b.sh |  2 ++
 .github/workflows/trigger_install.py | 50 ++++++++++++++++++++++++++++
 3 files changed, 55 insertions(+), 3 deletions(-)
 create mode 100644 .github/workflows/trigger_install.py

diff --git a/.github/workflows/aa_unittest.yml b/.github/workflows/aa_unittest.yml
index 74e2f4d3e..a40c49efa 100644
--- a/.github/workflows/aa_unittest.yml
+++ b/.github/workflows/aa_unittest.yml
@@ -60,9 +60,9 @@ jobs:
           release: R2020a
 
       - name: Install tools and configure aa
-        uses: matlab-actions/run-command@v1
-        with:
-          command: addpath(fullfile(getenv('GITHUB_WORKSPACE'), '.github', 'workflows')); trigger_install()
+        run: |
+          python trigger_install.py
+        working-directory: ${{github.workspace}}/.github/workflows
         env:
           LOAD_FSL: 0
           LOAD_FREESURFER: 0
diff --git a/.github/workflows/tools_install_b.sh b/.github/workflows/tools_install_b.sh
index 410a13d4a..d86cad0de 100644
--- a/.github/workflows/tools_install_b.sh
+++ b/.github/workflows/tools_install_b.sh
@@ -12,3 +12,5 @@ fi
 if [[ "x${LOAD_FREESURFER}x" == "x1x" ]]; then
     source $GITHUB_WORKSPACE/aa_tools/toolboxes/installation_scripts/install_freesurfer.sh $TOOLDIR 7.2.0 centos7 "tibor.auer@gmail.com\n7061\n *Ccpi6x7PAIeQ\n FS96pPK5vW.0g" $TEMPLATEDIR
 fi
+
+whatwhat
\ No newline at end of file
diff --git a/.github/workflows/trigger_install.py b/.github/workflows/trigger_install.py
new file mode 100644
index 000000000..d2abcc3e3
--- /dev/null
+++ b/.github/workflows/trigger_install.py
@@ -0,0 +1,50 @@
+# Note: Assume Python 2.7, since that will have been installed for facemasking requirements.
+#
+# Using python (instead of matlab) because using system() in matlab gives enormous amount of command window output.
+
+import sys
+import subprocess
+import platform
+
+plt = platform.system()
+
+if plt == "Windows":
+    print("Your system is Windows")
+    sys.stdout.flush()
+    # do x y z
+elif plt == "Linux":
+    print("Your system is Linux")
+    sys.stdout.flush()
+    subprocess.check_call('source $GITHUB_WORKSPACE/.github/workflows/tools_install.sh', shell=True, executable="/bin/bash")
+    #if status<0:
+    #    # 0 if ok, non-zero if problem
+    #    raise Exception('Problem while running tools_install')
+    #else:
+    #    print(status)
+    #    sys.stdout.flush()
+
+    subprocess.check_call('source $GITHUB_WORKSPACE/.github/workflows/tools_install_b.sh', shell=True, executable="/bin/bash")
+    #if status!=0:
+    #    # 0 if ok, non-zero if problem
+    #    raise Exception('Problem while running tools_install_b')
+    #else:
+    #    print(status)
+    #    sys.stdout.flush()
+
+    # Configure aa
+    subprocess.check_call('source $GITHUB_WORKSPACE/.github/workflows/configure_aa.sh', shell=True, executable="/bin/bash")
+    #if status!=0:
+    #    # 0 if ok, non-zero if problem
+    #    raise Exception('Problem while running configure_aa')
+    #else:
+    #    print(status)
+    #    sys.stdout.flush()
+
+elif plt == "Darwin":
+    print("Your system is MacOS")
+    sys.stdout.flush()
+    # do x y z
+else:
+    print("Unidentified system:")
+    print(plt)
+    sys.stdout.flush()
\ No newline at end of file