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Adapt workflow install step to use a single platform independent wrapper
Single-step install and configure, make parameter file name an env var
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@@ -10,7 +10,7 @@ python $TOOLDIR/get-pip.py --force-reinstall | |
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| # All MATLAB tools MUST be installed referred by the parameterset | ||
| source $GITHUB_WORKSPACE/.github/workflows/tools_urls.sh | ||
| source $GITHUB_WORKSPACE/aa_tools/toolboxes/installation_scripts/install_tools.sh $GITHUB_WORKSPACE/.github/workflows/aap_parameters_defaults_GitHub.xml $TOOLDIR | ||
| source $GITHUB_WORKSPACE/aa_tools/toolboxes/installation_scripts/install_tools.sh $GITHUB_WORKSPACE/.github/workflows/$PARAMETER_XML $TOOLDIR | ||
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| echo "FSL: ${LOAD_FSL}; FREESURFER: ${LOAD_FREESURFER}" | ||
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@@ -22,4 +22,10 @@ fi | |
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| if [[ "x${LOAD_FREESURFER}x" == "x1x" ]]; then | ||
| source $GITHUB_WORKSPACE/aa_tools/toolboxes/installation_scripts/install_freesurfer.sh $TOOLDIR 7.2.0 centos7 "[email protected]\n7061\n *Ccpi6x7PAIeQ\n FS96pPK5vW.0g" $TEMPLATEDIR | ||
| fi | ||
| fi | ||
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| echo "Free space:" | ||
| df -h | ||
| mkdir $HOME/.aa | ||
| cp $GITHUB_WORKSPACE/.github/workflows/$PARAMETER_XML $HOME/.aa/aap_parameters_user.xml | ||
| mkdir $HOME/projects | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,34 @@ | ||
| # 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, and there is some problem with the status code from system() | ||
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| import sys | ||
| import subprocess | ||
| import platform | ||
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| def main(): | ||
| do_install() | ||
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| def do_install(): | ||
| 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") | ||
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| elif plt == "Darwin": | ||
| print("Your system is MacOS") | ||
| sys.stdout.flush() | ||
| # do x y z | ||
| else: | ||
| print("Unidentified system:") | ||
| print(plt) | ||
| sys.stdout.flush() | ||
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| if __name__=="__main__": | ||
| main() |