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CoBrALab / optimized_antsMultivariateTemplateConstruction

A re-implementation of antsMultivariateTemplateConstruction2.sh using optimized image pyramid scale-space and qbatch support
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Second-level initialization fails if using bootstrapping #91

Open gdevenyi opened 9 months ago

gdevenyi commented 9 months ago 
2023-10-02 19:31:07 UTC [     info] Checking input files
2023-10-02 19:31:07 UTC [     info] Using the first input image rigid-average/secondlevel/inputs/subject_1.nii.gz as initalization target
cp: cannot stat 'rigid-average/secondlevel/inputs/subject_1.nii.gz': No such file or directory
2023-10-02 19:31:07 UTC [  failure] /home/cic/devgab/projects/minipig-connectivity/reorg/optimized_antsMultivariateTemplateConstruction/modelbuild.sh:script[872] Failed with status 1:
        cp -f ${_arg_inputs[0]} ${_arg_output_dir}/initialaverage/initialtarget.nii.gz
        cp -f rigid-average/secondlevel/inputs/subject_1.nii.gz rigid-average/secondlevel/initialaverage/initialtarget.nii.gz
2023-10-02 19:31:07 UTC [  failure] ./optimized_antsMultivariateTemplateConstruction/twolevel_modelbuild.sh:script[229] Failed with status 1:
        ${__dir}/modelbuild.sh ${_arg_debug:+--debug} --skip-file-checks --job-predepend "twolevel_${__datetime}_" ${_arg_leftovers[@]+"${_arg_leftovers[@]}"} --output-dir ${_arg_output_dir}/secondlevel ${secondlevel_masks} ${_arg_output_dir}/secondlevel/input_files.txt
        /home/cic/devgab/projects/minipig-connectivity/reorg/optimized_antsMultivariateTemplateConstruction/modelbuild.sh --skip-file-checks --job-predepend twolevel_2023-10-02_19-29-53-UTC_ --float --stages rigid[4] --output-dir rigid-average/secondlevel rigid-average/secondlevel/input_files.txt

Need to bypass this if --skip-file-checks is enabled