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Job failing due to config.json key mismatch #4

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soichih opened this issue Jun 1, 2021 · 0 comments
Open

Job failing due to config.json key mismatch #4

soichih opened this issue Jun 1, 2021 · 0 comments

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@soichih
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soichih commented Jun 1, 2021

I've noticed this App failing

image

According to the error message, it looks like inv_warp is set to "null".

+ wb_command -surface-apply-warpfield ./cortexmap/cortexmap/surf/lh.cras.pial.surf.gii null ./cortexmap/cortexmap/surf/mni/lh.mni.pial.surf.gii -fnirt ../607a07380a3c71e36584dfa8/605524af73b69e7d6a36bbcf/warp.nii.gz

While running:
/usr/local/workbench/bin_linux64/../exe_linux64/wb_command -surface-apply-warpfield ./cortexmap/cortexmap/surf/lh.cras.pial.surf.gii null ./cortexmap/cortexmap/surf/mni/lh.mni.pial.surf.gii -fnirt ../607a07380a3c71e36584dfa8/605524af73b69e7d6a36bbcf/warp.nii.gz

ERROR: failed to open file 'null', file does not exist, or folder permissions prevent seeing it

The inv_wrap is copied from config.json as following.

inv_warp=`jq -r '.inverse_warp' config.json`

(please note it's using _[underscore] in "inverse_warp".

However, the config.json contains -(minus) for "inverse-warp"

   "inverse-warp": "../6079b5040a3c71d10084c850/6056437673b69e068f456299/inverse-warp.nii.gz",

This comes from the App registration

image

I believe the App registration should be updated to inverse_warp (with underscore) as other Apps registered for this repo are using underscore.

image

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