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Fix the incompressible moving-grid Jacobian and several smaller mean-flow bugs - #2945

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rois1995 wants to merge 20 commits into
fix_roe_3d_wave_strengthsfrom
fix_meanflow_small
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Fix the incompressible moving-grid Jacobian and several smaller mean-flow bugs#2945
rois1995 wants to merge 20 commits into
fix_roe_3d_wave_strengthsfrom
fix_meanflow_small

Update the reference values from the CI

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