[sbryngelson]

With mpp_lim and bubbles_euler, s_assign_patch_species_primitive_variables
rescaled the liquid volume fractions with whole-array operations on
alf_sum%sf (0:m,0:n,0:p) and the ghost-padded q_prim_vf fields from inside
a per-cell routine. The shapes differ, so this read and wrote out of
bounds (gfortran: "Array bound mismatch ... (308/300)"), and it rescaled
the entire domain once per cell.

Replace the five copies with s_scale_volume_fractions_to_void, which
rescales only cell (j,k,l) with a scalar sum, and drop the module-level
alf_sum array (which was never deallocated).

Add test E5ACA113 (1D -> Bubbles -> 2 Fluid(s) -> mpp_lim), which aborted
in pre_process before this change. The 64 existing Bubbles tests pass
unchanged.

[github-actions]

Lines of Code

File	Lines	Diff
src/pre_process/m_assign_variables.fpp	358	-30

Directory	Lines	Diff
pre_process	5004	-30
total	47484	-30

[sbryngelson]

Closing this for now to bring the number of open PRs from me down to four, so the ones that stay open get real review attention rather than being lost in a queue of 35.

No work is lost and nothing needs re-doing. The branch fix/bubbles-mpp-lim-assign remains on the fork at 6dacec272d, this PR's diff and discussion stay here, and the head commit is additionally archived in a local verified bundle. Reopening takes no force-push and no rebase:

gh pr reopen 2002 -R MFlowCode/MFC

I intend to reopen these in small batches as the open slots free up. Apologies for the notification noise.

Opened and closed with Claude Code.