From 2737930272184685322a23ee4839349433976400 Mon Sep 17 00:00:00 2001
From: jindonut <214714241+jindonut@users.noreply.github.com>
Date: Tue, 4 Aug 2026 17:01:48 -0700
Subject: [PATCH] Fix size() used as loop bound in parameter parsing

size() with no dimension argument returns a dimension vector, which is invalid as a colon operand. Replaced with numel() in four locations: parse_mappers.m line 3, run_main.m lines 213 and 253, run_preprocess.m line 50.
---
 code/analysis/run_main.m            | 4 ++--
 code/analysis/run_preprocess.m      | 2 +-
 code/utils/analysis/parse_mappers.m | 2 +-
 3 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/code/analysis/run_main.m b/code/analysis/run_main.m
index 6159dd4..faf56be 100644
--- a/code/analysis/run_main.m
+++ b/code/analysis/run_main.m
@@ -210,7 +210,7 @@
     end
 
     %% Run the Analyses
-    for a_idx = 1:size(config.analyses)
+    for a_idx = 1:numel(config.analyses)
         an = config.analyses(a_idx);
         if iscell(an)
             an = cell2mat(an);
@@ -250,7 +250,7 @@
 %% Helper functions
 function has = has_multiple_analyses(analyses, analysis_type)
     count = 0;
-    for a_idx = 1:size(analyses)
+    for a_idx = 1:numel(analyses)
         an = analyses(a_idx);
         if iscell(an)
             an = cell2mat(an);
diff --git a/code/analysis/run_preprocess.m b/code/analysis/run_preprocess.m
index 746977c..f6efd66 100644
--- a/code/analysis/run_preprocess.m
+++ b/code/analysis/run_preprocess.m
@@ -47,7 +47,7 @@
 res = data;
 preprop_deets = struct;
 bystep = cell(1,length(config.preprocess));
-for p_idx = 1:size(config.preprocess)
+for p_idx = 1:numel(config.preprocess)
     prp = config.preprocess(p_idx);
     if iscell(prp)
         prp = cell2mat(prp);
diff --git a/code/utils/analysis/parse_mappers.m b/code/utils/analysis/parse_mappers.m
index f94ffec..2fe27b3 100644
--- a/code/utils/analysis/parse_mappers.m
+++ b/code/utils/analysis/parse_mappers.m
@@ -1,6 +1,6 @@
 function all_mapper_opts = parse_mappers(mapper_opts)
 all_mapper_opts = {};
-for i=1:size(mapper_opts)
+for i=1:numel(mapper_opts)
     mopts = mapper_opts(i);
     if ~isa(mopts, 'struct')
         mopts = cell2mat(mopts);