From 2bd2e819a40e4c941de5cc57e44633e3872f4ed0 Mon Sep 17 00:00:00 2001
From: Pixelguy14 <pixelguy14@gmail.com>
Date: Thu, 13 Mar 2025 13:49:49 -0600
Subject: [PATCH] Concept error in Sum spectrum, changed to Mean spectrum

---
 app.jl                | 20 ++++++++++----------
 app.jl.html           |  6 +++---
 julia_imzML_visual.jl |  6 +++---
 3 files changed, 16 insertions(+), 16 deletions(-)

diff --git a/app.jl b/app.jl
index 9c0255f..aaa9767 100644
--- a/app.jl
+++ b/app.jl
@@ -54,7 +54,7 @@ include("./julia_imzML_visual.jl")
     @in btnSearch=false # To search for files in your device
     @in mainProcess=false # To generate images
     @in compareBtn=false # To open dialog
-    @in createSumPlot=false # To generate sum spectrum plot
+    @in createMeanPlot=false # To generate mean spectrum plot
     @in createXYPlot=false # To generate an spectrum plot according to the xy values inputed
     @in image3dPlot=false # To generate 3d plot based on current image
     @in triq3dPlot=false # To generate 3d plot based on current triq image
@@ -290,13 +290,13 @@ include("./julia_imzML_visual.jl")
                 # Splitting the route with regex from imzml to mzml so the plotting can work
                 full_routeMz=replace(full_route, r"\.[^.]*$" => ".mzML") 
                 if isfile(full_routeMz)
-                    # Start the sum spectrum creation on loading
+                    # Start the mean spectrum creation on loading
                     progressSpectraPlot=true
                     btnPlotDisable=true
                     btnStartDisable=true
-                    msg="Loading SUM spectrum plot..."
+                    msg="Loading mean spectrum plot..."
                     sTime=time()
-                    plotdata, plotlayout, xSpectraMz, ySpectraMz=sumSpectrumPlot(full_routeMz)
+                    plotdata, plotlayout, xSpectraMz, ySpectraMz=meanSpectrumPlot(full_routeMz)
                     selectedTab="tab2"
                     progressSpectraPlot=false
                     btnPlotDisable=false
@@ -319,13 +319,13 @@ include("./julia_imzML_visual.jl")
                 btnSpectraDisable=false
                 SpectraEnabled=true
                 if isfile(full_routeMz)
-                    # Start the sum spectrum creation on loading
+                    # Start the mean spectrum creation on loading
                     progressSpectraPlot=true
                     btnPlotDisable=true
                     btnStartDisable=true
-                    msg="Loading SUM spectrum plot..."
+                    msg="Loading mean spectrum plot..."
                     sTime=time()
-                    plotdata, plotlayout, xSpectraMz, ySpectraMz=sumSpectrumPlot(full_routeMz)
+                    plotdata, plotlayout, xSpectraMz, ySpectraMz=meanSpectrumPlot(full_routeMz)
                     selectedTab="tab2"
                     progressSpectraPlot=false
                     btnPlotDisable=false
@@ -469,15 +469,15 @@ include("./julia_imzML_visual.jl")
         end
     end
 
-    @onbutton createSumPlot begin
-        msg="Sum spectrum plot selected"
+    @onbutton createMeanPlot begin
+        msg="Mean spectrum plot selected"
         sTime=time()
         if isfile(full_routeMz) # Check if the file exists
             progressSpectraPlot=true
             btnPlotDisable=true
             btnStartDisable=true
             msg="Loading plot..."
-            plotdata, plotlayout, xSpectraMz, ySpectraMz=sumSpectrumPlot(full_routeMz)
+            plotdata, plotlayout, xSpectraMz, ySpectraMz=meanSpectrumPlot(full_routeMz)
             GC.gc() # Trigger garbage collection
             if Sys.islinux()
                 ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure julia returns the freed memory to OS
diff --git a/app.jl.html b/app.jl.html
index b25b0e9..0336595 100644
--- a/app.jl.html
+++ b/app.jl.html
@@ -64,14 +64,14 @@
                 </template>
 
                 <q-list>
-                  <q-item clickable v-close-popup v-on:click="createSumPlot=true">
+                  <q-item clickable v-close-popup v-on:click="createMeanPlot=true">
                     <q-item-section>
-                      <q-item-label>Sum Spectrum Plot</q-item-label>
+                      <q-item-label>Mean spectrum plot</q-item-label>
                     </q-item-section>
                   </q-item>
                   <q-item clickable v-close-popup v-on:click="createXYPlot=true">
                     <q-item-section>
-                      <q-item-label>Spectrum Plot (X,Y)</q-item-label>
+                      <q-item-label>Spectrum plot (X,Y)</q-item-label>
                     </q-item-section>
                   </q-item>
                 </q-list>
diff --git a/julia_imzML_visual.jl b/julia_imzML_visual.jl
index 2316c25..1316186 100644
--- a/julia_imzML_visual.jl
+++ b/julia_imzML_visual.jl
@@ -442,17 +442,17 @@ function padarray(A, padsize)
     return padded
 end
 
-# sumSpectrumPlot recieves the local directory of the image as a string,
+# meanSpectrumPlot recieves the local directory of the image as a string,
 # returns the layout and data for the surface plotly plot
 # this function loads the spectra data and makes a mean to display
 # its values in the spectrum plot
-function sumSpectrumPlot(mzmlRoute::String)
+function meanSpectrumPlot(mzmlRoute::String)
     spectraMz=LoadMzml(mzmlRoute)
     xSpectraMz=Float64[]
     ySpectraMz=Float64[]
 
     layout=PlotlyBase.Layout(
-        title="SUM spectrum plot",
+        title="Mean spectrum plot",
         xaxis=PlotlyBase.attr(
             title="<i>m/z</i>",
             showgrid=true,