added time measurements for main functions of the app
This commit is contained in:
Pixelguy14
parent
c92576d5a5
commit
d18b113641
@ -184,9 +184,9 @@ version = "1.1.1"
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[[deps.CairoMakie]]
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deps = ["CRC32c", "Cairo", "Cairo_jll", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"]
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git-tree-sha1 = "77bc0964dd77811630e6c3329536a86b3b965cba"
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git-tree-sha1 = "6d76f05dbc8b7a52deaa7cdabe901735ae7b6724"
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uuid = "13f3f980-e62b-5c42-98c6-ff1f3baf88f0"
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version = "0.13.0"
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version = "0.13.1"
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[[deps.Cairo_jll]]
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deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
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@ -418,9 +418,9 @@ version = "1.11.0"
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[[deps.Distributions]]
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deps = ["AliasTables", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"]
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git-tree-sha1 = "7901a6117656e29fa2c74a58adb682f380922c47"
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git-tree-sha1 = "03aa5d44647eaec98e1920635cdfed5d5560a8b9"
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uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
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version = "0.25.116"
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version = "0.25.117"
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[deps.Distributions.extensions]
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DistributionsChainRulesCoreExt = "ChainRulesCore"
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@ -1361,9 +1361,9 @@ version = "0.5.15"
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[[deps.Makie]]
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deps = ["Animations", "Base64", "CRC32c", "ColorBrewer", "ColorSchemes", "ColorTypes", "Colors", "Contour", "Dates", "DelaunayTriangulation", "Distributions", "DocStringExtensions", "Downloads", "FFMPEG_jll", "FileIO", "FilePaths", "FixedPointNumbers", "Format", "FreeType", "FreeTypeAbstraction", "GeometryBasics", "GridLayoutBase", "ImageBase", "ImageIO", "InteractiveUtils", "Interpolations", "IntervalSets", "InverseFunctions", "Isoband", "KernelDensity", "LaTeXStrings", "LinearAlgebra", "MacroTools", "MakieCore", "Markdown", "MathTeXEngine", "Observables", "OffsetArrays", "PNGFiles", "Packing", "PlotUtils", "PolygonOps", "PrecompileTools", "Printf", "REPL", "Random", "RelocatableFolders", "Scratch", "ShaderAbstractions", "Showoff", "SignedDistanceFields", "SparseArrays", "Statistics", "StatsBase", "StatsFuns", "StructArrays", "TriplotBase", "UnicodeFun", "Unitful"]
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git-tree-sha1 = "021b6b64b68f6ee09fb35a1528a2b5a7f48ac00c"
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git-tree-sha1 = "9680336a5b67f9f9f6eaa018f426043a8cd68200"
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uuid = "ee78f7c6-11fb-53f2-987a-cfe4a2b5a57a"
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version = "0.22.0"
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version = "0.22.1"
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[[deps.MakieCore]]
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deps = ["ColorTypes", "GeometryBasics", "IntervalSets", "Observables"]
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@ -1603,9 +1603,9 @@ version = "10.42.0+1"
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[[deps.PDMats]]
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deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"]
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git-tree-sha1 = "949347156c25054de2db3b166c52ac4728cbad65"
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git-tree-sha1 = "966b85253e959ea89c53a9abebbf2e964fbf593b"
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uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
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version = "0.11.31"
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version = "0.11.32"
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[[deps.PNGFiles]]
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deps = ["Base64", "CEnum", "ImageCore", "IndirectArrays", "OffsetArrays", "libpng_jll"]
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@ -2317,9 +2317,9 @@ uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
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version = "0.11.3"
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[[deps.Tricks]]
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git-tree-sha1 = "7822b97e99a1672bfb1b49b668a6d46d58d8cbcb"
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git-tree-sha1 = "6cae795a5a9313bbb4f60683f7263318fc7d1505"
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uuid = "410a4b4d-49e4-4fbc-ab6d-cb71b17b3775"
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version = "0.1.9"
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version = "0.1.10"
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[[deps.TriplotBase]]
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git-tree-sha1 = "4d4ed7f294cda19382ff7de4c137d24d16adc89b"
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90
app.jl
90
app.jl
@ -11,7 +11,7 @@ using Statistics
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using NaturalSort
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using Images
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using LinearAlgebra
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using NativeFileDialog
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using NativeFileDialog # Opens the file explorer depending on the OS
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@genietools
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# == Code import ==
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@ -69,10 +69,10 @@ end
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@in triqProb=0.98
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@in triqColor=256
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# Interface Buttons
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# Interface Buttons and Validations
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@in btnSearch=false # To search for files in your device
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@in mainProcess=false # To generate images
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@in CompareBtn=false # to open dialog
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@in compareBtn=false # To open dialog
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@in createSumPlot=false # To generate sum spectrum plot
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@in image3dPlot=false # To generate 3d plot based on current image
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@in triq3dPlot=false # To generate 3d plot based on current triq image
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@ -81,12 +81,12 @@ end
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@in progress=false
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@in progressPlot=false
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@in triqEnabled=false
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@in ImgPlus=false
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@in ImgMinus=false
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@in ImgPlusT=false
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@in ImgMinusT=false
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@in imgPlus=false
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@in imgMinus=false
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@in imgPlusT=false
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@in imgMinusT=false
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#TABS
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# TAB variables
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@out tabIDs=["tab0","tab1","tab2","tab3","tab4"]
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@out tabLabels=["Image", "TrIQ", "Spectrum Plot", "Topology Plot","Surface Plot"]
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@in selectedTab= "tab0"
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@ -100,10 +100,12 @@ end
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@out colorbar="/.png"
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@out colorbarT="/.png"
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# Messages to interface Variables
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@out msg=""
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@out msgimg=""
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@out msgtriq=""
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# Saves the route where imzML and mzML files are located
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@out full_route=""
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@out full_routeMz=""
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@out full_routeMz2=""
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@ -111,23 +113,22 @@ end
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# For the creation of images with a more specific mass charge
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@out text_nmass=""
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# For image search
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# Image lists we apply a filter that searches specific type of images into our public folder, then we sort it in a "numerical" order
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# For image search image lists we apply a filter that searches specific type of images into our public folder, then we sort it in a "numerical" order
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@in msi_bmp=sort(filter(filename -> startswith(filename, "MSI_") && endswith(filename, ".bmp"), readdir("public")),lt=natural)
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@in col_msi_png=sort(filter(filename -> startswith(filename, "colorbar_MSI_") && endswith(filename, ".png"), readdir("public")),lt=natural)
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@in triq_bmp=sort(filter(filename -> startswith(filename, "TrIQ_") && endswith(filename, ".bmp"), readdir("public")),lt=natural)
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@in col_triq_png=sort(filter(filename -> startswith(filename, "colorbar_TrIQ_") && endswith(filename, ".png"), readdir("public")),lt=natural)
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# Set current image for the list
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# Set current image for the list to display
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@out current_msi=""
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@out current_col_msi=""
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@out current_triq=""
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@out current_col_triq=""
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@out indeximg=0
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@out indeximgTriq=0
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@out lastimg=0
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@out lastimgTriq=0
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# Starting and finishing times to measure how long it takes for a function to finish in elapse time
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@out sTime=time()
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@out fTime=time()
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@out eTime=time()
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# Interface Plot Spectrum
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layoutSpectra=PlotlyBase.Layout(
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@ -219,22 +220,13 @@ end
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col_triq_png=sort(filter(filename -> startswith(filename, "colorbar_TrIQ_") && endswith(filename, ".png"), readdir("public")),lt=natural)
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end
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end
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"""
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@onchange Nmass begin
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indeximg=floor(Int, Nmass)
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indeximgTriq=floor(Int, Nmass)
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lastimg=floor(Int, Nmass)
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lastimgTriq=floor(Int, Nmass)
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end
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"""
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@onbutton mainProcess begin
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progress=true # Start progress button animation
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btnStartDisable=true # We disable the button to avoid multiple requests
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btnPlotDisable=true
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indeximg=floor(Int, Nmass)
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text_nmass=replace(string(Nmass), "." => "_")
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sTime=time()
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#full_route=joinpath(file_route, file_name)
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if isfile(full_route) && Nmass > 0 && Tol > 0 && Tol <= 1
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msg="File exists, Nmass=$(Nmass) Tol=$(Tol). Loading file will begin, please be patient."
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@ -274,7 +266,9 @@ end
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# We update the directory to include the new placed images.
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triq_bmp=sort(filter(filename -> startswith(filename, "TrIQ_") && endswith(filename, ".bmp"), readdir("public")),lt=natural)
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col_triq_png=sort(filter(filename -> startswith(filename, "colorbar_TrIQ_") && endswith(filename, ".png"), readdir("public")),lt=natural)
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msg="The file has been created successfully inside the 'public' folder of the app."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="The file has been created in $(eTime) seconds successfully inside the 'public' folder of the app"
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selectedTab="tab1"
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#println("all msi in folder=",triq_bmp)
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#println("all col msi in folder= ",col_triq_png)
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@ -305,7 +299,9 @@ end
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msi_bmp=sort(filter(filename -> startswith(filename, "MSI_") && endswith(filename, ".bmp"), readdir("public")),lt=natural)
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col_msi_png=sort(filter(filename -> startswith(filename, "colorbar_MSI_") && endswith(filename, ".png"), readdir("public")),lt=natural)
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selectedTab="tab0"
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msg="The file has been created successfully inside the 'public' folder of the app."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="The file has been created in $(eTime) seconds successfully inside the 'public' folder of the app"
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#println("all msi in folder=",msi_bmp)
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#println("all col msi in folder= ",col_msi_png)
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end
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@ -330,13 +326,13 @@ end
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@onbutton createSumPlot begin
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msg="Sum spectrum plot selected"
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sTime=time()
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#full_route=joinpath( file_route, file_name )
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if isfile(full_route) # Check if the file exists
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btnPlotDisable=false
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btnStartDisable=false
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full_routeMz=split( full_route, "." )[1] * ".mzML" # Splitting the route from imzml to mzml so the plotting can work
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if isfile(full_routeMz) && (full_routeMz2 == "" || full_routeMz2 != full_routeMz) # Check if the mzml exists
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println("I'm working as intended")
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progressPlot=true
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btnPlotDisable=true
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btnStartDisable=true
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@ -366,10 +362,12 @@ end
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ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure julia returns the freed memory to OS
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end
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selectedTab="tab2"
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msg="Plot loaded."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="Plot loaded in $(eTime) seconds"
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full_routeMz2=full_routeMz # To avoid creating the plot if its the same file read as before
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else
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msg="the mzML file was not found"
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msg="the mzML file was not found or you're trying to load the same mzML"
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warning_msg=true
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end
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else
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@ -383,7 +381,7 @@ end
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# Image loaders based on the position of the current image (increment and decrement for both normal and filter)
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# And a pre-generated list from all image files from /public folder
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@onbutton ImgMinus begin
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@onbutton imgMinus begin
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# Append a query string to force the image to refresh
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timestamp=string(time_ns())
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# Update the array of images listed in the public folder
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@ -402,7 +400,7 @@ end
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text_nmass=replace(text_nmass, ".bmp" => "")
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msgimg="Image with the Nmass of $(replace(text_nmass, "_" => "."))"
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end
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@onbutton ImgPlus begin
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@onbutton imgPlus begin
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# Append a query string to force the image to refresh
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timestamp=string(time_ns())
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# Update the array of images listed in the public folder
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@ -422,7 +420,7 @@ end
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msgimg="Image with the Nmass of $(replace(text_nmass, "_" => "."))"
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end
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@onbutton ImgMinusT begin
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@onbutton imgMinusT begin
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# Append a query string to force the image to refresh
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timestamp=string(time_ns())
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new_msi=decrement_image(current_triq, triq_bmp)
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@ -441,7 +439,7 @@ end
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msgtriq="TrIQ image with the Nmass of $(replace(text_nmass, "_" => "."))"
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end
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@onbutton ImgPlusT begin
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@onbutton imgPlusT begin
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# Append a query string to force the image to refresh
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timestamp=string(time_ns())
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new_msi=increment_image(current_triq, triq_bmp)
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@ -466,6 +464,7 @@ end
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cleaned_imgInt=replace(imgInt, r"\?.*" => "")
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cleaned_imgInt=lstrip(cleaned_imgInt, '/')
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var=joinpath( "./public", cleaned_imgInt )
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sTime=time()
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if isfile(var)
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progressPlot=true
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@ -531,7 +530,9 @@ end
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ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure julia returns the freed memory to OS
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end
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selectedTab="tab4"
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msg="Plot loaded."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="Plot loaded in $(eTime) seconds"
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catch e
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msg="Failed to load and process image: $e"
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warning_msg=true
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@ -551,6 +552,7 @@ end
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cleaned_imgIntT=replace(imgIntT, r"\?.*" => "")
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cleaned_imgIntT=lstrip(cleaned_imgIntT, '/')
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var=joinpath( "./public", cleaned_imgIntT )
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sTime=time()
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if isfile(var)
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progressPlot=true
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@ -610,7 +612,9 @@ end
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ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure julia returns the freed memory to OS
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end
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selectedTab="tab4"
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msg="Plot loaded."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="Plot loaded in $(eTime) seconds"
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catch e
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msg="Failed to load and process image: $e"
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warning_msg=true
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@ -631,6 +635,7 @@ end
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cleaned_imgInt=replace(imgInt, r"\?.*" => "")
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cleaned_imgInt=lstrip(cleaned_imgInt, '/')
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var=joinpath("./public", cleaned_imgInt)
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sTime=time()
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if isfile(var)
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progressPlot=true
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@ -676,7 +681,9 @@ end
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ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure Julia returns the freed memory to OS
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end
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selectedTab="tab3"
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msg="Plot loaded."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="Plot loaded in $(eTime) seconds"
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catch e
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msg="Failed to load and process image: $e"
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warning_msg=true
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@ -696,6 +703,7 @@ end
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cleaned_imgIntT=replace(imgIntT, r"\?.*" => "")
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cleaned_imgIntT=lstrip(cleaned_imgIntT, '/')
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var=joinpath("./public", cleaned_imgIntT)
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sTime=time()
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if isfile(var)
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progressPlot=true
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@ -741,7 +749,9 @@ end
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ccall(:malloc_trim, Int32, (Int32,), 0) # Ensure Julia returns the freed memory to OS
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end
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selectedTab="tab3"
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msg="Plot loaded."
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fTime=time()
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eTime=round(fTime-sTime,digits=3)
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msg="Plot loaded in $(eTime) seconds"
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catch e
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msg="Failed to load and process image: $e"
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warning_msg=true
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@ -756,7 +766,7 @@ end
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btnStartDisable=false
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end
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@onbutton CompareBtn begin
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@onbutton compareBtn begin
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CompareDialog=true
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end
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26
app.jl.html
26
app.jl.html
@ -100,7 +100,7 @@
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Loading...
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</template>
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</q-btn>
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<q-btn id="btnStyle" icon="zoom_out_map" class="q-ma-sm on-right" v-on:click="CompareBtn=true" padding="sm" label="Compare"></q-btn>
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<q-btn id="btnStyle" icon="zoom_out_map" class="q-ma-sm on-right" v-on:click="compareBtn=true" padding="sm" label="Compare"></q-btn>
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</div>
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<p>{{msg}}</p>
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</div>
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@ -115,8 +115,8 @@
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<!-- Btn image changer -->
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<h6>Image Visualizer</h6>
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<div>
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<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinus=true"></q-btn>
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<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlus=true"></q-btn>
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<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinus=true"></q-btn>
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<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlus=true"></q-btn>
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</div>
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<!-- Image manager -->
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<div id="image-container" class="row st-col col-12 items-center">
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@ -135,8 +135,8 @@
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<!-- Triq Btn image changer -->
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<h6>TrIQ Visualizer</h6>
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<div>
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<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinusT=true"></q-btn>
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<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlusT=true"></q-btn>
|
||||
</div>
|
||||
<!-- Triq Image manager -->
|
||||
<div id="image-container" class="row st-col col-12 items-center">
|
||||
@ -197,8 +197,8 @@
|
||||
<!-- Content for Tab 0 -->
|
||||
<!-- Btn image changer -->
|
||||
<div>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlus=true"></q-btn>
|
||||
</div>
|
||||
<!-- Image manager -->
|
||||
<div id="image-container" class="row st-col col-12 items-center">
|
||||
@ -216,8 +216,8 @@
|
||||
<!-- Content for Tab 1 -->
|
||||
<!-- Triq Btn image changer -->
|
||||
<div>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlusT=true"></q-btn>
|
||||
</div>
|
||||
<!-- Triq Image manager -->
|
||||
<div id="image-container" class="row st-col col-12 items-center">
|
||||
@ -251,8 +251,8 @@
|
||||
<!-- Content for Tab 0 -->
|
||||
<!-- Btn image changer -->
|
||||
<div>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinus=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlus=true"></q-btn>
|
||||
</div>
|
||||
<!-- Image manager -->
|
||||
<div id="image-container" class="row st-col col-12 items-center">
|
||||
@ -270,8 +270,8 @@
|
||||
<!-- Content for Tab 1 -->
|
||||
<!-- Triq Btn image changer -->
|
||||
<div>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="ImgMinusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="ImgPlusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_back" class="q-my-sm" v-on:click="imgMinusT=true"></q-btn>
|
||||
<q-btn id="btnStyle" icon="arrow_forward" class="q-my-sm on-right" v-on:click="imgPlusT=true"></q-btn>
|
||||
</div>
|
||||
<!-- Triq Image manager -->
|
||||
<div id="image-container" class="row st-col col-12 items-center">
|
||||
|
||||
@ -1,18 +1,11 @@
|
||||
PENDING
|
||||
Rmsi & julia coherence with image creation and colorbar
|
||||
avoid image enlargement -> CURRENT WIP
|
||||
image flip upside down
|
||||
colorbar revamp
|
||||
Multiple plot types
|
||||
Tag for time it takes in creating image and creating plots -> CURRENT WIP
|
||||
Create function that makes the imzML from mzML files
|
||||
Create function that makes the imzML from mzML files ?
|
||||
Possibility to add multiple imzML to process at once ?
|
||||
Pixel selection marks
|
||||
|
||||
Rotate vertical images
|
||||
Easier input for files
|
||||
TrIQ default values
|
||||
Comparative for two values
|
||||
Per pixel of image plot creation for spectra
|
||||
Multiple spectra plot types
|
||||
Even faster initial boot and subsectuential boot
|
||||
|
||||
DONE
|
||||
Quicker start for julia GUI
|
||||
@ -23,4 +16,11 @@ DONE
|
||||
Code cleanse
|
||||
better code readability
|
||||
Better blind search for images
|
||||
3d topography for images
|
||||
3d topology plots for images
|
||||
2d contour plots for images
|
||||
Image flip upside down
|
||||
Tag for time it takes in creating image and creating plots
|
||||
Rotate vertical images
|
||||
Easier input for files
|
||||
TrIQ default values
|
||||
Comparative for two views
|
||||
|
||||
Loading…
x
Reference in New Issue
Block a user