// 1P Calcium Imaging Toolset


var sCmds = newMenu("Stacks Menu Tool",
	newArray("Add Slice", "Delete Slice", "Next Slice [>]", "Previous Slice [<]", "Set Slice...", "-",
		"Convert Images to Stack", "Convert Stack to Images", "Make Montage...", "Reslice [/]...", "Z Project...",
		"3D Project...", "Plot Z-axis Profile", "-", "Start Animation", "Stop Animation", "Animation Options...",
		"-", "MRI Stack (528K)"));
macro "Stacks Menu Tool - C037T0b11ST8b09tTcb09k" {
	cmd = getArgument();
	if (cmd!="-") run(cmd);
}

var luts = getLutMenu();
var lCmds = newMenu("LUT Menu Tool", luts);
macro "LUT Menu Tool - C037T0b11LT6b09UTcb09T" {
	cmd = getArgument();
	if (cmd!="-") run(cmd);
}
function getLutMenu() {
	list = getLutList();
	menu = newArray(16+list.length);
	menu[0] = "Invert LUT"; menu[1] = "Apply LUT"; menu[2] = "-";
	menu[3] = "Fire"; menu[4] = "Grays"; menu[5] = "Ice";
	menu[6] = "Spectrum"; menu[7] = "3-3-2 RGB"; menu[8] = "Red";
	menu[9] = "Green"; menu[10] = "Blue"; menu[11] = "Cyan";
	menu[12] = "Magenta"; menu[13] = "Yellow"; menu[14] = "Red/Green";
	menu[15] = "-";
	for (i=0; i<list.length; i++)
		menu[i+16] = list[i];
	return menu;
}

function getLutList() {
	lutdir = getDirectory("luts");
	list = newArray("No LUTs in /ImageJ/luts");
	if (!File.exists(lutdir))
		return list;
	rawlist = getFileList(lutdir);
	if (rawlist.length==0)
		return list;
	count = 0;
	for (i=0; i< rawlist.length; i++)
		if (endsWith(rawlist[i], ".lut")) count++;
	if (count==0)
		return list;
	list = newArray(count);
	index = 0;
	for (i=0; i< rawlist.length; i++) {
		if (endsWith(rawlist[i], ".lut"))
			list[index++] = substring(rawlist[i], 0, lengthOf(rawlist[i])-4);
	}
	return list;
}

macro "Raw Image Importer (Bioformats) Action Tool - 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" {
	run("Bio-Formats Importer");
	// Rename images after importing to file parent name - PMT1, SRS, PMT3
	runMacro("SicLab_imgrename_ext.ijm");
}

macro "Open Virtual Stack Action Tool - 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" {
	run("TIFF Virtual Stack...");
}

// Concatenate Stacks
macro "Concatenate Stacks Action Tool - C037T0b11CT6b09aTcb09t" {
	// Work around not ideal
	run("Edit...", "open=C:/Unprotected/Fiji.app/macros/StackConcat.ijm");
	
	// runMacro() doesnt handle #@ calls
	// which is the only way to get multiselection dialog to work
	// Until then, script must be run manually
}


// B&C tool
macro "Adjust Brightness and Contrast Action Tool - 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" {
    run("Brightness/Contrast...");
}

// Z project
macro "Maximum Intensity Projection Action Tool (+shift = Avg; +space = StDev; +alt = ZProj Menu) - C902T3f18Z" {
	n = nSlices;
    if (isKeyDown("shift")) {
    run("Z Project...", "projection=[Average Intensity]");
    }
    else if (isKeyDown("space")) {
    run("Z Project...", "projection=[Standard Deviation]");
    }
    else if (isKeyDown("alt")) {
    run("Z Project...");
    }
    else {
    	run("Z Project...", "projection=[Max Intensity]");
    	}
    	
}

// Plot Z projection
macro "Plot Z Axis Profile Action Tool - C000D0dD0eD13D14D15D16D17D18D19D1aD1bD1cD1dD20D21D22D23D24D25D26D27D28D29D2aD2bD2cD2fD33D34D35D36D37D38D39D3aD3bD3eD3fD47D48D49D4aD4dD4eD4fD5cD5dD5eD5fD6bD6cD6dD6eD6fD7dD7eD7fD8dD8eD8fD9dD9eD9fDaeDafDbeDbfDcfDdfDefDffC000C111C222C333C444D1fD2eD3dD4cD5bD6aD79D87D88D96Da5Db4Dc3Dd2De1Df0C444C555C666C777C888C999CaaaCbbbCcccD0fD1eD2dD3cD4bD5aD69D78D86D95Da4Db3Dc2Dd1De0CcccCdddCeeeCfff"{
	run("Plot Z-axis Profile")
}
/*/ Temporal Color Code
macro "Temporal Color Code Action Tool - C57dD5fCba3D71CfffD00D01D06D07D08D09D0aD0bD0cD0dD0eD0fD10D16D17D18D19D1aD1bD1cD1dD1eD1fD20D26D27D28D29D2aD2bD2cD2dD2eD2fD3aD3bD3cD3dD4aD4bD4cD4dD5aD5bD5cD6aD6bD75D7aDadDbcDbdDc0DcbDccDcdDd0Dd1Dd2Dd3Dd4Dd5DdaDdbDdcDddDdeDe0De1De2De3De4De9DeaDebDecDedDeeDefDf0Df1Df2Df3Df4Df7Df8Df9DfaDfbDfcDfdDfeDffCc22D61CfeeDd9CaaaD7cDa2C656D6fCedcD7dCe98D40Cb94D92CfffDc1De8Cec9D67D68D95D96Ca33Dc9CeccDa8DcaCb98D6dCb85D45CffeD30Cec8D24D34D66D86C47aDb4CeeeD3fD6cD7bDafDbfCeb8D44D54D94Cb86D5eCfffD11Db0Cfc9D55D77D87Ca33D9aDa9Dd7CdddD4fD8fD9dCb97Da7Cd44DaaDb9CeeeD4eD9eDcfCbbbDc2Ca55Dd8CedcD5dCeb8D48Cc95Da6Cec9D58Ca91D82CdddD9fCeb7D33D43D53D93Cc65D42CfffD3eD8cDaeDbeDceDdfCebbD99C976D7eCeb8D14D32D57D73Da5Cc96D37Db6Cfc9D56Ca33De6Df5C7adDb2Cca4D72Cc33D9bCfeeD02D36Dc6CbaaD7fCa74D59D69Ceb8D13D23D63D83Cb86D79Ca74D25D35D74Cea7D22Cc66Dc7C47bDc3Ceb8D76Cc96D64D84Cda6D47Ce44D50CdaaDe5Cb85D65D85CeddDb7Cdb8Db1Cc95Db5Ca92D91Ced7D81Cc88Dd6CdccD8aC999D8dDa4Cb87D98CecaD21C933DabDbaCcb4D80Ca74D15D46Cdb8D03D12Cb85D04D38D97Ca33Db8Cda7D31Cb85D88C877Dc4Cb96D49Cc96Dc5Cc64D62CcccD8eCd75D60CdcbD39D89C977D9cC8bfDb3Cda5D70Cd33D41Ccb9D05Cdb7D78Cb77De7C69cDa3Cdb6D90CdbbDacDbbCd95D6eCf77D51Ca99D8bCc88Df6CedbDa0Cb33Dc8Cda7Da1" {
runMacro("Temporal-Color_Code2.ijm");
}
*/

// Stack Normalization Tool
macro "Stack dF/F (+shift= Rolling dF/F) Action Tool - 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" {
	if isKeyDown("Shift") {
		runMacro("dFFnorm_rolling.ijm");
	} else {
	runMacro("StackNormalizationTool");
	}
}

/*
// Difference Image Action Tool
macro "Difference Image Action Tool - CdddD36D55D78C35cD8bCfffD00D01D0eD0fD10D11D13D14D15D1fD20D21D23D2fD30D31D33D3fD40D41D43D4fD50D51D53D57D5fD60D61D63D67D6fD70D71D73D76D77D7fD80D81D8fD90D91D93D9fDa0Da1Da3DafDb0Db1Db3DbfDc0Dc1Dc3DcfDd0Dd1Dd3DdfDe0De1De3De4De5DefDf0Df1DfeDffC888D4aD4bCdefDb7Dc5CbbbD26D47C24aD88CeeeD1eDeeC9cdDc9CabbD09D0aDf9DfaCfffD46D56D66CcccD25D35C899D1dD2dD3dD4dD5dD6dD7dD9dDadDbdDcdDddDedCeeeD2eD3eD4eD5eD6eD7eD8eD9eDaeDbeDceDdeCbccD04D05D06Df4Df5Df6C9aaD0dDfdCeffD19D1aDe9DeaCbccD03D12D22D32D42D52D62D72D92Da2Db2Dc2Dd2De2Df3C35bD86CeffD1bD2cD3cD4cD5cD6cD7cD9cDacDbcDccDdcDebC9cfDdbCbbbD24D34D44D54D64D74CfffD16D17Dd8De6De7CbdfDa6C777D27D69C57eD83C999D6aD6bCeffDa8Db8Dc7CcccD68C24bD89C9cfD95CabbD07D08Df7Df8CeffD18D1cDe8DecCcddD02Df2C7beDabCaaaD7bCeffDc8Dd7C6aaDa9CacfDc4CdefD98C555D38D49C46dD84C999D5aD5bCeefDa7Dd6C24aD87C8cfDcbCdddD45D65D75C9aaD0bDfbC59aD99CacfDd4CbefDcaC888D3aD3bD79C7adD9bC9aaD0cDfcC24bD8aC9cfDaaC8beDbbCaaaD58D7aC7abDb9CadfD96Db5CdefD97Dc6Dd5C555D29D39C36cD85CcdfDb6C777D2aD2bD37C68eD82C8beD9aC666D48D59C35dD8cCadfDbaCbefDdaC59fD94CbdfDd9C8bfDa5Db4C46eD8dC5afDa4" {
	runMacro("DifferenceImageTool");
}*/

macro "Morph Segment Action Tool - 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" {
	runMacro("OHSU_CaSegment_morph.ijm");
}

/*
// Calculator Plus Tool
macro "CalculatorPlus (+shift = imageCalculator) Action Tool - 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" {
	if (isKeyDown('shift')) {
		run("Image Calculator...")
	}
	else {
		run("Calculator Plus");
	}
}
*/

// Circle/Quadrants ROI
macro "Concentric Circle ROI Action Tool - C69bD09De9C28dDa9CcffDb3C369D07De7C8beD54C49cD95CfffD00D01D02D0cD0dD0eD0fD10D11D1dD1eD1fD20D2eD2fD3fD4fD5fD6fD7fD8fD9fDafDc0Dd0Dd1De0De1De2DeeDefDf0Df1Df2Df3Df4Df5Df6Df7Df8Df9DfaDfeDffC0a4Dc9C6beD31Da1Db1C39cD76CdefD12D21Dc1Dd2C28cD48D58D68CbddDeaC49eD27D3bC1a4DbbC6aeDc5C38cD18D2bD4dDb6Dd7CdefD1cD2dC17bDb7CadeD63C5adD85C6a6DbfDdfC7bfD6cD7cD7dD8cC39dD4aCfffD03D0bD30D3eDb0De3C38cD87Dc6CaefDc4C4aeD70C193DdbC6adD15D5eD9eC38dD59D89Dc7CcffD52D53D81D93Da3C47aD08De8C9ceD51Dc3C49dD25C2e3DcdC7beD16C49dD26D3cC48cD2cDd4CbdeD4eDaeC5aeD5dC196Db9C7bdD94C39dD2aD3aD98D99CdffD92Da2C37bD19CadfD44D74Da4C5adD22Dc2C6b6DfdC6bfDa6C49dD5aD6aD8aC49cD14CbefD84C5aeD5bC093DdaC69cD05De5C28dD39D49C16bDb8C7beDb5C49cDd6C3a4DfcC39dD97C28cD36D47D57D67D77D78CbdeD04De4C49eD7aC3a3DddDedC6aeD6bD7bD8bC28cD28D37D38D88CadfD62C6adD13Dd3Dd5C49dD9aCbefD40D43Da0C4afDa8C383DcfC6bdD34D75C39dD69D79C47aD06De6C9ceD72C4adD45C4e5DacDbcDccDdcDecC6bfD5cC39dD46D56D66C58bD1bCbdfD71C5aeDd8C1a6Dd9C7beD32D64C38cD7eDaaCadfD73D91C5adD24D65C6c7DfbC7cfD96C6e7DcaCcefD82D83C5afDa7C183DbdC28dD29C8ceD33C1a4DbaC49cD6eD8eCbcdD0aCadeD42CaefDb4C5beD60D80C193D9cC4adD35C6afD6dD8dC5aeD41D86C296D9dC7beD23C38bD17C7cfD50D90C093DabC37bD1aC8dfDa5C59cD3dC3b4DebC4aeD4bCadfD61C4afDc8C393DbeDdeC9deDb2C5adD55C2a6D9bC5e6DcbC5afD4cC1d2Dce" {
runMacro("drawCirclesAndQuadrants.ijm");
}

macro "Stack TIME Multimeasure Action Tool - C037T0b11ST8b09tTcb09t" {
	// Spits out the time intensity results
	// Copies the file name (w/o extension) to clipboard
	stk = getTitle(); 
	roiManager("show all without labels");
	run("Set Measurements...", "mean redirect=None decimal=3");
	roiManager("multi measure one");
	String.copy(File.getNameWithoutExtension(getInfo("image.directory")+getInfo("image.filename"))+"_results");

}

macro "Stack POS Multimeasure Action Tool - C037T0b11ST8b09tTcb09P" {
	// Spits out the ROI position and Area results
	// Copies the file name (w/o extension) to clipboard
	stk = getTitle(); 
	roiManager("show all without labels");
	run("Set Measurements...", "area centroid redirect=None decimal=3");
roiManager("multi-measure");
	String.copy(File.getNameWithoutExtension(getInfo("image.directory")+getInfo("image.filename"))+"_pos");
}

macro "Shrink ROIs Action Tool - " {
	// Erodes ROIs in the ROI Manager by 1 pixel
	getDimensions(width, height, channels, slices, frames);
	newImage("Reduced ROIs", "8-bit black", width, height, 1);
	newmask = getTitle(); 
	roiManager("show all without labels");
	roiManager("fill");
	run("Convert to Mask");
	run("Erode");
	run("Analyze Particles...", "clear add");
}