I've noticed that my cloud mask wasn't working, so I've tried this simple test: https://code.earthengine.google.com/50699c2eaa1a873ccd28f26c583c5a45

But my data uses the Surface Reflectance Landsat 8 imagery so, I just changed to that, and since there's no fmask band in this, I've changed to the 'pixel_qa' that also make those distinctions. I thought it was the same, but isn't working.

Code: //Choose country using GEE Feature Collection

var region = ee.FeatureCollection('ft:1tdSwUL7MVpOauSgRzqVTOwdfy17KDbw-1d9omPw').filterMetadata('Country', 'equals', 'Portugal');

//Add region outline to layer ‐ for selected countries

Map.addLayer(region,{}, 'Portugal');

var landsat8 = ee.ImageCollection('LANDSAT/LC08/C01/T1_SR')

// Fmask classification values var FMASK_CLEAR_GROUND = 0; var FMASK_WATER = 2; var FMASK_CLOUD_SHADOW = 3; var FMASK_SNOW = 4; var FMASK_CLOUD = 5;

var mosaic = landsat8 .filterBounds(region) .filterDate('2017-08-01', '2017-10-11') .mosaic();

// Update the mask on our mosaic to mask cloud and cloud shadow pixels var fmask = mosaic.select('pixel_qa'); var cloudMask = fmask.neq(FMASK_CLOUD).and(fmask.neq(FMASK_CLOUD_SHADOW)); var maskedMosaic = mosaic.updateMask(cloudMask);

Map.addLayer(fmask, {min:0, max:5, palette:'green, blue, black, cyan, pink, white'}, 'Fmask'); Map.addLayer(maskedMosaic.select('B4'), {min:0, max:0.5, palette:'yellow, green'}, 'Masked NIR');

I've noticed that my cloud mask wasn't working, so I've tried this simple test: https://code.earthengine.google.com/50699c2eaa1a873ccd28f26c583c5a45

But my data uses the Surface Reflectance Landsat 8 imagery so, I just changed to that, and since there's no fmask band in this, I've changed to the 'pixel_qa' that also make those distinctions. I thought it was the same, but isn't working.

Code:

//Choose country using GEE Feature Collection

var region = ee.FeatureCollection('ft:1tdSwUL7MVpOauSgRzqVTOwdfy17KDbw-1d9omPw').filterMetadata('Country', 'equals', 'Portugal');

//Add region outline to layer ‐ for selected countries

Map.addLayer(region,{}, 'Portugal');

var landsat8 = ee.ImageCollection('LANDSAT/LC08/C01/T1_SR')

// Fmask classification values
var FMASK_CLEAR_GROUND = 0;
var FMASK_WATER = 2;
var FMASK_CLOUD_SHADOW = 3;
var FMASK_SNOW = 4;
var FMASK_CLOUD = 5;

var mosaic = landsat8
  .filterBounds(region)
  .filterDate('2017-08-01', '2017-10-11')
  .mosaic();

// Update the mask on our mosaic to mask cloud and cloud shadow pixels
var fmask = mosaic.select('pixel_qa');
var cloudMask = fmask.neq(FMASK_CLOUD).and(fmask.neq(FMASK_CLOUD_SHADOW));
var maskedMosaic = mosaic.updateMask(cloudMask);

Map.addLayer(fmask, {min:0, max:5, palette:'green, blue, black, cyan, pink, white'}, 'Fmask');
Map.addLayer(maskedMosaic.select('B4'), {min:0, max:0.5, palette:'yellow, green'}, 'Masked NIR');