Questions tagged [xarray]
xarray is a Python module for working with N-dimensional arrays
135
questions
0
votes
0
answers
41
views
Earth Engine client library not initialized when using a dask cluster and xarray?
I'm trying to test running a simple math operation client-side using xee, an xarray extension for the Google Earth Engine API. When I set up the Dask client and run the compute() method I keep getting
...
0
votes
1
answer
49
views
xee: Total request size (56623104 bytes) must be less than or equal to 50331648 bytes
I am using xee, an extension of xarray to work with data from Google Earth Engine. I am trying to test computing NDVI through an xarray of Landsat imagery, but I keep getting this error.
EEException: ...
2
votes
1
answer
36
views
Create .nc file from multiple tif files : metadata time
I'm trying to create a single .nc file with 3 dimensions : x,y and time. In order to do so I have multiple tif files named by their date : 2013-04-24_Turb.tif for the 24-04-2013. I would like to do ...
1
vote
0
answers
34
views
All-NaN slice encountered when apply xr_phenology function?
I want calculate vegetation phenology from ndvi netcdf dataset, I follow yours tutorials (DEA Australia and DEA Africa) to apply xr_phenology
function , defined here. To avoid killed kernel of my ...
0
votes
1
answer
34
views
Invert latitude of NetCDF in Python / xarray
I thought it would be straight up, but I don't find a question like this one here.
I created a NetCDF out of a GeoTIFF, but it did not have coordinates or CRS.
I added it doing this:
coords = {
'time' ...
0
votes
0
answers
76
views
rioxarray.open_rasterio() won't close a file when using it with a context manager
I am writing some unit tests to test reading in raster data into an xr.Dataset data structure via the rioxarray.open_rasterio() method. The code creates a test raster to read into rioxarray....
0
votes
0
answers
101
views
Performance difference between xarray open_mfdataset and open_dataset
I'm dealing with CMIP6 Scenariomip data, I have eight ESMs precipitation grid that each one is composed by multiple netcdf files. There is one ESMs's netcdf files are seperately reserved every decade, ...
0
votes
0
answers
138
views
Low performance when writing a large xarray.DataArray with dask
I'm preprocessing HMASR data, the data contains multiple data files with format of netcdf, and each tile (1X1 degree) is a nc file. So I read it through xarray open_mfdataset() to mosaic it spatially ...
1
vote
1
answer
132
views
While exporting the rasters using rioxarray, nodata value is undefined after the mask
I have used xarray to open the netcdf file, and using rioxarray exported the raster as a .tif file. However, the exported raster doesn't have definition for nodata value, and hence, the GIS software ...
0
votes
1
answer
361
views
AttributeError: 'Dataset' object has no attribute 'rio' when using a LocalCluster from dask.distributed
I am trying to parallelize a function that uses a zarr datacube read from an s3 bucket to perform some calculations. However, when using a LocalCluster from dask.distributed, I lose the .rio accessor ...
0
votes
0
answers
124
views
xarray : no such file directory
I'm trying to transform a .nc file in .tiff using this code :
import xarray as xr
import rioxarray as rio
nc_file = xr.open_dataset("C:/Users/aurel/OneDrive/Documents/Mémoire/Datasets/CCI_lake/...
0
votes
0
answers
61
views
How can I extract the array indices from a xarray.rio.clip operation?
I have a line of code that clips a Dataset from a larger xarray.core.dataset.Dataset.
clipped = ds.rio.clip([user_polygon], crs=4326, all_touched=True)
I need to process many of these large datasets (...
1
vote
0
answers
26
views
Buffer Error when using xarray
When I tried to using python package "xarray" to read grib files, I got an error. It's quite weird, because I had did it successfully yesterday.
This is my code:
import xarray as xr
import ...
0
votes
1
answer
45
views
Gridworkflow intersection with other spatial objects such as a geodataframe
I am working with a large GridWorkFlow object; I am not able to load all the tiles due to in-memory compute resources (24.00 GB mem 8 CPU) and do not need to either. I am interested in intersecting ...
3
votes
1
answer
411
views
How to write CRS info to NetCDF in a way QGIS can read? (Python/Xarray)
I have a NetCDF file I have subset by geometry and time, and now I need to save it as a new NetCDF file. The original file does not have the CRS set, thus I am setting it in this one. The problem is ...
0
votes
1
answer
66
views
QGIS crashes with "bad_alloc" when processing NetCDF file using xarray
I need to merge multiple NetCDF files in a QGIS plugin I am developing. I'm using xarray to do so, however, QGIS crashes with the error "Critical: Caught unhandled std::exception: std::bad_alloc&...
0
votes
0
answers
44
views
Change dtype of coordinates NetCDF
I was wondering how to change the dtype from float32 to float64 of coordinates.
I can run the following code in the terminal
ncap2 -s 'lat=double(lat); lon=double(lon)' infile.nc outfile.nc
How ever ...
0
votes
1
answer
279
views
Transform ee.ImageCollection to xr.Dataset in Python (via Colab)
I am trying to transform an ee.ImageCollection (Landsat) for a Region of Interest into an xr.Dataset so I can further process the data and ultimately export as a .csv. I have tried using the library ...
0
votes
1
answer
603
views
Extract nearest values from NetCDF file in Python
I have a NetCDF database (link to file) obtained from Copernicus Climate Data of ~43k unevenly spaced values around the world. Instead of being indexed using (lat, lon) it uses a sequence of 'stations'...
0
votes
0
answers
57
views
How to open NetCDF4-CF files from SMAP in xarray
I've downloaded a list of netCDF4-CF files from SMAP (Following this guide in jupyter notebook) to get daily soil moisture data over 2020 in South Sudan. The result is a series of .nc files that I ...
1
vote
0
answers
100
views
Landsat from Planetary Computer unexpectedly turns up all no data in some regions
Using some code that gathers Landsat 8 collections from Microsoft Planetary Computer into Open Data Cube xarray using a stac search works fine in some regions but in others returns all nan values. ...
1
vote
0
answers
387
views
Loading geospatial datasets with rioxarray
I'm using xarray to open and reproject some .grib files. The files have x, y, and time dimensions and contain several data variables. However, I have some issues with loading the data.
Loading them ...
-1
votes
1
answer
58
views
Extending raster after rasterizing geodataframe using geocube
I have created rasterized a geodataframe using geocube make_geocube.
The resulting xr.Dataset now has the extent of the underlying geodataframe vector data.
Say, the bounding box would be covering ...
0
votes
1
answer
77
views
GeoTIFF from Dataset is very weight and with three bands instead of one
I need to compute the NDVI from an xarray Dataset created using this solution. I've used a for loop to read all the GeoTIFFs in my folder and the result is this:
<xarray.Dataset>
Dimensions: ...
0
votes
1
answer
358
views
Memory filled with Xarray concat function
I'm facing in trouble related to the limit of my RAM. On my PC I have 32GB of RAM that is totaly filled from the concat of some DataArray.
I've create e simple function below to read a single band of ...
1
vote
1
answer
222
views
Using Python (in Colab), how to convert a multiband ee.Image into an ee.ImageCollection?
I ultimately want to convert an ee.Image to an xarray object so I can further process the data.
I know the library wxee can do that with ee.ImageCollection.wx.to_xarray(). However, it requires an ee....
1
vote
0
answers
177
views
Saving extracted array into new NetCDF file
I have a NetCDF file which looks like this:
<xarray.Dataset>
Dimensions: (time: 180, d2: 2, lat: 180, lon: 360)
Coordinates:
* time (time) object 2000-01-15 12:00:00 ... 2014-12-15 12:...
0
votes
0
answers
364
views
Using rioxarray clip_box function does not return anything
I am trying to clip an xarray dataarray (or dataset, either one) to a bounding box using the rioxarray clip_box() function. My dataarray is 24 hours of temperature data for the continental US. My ...
1
vote
1
answer
1k
views
Interpolate irregularly sampled data to a regular grid
I'm using .nc files with spatially referenced timeseries data in xarray, i.e. inherently 3-dimensional data (lat, lon, time). My issue is, that the dataset's coordinates lat and lon are merged to a ...
0
votes
1
answer
596
views
Saving plot from .nc file without showing the plot
I am trying to save the sequence of plots of 24 hours of ERA5 data from .nc file without plotting them. I am using xarray for reading .nc data. Here is my code:
import xarray as xr
import matplotlib....