Cannot read JPEG2000 anymore after installing SNAP

[DimitrisS2]

Hello all,

I recently installed SNAP in my Ubuntu 16.04 machine, configure the Anaconda-SNAP interface, however now I cannot use properly my GDAL from terminal for reading the .jp2 files, when trying to work with these files I get the following warnings, which result to errors when running any process:

$ gdalinfo --version

Warning 1: Unable to find driver JP2OpenJPEG to unload from GDAL_SKIP environment variable.
Warning 1: Unable to find driver JPEG2000 to unload from GDAL_SKIP environment variable.
GDAL 2.1.0, released 2016/04/25

I tried to upgrade the gdal version with the following command but no installation takes place:

$ conda install -c conda-forge gdal=2.1.3
Fetching package metadata …
Solving package specifications: .

UnsatisfiableError: The following specifications were found to be in conflict:

• gdal 2.1.3* -> libspatialite -> proj4 4.9.3
• geotiff -> proj4 4.9.2
  Use "conda info " to see the dependencies for each package.

Any advice on how to solve this problem occured after the Anaconda installation?

[umwilm]

Please see the following answer which is also related to your problem:

Sen2cor on windows with gdal > 2.1.0

Sen2cor 2.3.1/Anaconda uses GDAL 2.1.0. This version of GDAL does not have a driver for opening jp2000 files. I need to use gdal >2.1.0 (for the jp2 drivers), but sen2cor has setup my User path variable GDAL_DATA to 2.1.0. Hence I cannot use other versions of GDAL from my ipython notebook. Even if i create a separate conda environment, and install GDAL 2.1.3, the notebook still picks up GDAL 2.1.0 ( because of user environment variable ). If I upgrade GDAL will sen2cor work with GDAL >2.1…