Installing RSGISLib with Tuiview and Imagecalc error

[yan...@gmail.com]

Hi everyone, 

Happy new year! I am new to RSGISLib Group and I am interested in this software regarding to image segmentation problems and was following the documentation through rsgislib websites. This documentation paper called RSGISLib_IntroTraining_Jan2018.pdf shows me how to install software packages in Windows systems. I followed the instructions: installed a virtual box, a virtual environment, conda, and all softwares like rsgislib, rios, tuiview, scikit-learn matplotlib h5py on page 13. We updated the system and checked the version as well. The next step was to check tuiview.

So we had two problems followed:

1). When we typed tuiview, it won't start and came to an error.

2) When we started the first tutorial section on page 18, I used the script obtained from the website and ran it, it came up with an error.

Below is what it said

tuiview error:

Traceback (most recent call last):
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/bin/tuiview", line 7, in <module>
    from tuiview.viewerapplication import run
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/tuiview/viewerapplication.py", line 27, in <module>
    from . import geolinkedviewers
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/tuiview/geolinkedviewers.py", line 27, in <module>
    from . import viewerwindow
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/tuiview/viewerwindow.py", line 39, in <module>
    from . import viewerwidget
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/tuiview/viewerwidget.py", line 31, in <module>
    from . import viewerlayers
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/tuiview/viewerlayers.py", line 27, in <module>
    from osgeo import gdal
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/osgeo/__init__.py", line 21, in <module>
    _gdal = swig_import_helper()
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/osgeo/__init__.py", line 17, in swig_import_helper
    _mod = imp.load_module('_gdal', fp, pathname, description)
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/imp.py", line 243, in load_module
    return load_dynamic(name, filename, file)
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/imp.py", line 343, in load_dynamic
    return _load(spec)
ImportError: /home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/osgeo/../../../libgdal.so.20: undefined symbol: _ZN6libdap3DDSC1EPNS_15BaseTypeFactoryERKSs

script error:

Traceback (most recent call last):
  File "01_BandMaths.py", line 5, in <module>
    from rsgislib import imagecalc
  File "/home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/rsgislib/imagecalc/__init__.py", line 6, in <module>
    from ._imagecalc import *
ImportError: /home/kevin/miniconda3/envs/osgeo-env-v1/lib/python3.5/site-packages/rsgislib/imagecalc/../../../.././libgdal.so.20: undefined symbol: _ZN6libdap3DDSC1EPNS_15BaseTypeFactoryERKSs

I saw some people had similar problems as well, if some of you know how to fix this, please share it with me and I will appreciate a lot! Thank you for reading!

Hope to hear from you guys soon!

Best,

Hongli

[Matteo Corvi]

HI Hongli,

for me downgrading the libgcc-ng library to version 7.2.0 did the trick. Try creating a new environment in conda with

conda create -c conda-forge -n new-env python=3.6 libgcc-ng=7.2.0 rsgislib arcsi openblas tuiview

It now throws some warnings every now and then but it's working. Remember that if you use update --all after this you still have to revert back to 7.2.0 at the end.

All the best,

Matteo