nkarasiak / museotoolbox Goto Github PK

It would be great to have a number of jobs to run in parallel museotoolbox.processing.RasterMath .
I mean, if a raster has 4 blocks or more, you can use n_jobs=4 to run in parallel each block for your function.

MuseoToolBox v2 should be built upon rasterio, especially rasterMath and other functions which use raster reading and writing process.

There's a bug in RasterMath when using multiple input images and a mask.
This should be solve with the new RasterMath well reorganized (thanks to Sigma student, Mr loop and Ms. Parallel)

How should data be imported-- it looks like load historical data just assigns pathnames to the variables, so would I just use raster = "~/path/to/raster.tiff" to use my own file?

What file formats are compatible with museo? shapefiles? NetCDF files? Does museo check whether the vector and raster projections match? If I am preparing an ROI file in, say, QGIS and want to use it for processing in Museo, what do I need to know about how to set up that file?

cc: openjournals/joss-reviews#1978

I think that the paper would benefit from a more specific comparison to the state-of-the-art in the field and how this package improves or differs. It may simply be that the explanation is unclear; the second sentence in the opening paragraph of the paper is very long and difficult to parse. There are also no references provided.

Tagging: openjournals/joss-reviews#1978

I'm installing this into a fresh python 3.5 anaconda evironment on mac osx 10.14.6.

Installation as per readme file returned no errors, however when trying to folow an example I couldn't import museotoolbox.

initially, I got an error like "couldn't find osgeo" so I installed gdal via conda, then tried again, got the following:
ImportError: dlopen(//anaconda/envs/ipykernel_py3/lib/python3.5/site-packages/osgeo/_gdal.so, 2): Library not loaded: @rpath/libjpeg.8.dylib
Referenced from: /anaconda/envs/ipykernel_py3/lib/libgdal.20.dylib
Reason: image not found

Eventual solution found here: https://hackernoon.com/install-python-gdal-using-conda-on-mac-8f320ca36d90 -- downgrade jpeg from 9 to 8: conda install -f jpeg=8

probably should include gdal as a dependency and maybe flag the jpeg problem on the readme to save someone some time

cc: openjournals/joss-reviews#1978

The bot encountered an error in your .pyup.yml config file:

  in "<unicode string>", line 8, column 1:
    branch:develop
    ^
could not find expected ':'
  in "<unicode string>", line 10, column 1:
    # search for requirement files
    ^

You can validate it with this online YAML parser or by taking a look at the Documentation.

SpatialLeavePSideOut from crossValidation must be activated for v1.0-beta.

Starting from a fresh install of miniconda with this package installed.

from museotoolbox.ai import SuperLearner

fails with

ModuleNotFoundError: No module named 'osgeo'

Which isn't in the requirements.txt.

openjournals/joss-reviews#1978

When installing with python3 -m pip install museotoolbox --user, pip throws the following:

WARNING: The scripts f2py, f2py3 and f2py3.7 are installed in '/home/[user]/.local/bin' which is not on PATH.
Consider adding this directory to PATH or, if you prefer to suppress this warning, use --no-warn-script-location.

This might be a non-issue for functionality. I don't know.

openjournals/joss-reviews#1978

André MIRALLES highlighted a bug when using getSamplesFromROI in conda env using Windows.

Things to do :

• Do getSamplesFromROI by default in memory
• If not enough memory, do the work by writing image on temp folder then remove it