Subject: Marine Geospatial Ecology Tools (MGET) help
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- From: "BERRY, Robert" <>
- To: "" <>
- Subject: [mget-help] Problem running Diversity Index
- Date: Tue, 23 Aug 2016 16:11:10 +0000
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Hi All
I think I have all the tools in place to run MGET (it has installed properly) but I'm receiving the following error message when I attempt to run a diversity index. It is related to RPy:
Messages
Executing: SpeciesDiversityCalculateDiversityIndexForArcGISPolygons C:\Users\Rob\Dropbox\Data\1_RESEARCH\Resilience\Landscape_Diversity\Boundaries\Counties_NOHOLES.shp "Shannon index" HECTARES C:\Users\Rob\Dropbox\Data\1_RESEARCH\Resilience\Landscape_Diversity\LCM\2007_1k_point_clipBNG.shp Land_Type Land_Type # #
Start Time: Tue Aug 23 16:54:37 2016
Running script SpeciesDiversityCalculateDiversityIndexForArcGISPolygons...
Traceback (most recent call last):
File "C:\Program Files\GeoEco\ArcGISToolbox\Scripts\SpeciesDiversityCalculateDiversityIndexForArcGISPolygons.py", line 5, in <module>
ExecuteMethodFromCommandLineAsArcGISTool('GeoEco.SpatialAnalysis.Diversity', 'SpeciesDiversity', 'CalculateDiversityIndexForArcGISPolygons')
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\ArcGISScripts.py", line 210, in ExecuteMethodFromCommandLineAsArcGISTool
exec sourceCode in globals(), locals()
File "<string>", line 1, in <module>
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\SpatialAnalysis\Diversity.py", line 31, in CalculateDiversityIndexForArcGISPolygons
cls.__doc__.Obj.ValidateMethodInvocation()
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\Metadata.py", line 462, in ValidateMethodInvocation
self.InitializeDependency(d)
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\Metadata.py", line 512, in InitializeDependency
d.Initialize()
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\R.py", line 386, in Initialize
from GeoEco.AssimilatedModules.rpy import rpy
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\AssimilatedModules\rpy\rpy.py", line 150, in <module>
""" % RVERSION)
RuntimeError: No module named _rpy3024
RPy module can not be imported. Please check if your rpy
installation supports R 3.2.4. If you have multiple R versions
installed, you may need to set RHOME before importing rpy. For
example:
>>> from rpy_options import set_options
>>> set_options(RHOME='c:/progra~1/r/rw2011/')
>>> from rpy import *
Failed to execute (SpeciesDiversityCalculateDiversityIndexForArcGISPolygons).
Failed at Tue Aug 23 16:54:37 2016 (Elapsed Time: 0.11 seconds)
I'm not sure what I have to do in terms of setting RHOME
Any help much appreciated
Cheers
Rob
Executing: SpeciesDiversityCalculateDiversityIndexForArcGISPolygons C:\Users\Rob\Dropbox\Data\1_RESEARCH\Resilience\Landscape_Diversity\Boundaries\Counties_NOHOLES.shp "Shannon index" HECTARES C:\Users\Rob\Dropbox\Data\1_RESEARCH\Resilience\Landscape_Diversity\LCM\2007_1k_point_clipBNG.shp Land_Type Land_Type # #
Start Time: Tue Aug 23 16:54:37 2016
Running script SpeciesDiversityCalculateDiversityIndexForArcGISPolygons...
Traceback (most recent call last):
File "C:\Program Files\GeoEco\ArcGISToolbox\Scripts\SpeciesDiversityCalculateDiversityIndexForArcGISPolygons.py", line 5, in <module>
ExecuteMethodFromCommandLineAsArcGISTool('GeoEco.SpatialAnalysis.Diversity', 'SpeciesDiversity', 'CalculateDiversityIndexForArcGISPolygons')
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\ArcGISScripts.py", line 210, in ExecuteMethodFromCommandLineAsArcGISTool
exec sourceCode in globals(), locals()
File "<string>", line 1, in <module>
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\SpatialAnalysis\Diversity.py", line 31, in CalculateDiversityIndexForArcGISPolygons
cls.__doc__.Obj.ValidateMethodInvocation()
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\Metadata.py", line 462, in ValidateMethodInvocation
self.InitializeDependency(d)
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\Metadata.py", line 512, in InitializeDependency
d.Initialize()
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\R.py", line 386, in Initialize
from GeoEco.AssimilatedModules.rpy import rpy
File "C:\Python27\ArcGIS10.2\lib\site-packages\GeoEco\AssimilatedModules\rpy\rpy.py", line 150, in <module>
""" % RVERSION)
RuntimeError: No module named _rpy3024
RPy module can not be imported. Please check if your rpy
installation supports R 3.2.4. If you have multiple R versions
installed, you may need to set RHOME before importing rpy. For
example:
>>> from rpy_options import set_options
>>> set_options(RHOME='c:/progra~1/r/rw2011/')
>>> from rpy import *
Failed to execute (SpeciesDiversityCalculateDiversityIndexForArcGISPolygons).
Failed at Tue Aug 23 16:54:37 2016 (Elapsed Time: 0.11 seconds)
I'm not sure what I have to do in terms of setting RHOME
Any help much appreciated
Cheers
Rob
Dr Robert Berry
Research Fellow
Countryside and Community Research Institute (CCRI)
University of Gloucestershire
Oxstalls Campus
Gloucester, UK
GL2 9HW
T: 01242 714120
M: 07970 433587
Skype: robert_berry_uk
@rural_gis
Staff Web page
CCRI Website
CCRI Year in Review
CCRI on Twitter
CCRI on Facebook
CCRI on Slideshare
Research Fellow
Countryside and Community Research Institute (CCRI)
University of Gloucestershire
Oxstalls Campus
Gloucester, UK
GL2 9HW
T: 01242 714120
M: 07970 433587
Skype: robert_berry_uk
@rural_gis
Staff Web page
CCRI Website
CCRI Year in Review
CCRI on Twitter
CCRI on Facebook
CCRI on Slideshare
- [mget-help] Problem running Diversity Index, BERRY, Robert, 08/23/2016
- RE: [mget-help] Problem running Diversity Index, Jason Roberts, 08/23/2016
- Re: [mget-help] Problem running Diversity Index, BERRY, Robert, 08/24/2016
- RE: [mget-help] Problem running Diversity Index, Jason Roberts, 08/23/2016
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