[GRASS-stats] R 3.3.1 and GRASSGIS 7.0.4
Helmut Kudrnovsky
hellik at web.de
Fri Jul 8 16:37:14 PDT 2016
Anna Petrášová wrote
> Hi,
>
> In order for GRASS to be able to find R executables, R must be on the
> PATH variable. Follow for example this solution:
>
> https://pvanb.wordpress.com/2014/12/17/access-r-from-grass-gis-on-windows/
>
> to make R accessible from GRASS permanently. A simple but temporary
> solution is to open GRASS GIS and paste the path to R in the black
> terminal:
>
> set PATH=%PATH%;C:\Program Files\R\R-3.3.1\bin
>
> but this has to be repeated after restarting GRASS session.
>
> Anna
>
>
>
> On Fri, Jul 1, 2016 at 4:19 PM, C. Buerger IV <
> cbuerger4@
> > wrote:
>> I'm attempting to use the FUTURES model for GRASSGIS, which requires an
>> interface with R to use the drudge function. I'm running Windows 7 and
>> the
>> automatic linkup between R and GRASS does not seem to be happening. When
>> working from the FUTURES package
>> I have run:
>>
>> r.futures.potential -d input=sampling at practice1 output=potential.csv
>> columns=devpressure_0_5_92,slope,road_dens_perc,forest_1992_smooth_perc,dist_to_water_km,dist_to_protected_km,dist_interchanges_km,travel_time_cities
>> developed_column=urban_change_clip subregions_column=counties
>> min_variables=4 --overwrite
>>
>> and get:
>>
>> Running automatic model selection ...
>> Traceback (most recent call last):
>> File "C:\Users\buer3379\AppData\Roaming\GRASS7\addons/scri
>> pts/r.futures.potential.py", line 185, in
> <module>
>> sys.exit(main())
>> File "C:\Users\buer3379\AppData\Roaming\GRASS7\addons/scri
>> pts/r.futures.potential.py", line 158, in main
>> stdout=subprocess.PIPE, stderr=subprocess.PIPE)
>> File "C:\OSGEO4~1\apps\Python27\lib\subprocess.py", line
>> 711, in __init__
>> errread, errwrite)
>> File "C:\OSGEO4~1\apps\Python27\lib\subprocess.py", line
>> 948, in _execute_child
>> startupinfo)
>> WindowsError: [Error 2] The system cannot find the file
>> specified
>>
>> In just attempting to run R via R--save I get:
>>
>> R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
>> Copyright (C) 2016 The R Foundation for Statistical Computing
>> Platform: x86_64-w64-mingw32/x64 (64-bit)
>> R is free software and comes with ABSOLUTELY NO WARRANTY.
>> You are welcome to redistribute it under certain conditions.
>> Type 'license()' or 'licence()' for distribution details.
>> Natural language support but running in an English locale
>> R is a collaborative project with many contributors.
>> Type 'contributors()' for more information and
>> 'citation()' on how to cite R or R packages in publications.
>> Type 'demo()' for some demos, 'help()' for on-line help, or
>> 'help.start()' for an HTML browser interface to help.
>> Type 'q()' to quit R.
>> During startup - Warning messages:
>> 1: Setting LC_CTYPE=en_US.cp1252 failed
>> 2: Setting LC_COLLATE=en_US.cp1252 failed
>> 3: Setting LC_TIME=en_US.cp1252 failed
>> 4: Setting LC_MONETARY=en_US.cp1252 failed
>>>
>>
>> Does anyone have any pointers or tips to work around this problem. Any
>> ideas would be appreicated.
just tested it now with standalone-winGRASS
System Info
GRASS Version: 7.3.svn
GRASS SVN revision: r68855
Build date: 2016-07-06
Build platform: x86_64-w64-mingw32
GDAL: 2.0.2
PROJ.4: 4.9.2
GEOS: 3.5.0
SQLite: 3.7.17
Python: 2.7.5
wxPython: 2.8.12.1
Platform: Windows-8-6.2.9200
- without any change to %PATH%
- with the example from [1] (n.b. not exactly because too lazy and to tired
to follow all the exercises late at night)
------------------------------------------------------------------------
r.futures.potential -d input=sampling output=potential.csv
columns=devpressure_0_5_92,slope,road_dens_perc,forest_1992_smooth_perc,dist_to_water_km,dist_to_protected_km,dist_interchanges_km,travel_time_cities
developed_column=urban_change_clip subregions_column=counties
min_variables=4
Running automatic model selection ...
Best model summary:
-------------------------
Beim Start - Warnmeldungen:
1: Setting LC_CTYPE=de_AT.cp1252 failed
2: Setting LC_COLLATE=de_AT.cp1252 failed
3: Setting LC_TIME=de_AT.cp1252 failed
4: Setting LC_MONETARY=de_AT.cp1252 failed
Fixed term is "(Intercept)"
Es gab 16 Warnungen (Anzeige mit warnings())
Generalized linear mixed model fit by maximum likelihood (Laplace
Approximation) [glmerMod]
Family: binomial ( logit )
Formula: urban_change_clip ~ devpressure_0_5_92 + dist_to_protected_km +
dist_to_water_km + forest_1992_smooth_perc + road_dens_perc +
slope + (1 | counties)
Data: input_data
AIC BIC logLik deviance df.resid
2757.3 2810.9 -1370.7 2741.3 5980
Scaled residuals:
Min 1Q Median 3Q Max
-9.3923 -0.2265 -0.0989 -0.0544 15.1501
Random effects:
Groups Name Variance Std.Dev.
counties (Intercept) 0.07361 0.2713
Number of obs: 5988, groups: counties, 5
Fixed effects:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.963822 0.228732 -4.214 2.51e-05 ***
devpressure_0_5_92 0.035412 0.004745 7.463 8.44e-14 ***
dist_to_protected_km -0.150421 0.042385 -3.549 0.000387 ***
dist_to_water_km -0.133979 0.023773 -5.636 1.74e-08 ***
forest_1992_smooth_perc -0.047532 0.002375 -20.014 < 2e-16 ***
road_dens_perc 0.091590 0.007598 12.054 < 2e-16 ***
slope 0.039895 0.009316 4.282 1.85e-05 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
Correlation of Fixed Effects:
(Intr) d_0_5_ dst_t_p_ dst_t_w_ f_1992 rd_dn_
dvpr_0_5_92 -0.286
dst_t_prtc_ -0.320 0.036
dst_t_wtr_k -0.312 0.182 -0.054
frst_1992__ -0.274 0.168 0.087 0.064
rod_dns_prc -0.370 -0.335 -0.100 -0.042 0.044
slope -0.198 0.044 0.007 -0.061 -0.557 0.017
convergence code: 0
Model failed to converge with max|grad| = 0.00202276 (tol = 0.001, component
1)
(Sat Jul 09 01:43:18 2016) Befehl ausgeführt (7 Min 23 Sek)
------------------------------------------------------------------------
so it seems to work at least here ...
any idea?
maybe around here?
"Before further steps, we will set our working directory so that the input
population files and text files we are going to create in the following
section are saved in one directory and easily accessible. You can do that
from menu Settings → GRASS working environment → Change working directory.
Select (or create) a directory and move there the downloaded files
population_projection.csv and population_trend.csv. "
?
[1]
https://grasswiki.osgeo.org/wiki/Workshop_on_urban_growth_modeling_with_FUTURES
-----
best regards
Helmut
--
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