v.krige won't load: ImportError: No module named globalvar

[momsen]

Hello, I have installed GRASS 7 this week, along with gdal/geos/spgrass6/etc. I'm on a Debian system. R and many of the dependencies came from Debian packages. But gdal and GRASS I installed from source.

v.krige gives the following errors. R/spgrass6 does work, I used readVECT6 and readRAST6 to load data into R.

Is there something else I should install/change on my side, or is this a bug?

v.krige                                                                         
Loading dependencies, please wait...
rgeos: (SVN revision 326)
 GEOS runtime version: 3.3.1-CAPI-1.7.1 
 Polygon checking: TRUE 
 WARNING! if you turn polygon checking off, and polygons are
 not valid in GEOS, you risk losing data as your R session may crash! 
Loading required package: zoo
Attaching package: ‘zoo’
The following object(s) are masked from ‘package:base’:
    as.Date, as.Date.numeric
Loading required package: xts
GRASS GIS interface loaded with GRASS version: GRASS 7.0.svn (2012)
and location: spearfish70
Checking rgeos availability: TRUE
Traceback (most recent call last):
  File "/usr/local/grass-7.0.svn/scripts/v.krige", line 411,
in <module>
    main()
  File "/usr/local/grass-7.0.svn/scripts/v.krige", line 299,
in main
    import globalvar
ImportError: No module named globalvar
(Thu Mar 15 14:55:17 2012) Command finished (1 sec)                             
(Thu Mar 15 15:43:42 2012)                                                      
g.gisenv -n                                                                     
LOCATION_NAME=spearfish70
GISDBASE=/home/emomsen/GRASSDATA
MAPSET=user1
GUI=wxpython

I tried loading the R package dependencies I knew about in R, that seemed to be a common theme in previous v.krige errors. I think I have everything installed.

> sessionInfo()
R version 2.14.1 (2011-12-22)
Platform: x86_64-pc-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=C                 LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] maptools_0.8-14 lattice_0.20-0  foreign_0.8-49  automap_1.0-12 
 [5] gstat_1.0-10    spacetime_0.6-0 rgeos_0.2-3     stringr_0.6    
 [9] xts_0.8-2       zoo_1.7-7       spgrass6_0.7-9  XML_3.9-4      
[13] sp_0.9-97      

loaded via a namespace (and not attached):
[1] grid_2.14.1 plyr_1.7.1 

Other dependencies:

emomsen@gis-dev-test:/usr/local/grass-7.0.svn/scripts$ aptitude search rpy2
i   python-rpy2                                       - Python interface to the GNU R language and environment (ver
v   python2.6-rpy2                                    -                                                            
v   python2.7-rpy2                                    -                                                            

Anything I should normally be reporting? I checked the subversion number:

root@gis-dev-test:/opt/grass_trunk# svn info
Path: .
URL: https://svn.osgeo.org/grass/grass/trunk
Repository Root: https://svn.osgeo.org/grass
Repository UUID: 15284696-431f-4ddb-bdfa-cd5b030d7da7
Revision: 51063
Node Kind: directory
Schedule: normal
Last Changed Author: martinl
Last Changed Rev: 51060
Last Changed Date: 2012-03-14 17:13:32 -0500 (Wed, 14 Mar 2012)

Thanks for any help!

[aghisla]

Hello momsen,

thanks for the well detailed report.

v.krige is not aware of last GUI reorganisations, so it can't load properly, as stated by the traceback:

ImportError: No module named globalvar

So far I didn't find the time to update the module. If you are willing to help, let me know.

Moreover, the module should not require zoo and xts packages. I can't see them as dependencies of the modules needed by v.krige, that are:

rgeos, gstat, spgrass6, maptools

Can you load these packages in a R session?

Thanks for the feedback, Anne

[momsen]

It is nice to hear I've finally gotten to the point where my installation wasn't at fault. I have not yet updated/written code for any open source projects, but want to learn. I have a presentation Tuesday, so if someone can provide guidance I could look at it then. If you find time to make the update before that, I'm sure there will be other things I can help with later.

I'm late for leaving for the weekend, I'll be able to check more on zoo and xts later. Both can be loaded directly in R as well, from memory zoo was a dependency for one of the spgrass6 related packages. At least it shows up each time I installed it!

-Eric

[momsen]

I am able to load rgeos, gstat, spgrass6, and maptools in a R session.

I found where zoo and xts came from:

automap is optional (provides automatic variogram fit) for v.krige. automap depends on gstat, which depends on spacetime, which depends on zoo and xts.

-Eric

[neteler]

Startup problems fixed in r53127.

Remaining issue: creating the variogram leads to

Traceback (most recent call last):
  File "/home/neteler/grass70/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 444, in OnPlotButton
    if globals()["InputData"] is None:
KeyError: 'InputData'
Traceback (most recent call last):
  File "/home/neteler/grass70/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 444, in OnPlotButton
    if globals()["InputData"] is None:
KeyError: 'InputData'
Traceback (most recent call last):
  File "/home/neteler/grass70/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 256, in OnRunButton
    self.goutput.RunCmd(command, switchPage = True)
  File "/home/neteler/grass70/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/gui_core/goutput.py", line 604, in RunCmd
    self._notebook.SetSelectionByName('output')
AttributeError: 'FlatNotebook' object has no attribute 'SetSelectionByName'

[annakrat]

I can fix the FlatNotebook part of error (probably tomorrow, I must first download some packages to be able to test it).

Anna

[annakrat]

Replying to annakrat:

I can fix the FlatNotebook part of error (probably tomorrow, I must first download some packages to be able to test it).

After installation of needed packages I get this error:

GRASS 7.0.svn (spearfish60):/usr/local/src/trunk > v.krige
Loading dependencies, please wait...
rgeos: (SVN revision 348)
 GEOS runtime version: 3.3.3-CAPI-1.7.4 
 Polygon checking: TRUE 

Loading required package: zoo

Attaching package: ‘zoo’

The following object(s) are masked from ‘package:base’:

    as.Date, as.Date.numeric

Loading required package: xts
GRASS GIS interface loaded with GRASS version: GRASS 7.0.svn (2012)
and location: spearfish60
Checking rgeos availability: TRUE
Loading required package: automap
Traceback (most recent call last):
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/scripts/v.krige", line 414, in <module>
    main()
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/scripts/v.krige", line 312, in main
    controller = controller)
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 269, in __init__
    self.Panel = KrigingPanel(self, Rinstance, controller)
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 98, in __init__
    self.CreatePage(package = Rpackage, Rinstance = Rinstance, controller = controller)
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 175, in CreatePage
    controller = controller)))
  File "/usr/local/src/trunk/dist.i686-pc-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 394, in __init__
    ModelFactor = robjects.r.vgm().rx('long')
AttributeError: 'RDataFrame' object has no attribute 'rx'

I have no idea what rx is or how too fix this.

Anna

[annakrat]

The problem with notebook should be fixed in r53148. Anna

[neteler]

One more fix done in r53149.

[neteler]

For now v.krige is commented out in the parent Makefile, see r53194.

[hamish]

Hi,

current status in trunk, starting from the command line:

(loading the R stuff works for me)
...
Traceback (most recent call last):
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/scripts/v.krige", line 412, in <module>
    main()
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/scripts/v.krige", line 310, in main
    controller = controller)
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 289, in __init__
    self.Panel = KrigingPanel(self, Rinstance, controller)
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 86, in __init__
    self.InputDataColumn.SetSelection(0)
AttributeError: 'ColumnSelect' object has no attribute 'SetSelection'

not sure how to fix that; the same works in devbr6. (v.krige now updated in devbr6 to reflect recent wxgui dir layout changes & starts up ok there)

If I comment out the self.InputDataColumn.SetSelection(0) line the v.krige GUI starts in trunk, so it isn't too badly broken.

Hamish

[annakrat]

Replying to hamish:

Hi,

current status in trunk, starting from the command line:

(loading the R stuff works for me)
...
Traceback (most recent call last):
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/scripts/v.krige", line 412, in <module>
    main()
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/scripts/v.krige", line 310, in main
    controller = controller)
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 289, in __init__
    self.Panel = KrigingPanel(self, Rinstance, controller)
  File "/home/hamish/src/grass/svn/trunk/dist.x86_64-unknown-linux-gnu/etc/gui/wxpython/scripts/vkrige.py", line 86, in __init__
    self.InputDataColumn.SetSelection(0)
AttributeError: 'ColumnSelect' object has no attribute 'SetSelection'

not sure how to fix that; the same works in devbr6. (v.krige now updated in devbr6 to reflect recent wxgui dir layout changes & starts up ok there)

If I comment out the self.InputDataColumn.SetSelection(0) line the v.krige GUI starts in trunk, so it isn't too badly broken.

right, I removed it in r56920.

Hamish

[hamish]

Replying to annakrat:

Replying to hamish:

not sure how to fix that; the same works in devbr6.

...

If I comment out the self.InputDataColumn.SetSelection(0) line the v.krige GUI starts in trunk, so it isn't too badly broken.

right, I removed it in r56920.

I guess that's one way of fixing it :) but there are a couple more like it. what do they do?

wxpython/scripts/vkrige.py", line 212, in OnInputDataChanged
    self.InputDataColumn.SetSelection(0)
AttributeError: 'ColumnSelect' object has no attribute 'SetSelection'

and after commenting that out ...

wxpython/scripts/vkrige.py", line 213, in OnInputDataChanged
    self.RunButton.Enable(self.InputDataColumn.GetSelection() is not -1)
AttributeError: 'ColumnSelect' object has no attribute 'GetSelection'

but then the [Plot/refresh variogram] button never lights up, nor the [Run] button, and the suggested output map names don't get filled in.

(v.krige now updated in devbr6 to reflect recent wxgui dir layout changes & starts up ok there)

still a couple tracebacks there re. 'FlatNotebook' object has no attribute 'SetSelectionByName' and if globals()["InputData"] is None: ... KeyError: 'InputData'. see yesterday's comments in #1196.

thanks, Hamish

[annakrat]

Replying to hamish:

but then the [Plot/refresh variogram] button never lights up, nor the [Run] button, and the suggested output map names don't get filled in.

another fix r56924

(v.krige now updated in devbr6 to reflect recent wxgui dir layout changes & starts up ok there)

still a couple tracebacks there re. 'FlatNotebook' object has no attribute 'SetSelectionByName' and if globals()["InputData"] is None: ... KeyError: 'InputData'. see yesterday's comments in #1196.

thanks, Hamish

[hamish]

Replying to annakrat:

another fix r56924

great, that fixes the two greyed out buttons and the output map name suggestions are back.

when I press [Plot/refresh variogram] I get the same KeyError: 'InputData' traceback as mentioned for devbr6, I tried adding it as "global InputData" the the outer scripts/v.krige.py function which calls the controller, but it still wasn't being exported to the list of globals read by wxpython/scripts/vkrige.py. (maybe I did it wrong though)

when I press [Run] I got another traceback, but fixed that in r56925. Now it runs in trunk from the GUI with reasonable looking results! (default params, if I start messing with the fitting I run into other problems, and some of the progress output is a bit garbled, but one step at a time.)

I notice it didn't pick up 'cat' as a numeric column since the OnInputMapChanged() function in wx/vkrige.py has excludeKey = True. I'm not sure how often the key column will be also used as a data column, but if nothing else it's useful for testing, so for now I've re-enabled it in r56926. (* in testing spearfish's arch points using the cat column as the input I notice one stray bad cell value (-2.27374e-13) in the results)

thanks, Hamish

[aghisla]

Hello all from GRASS Community Sprint in Prague!

v.krige is now fixed in trunk. I moved the global variables into Controller class, and store them as attributes.

Testing is welcome!

I close this ticket and welcome you to open new ones with a proper title - this one is getting a bit too crowded.

Thanks! Anne