[R-sig-Geo] [R] Unexpected parameter problem using rsaga.geoprocessor() {RSAGA}

Amelie LESCROEL lescroel at cebc.cnrs.fr
Tue Aug 12 14:30:20 CEST 2008 

Dear Alex, Thanks a lot for your quick and efficient answer. I did not 
think about "double double-quoting" the path '""', as "simple" 
double-quoting "" usually works in R for paths containing spaces. Now, 
it works perfectly well and I was able to process my grids from within R 
in the same way as I processed them in SAGA: > 
rsaga.geoprocessor("io_grid", 4, list(GRID="199710.sgrd", 
FILE_DATA='"C:/Documents and Settings/lescroel/Mes 
documents/pub/DATASETS/seaice/polar-stereo/nasateam/final-gsfc/south/monthly/nt_199710_f13_v01_s.bin"', 
NX=316, NY=332, DXY=25, XMIN=-3950, YMIN=-3950, DATA_OFFSET=300, 
TOPDOWN=1)) > rsaga.geoprocessor("grid_calculus", 1, 
list(INPUT="199710.sgrd", RESULT="SIC_DATA_OCT_97.sgrd", 
FORMUL="a*0.4")) > rsaga.geoprocessor("grid_tools", 15, 
list(INPUT="SIC_DATA_OCT_97.sgrd", RESULT="SIC_OCT97_wo_Land.sgrd", 
METHOD=1, MIN=101, MAX=101.6, RNEW=-99999, ROPERATOR=0)) > 
rsaga.geoprocessor("grid_calculus", 1, 
list(INPUT="SIC_OCT98_wo_Land.sgrd;Crozier_lat.sgrd;Crozier_lon.sgrd", 
RESULT="FORAGING_AREA_OCT97.sgrd", FORMUL="a*b*c")) I'm encountering a 
new problem though: now, I would like to work with the last obtained 
grid "FORAGING_AREA_OCT97.sgrd" in R for performing basic statistics 
(like obtaining the mean value of all cells). I was not able to find a 
way to transform or read the .sgrd file into a R object (matrix or data 
frame) that I could easily manipulate. I tried the following: > oct97 <- 
read.sgrd("C:/Documents and 
Settings/lescroel/Bureau/FORAGING_AREA_OCT97.sgrd") Erreur dans 
read.sgrd("C:/Documents and 
Settings/lescroel/Bureau/FORAGING_AREA_OCT97.sgrd") : error converting 
the SAGA sgrd file to a temporary ASCII grid file > oct97 <- 
read.Rd.grid("C:/Documents and 
Settings/lescroel/Bureau/FORAGING_AREA_OCT97.sdat") Erreur : mauvais 
numéro magique de restauration de fichier (le fichier est peut être 
corrompu) -- aucune donnée chargée ## Translation of the error message 
"Error: wrong file restoring magic number (the file may be corrupted) - 
no data loaded" De plus : Warning message: file 
'FORAGING_AREA_OCT97.sdat' has magic number '€OÃÇ€' Use of save versions 
prior to 2 is deprecated Could you or someone else help me again? Many 
thanks, Amélie PS: I'm posting this message to the R-sig-geo list this 
time! Message: 140 Date: Tue, 12 Aug 2008 03:02:03 -0400 From: Alexander 
Brenning <brenning at fesmail.uwaterloo.ca> Subject: Re: [R] Unexpected 
parameter problem using rsaga.geoprocessor() {RSAGA} To: Am?lie Lescro?l 
<lescroel_cebc at no-log.org> Cc: r-help at R-project.org Message-ID: 
<48A1356B.10404 at fes.uwaterloo.ca> Content-Type: text/plain; 
charset=windows-1252; format=flowed Dear Amelie, > Le service Beep n'est 
pas lanc?. this can be fixed by passing an additional argument beep.off 
= FALSE to the rsaga.geoprocessor function; the most recent RSAGA 
release on CRAN does not cause this problem any more, I recommend you to 
update the package in your installation. The beep.off thing was an 
attempt to stop SAGA from beeping each time a module has been executed. 
 > Unexpected parameter 'and' If a file path or file name contains 
spaces as in "Documents and Settings", you would have to double quote 
it, e.g., '"My Folder"' rather than "My Folder" This will make sure that 
SAGA knows that the space does not separate different arguments. After 
all, RSAGA uses the SAGA command line interface. However, it is always a 
good idea to use the setwd() function to change the working directory. 
This will keep the path short. I hope this helps. Alex P.S.: You might 
wish to consider the R-sig-geo list for questions regarding spatial/GIS 
support in R. Am?lie Lescro?l wrote:

> > Hello,
> > I discovered SAGA, an interesting free GIS, a few days ago and now, I 
> > would like to use it from within R 2.6.2 using the RSAGA package. I read 
> > the documentation for this package and thought that I understood it 
> > correctly for trying to call some of the SAGA modules. For getting the 
> > information on the usage of and arguments required by the SAGA command 
> > line "Import Binary Raw Data" module, I used:
> > 
> >  > rsaga.get.usage("io_grid", 4)
> > SAGA CMD 2.0.3
> > library path: C:/Progra~1/saga_vc/modules
> > library name: io_grid
> > module name : Import Binary Raw Data
> > Usage: 4 [-GRID <str>] [-FILE_DATA <str>] [-NX <num>] [-NY <num>] [-DXY 
> > <str>] [-XMIN <str>] [-YMIN <str>] [-UNIT <str>] [-ZFACTOR <str>] 
> > [-NODATA <str>] [-DATA_OFFSET <num>] [-LINE_OFFSET <num>] [-LINE_ENDSET 
> > <num>] [-DATA_TYPE <num>] [-BYTEORDER_BIG <num>] [-TOPDOWN <num>]
> > -GRID:<str> Grid
> > Data Object (optional output)
> > -FILE_DATA:<str> Raw Data File
> > File path
> > -NX:<num> Cell Count (X)
> > Integer
> > -NY:<num> Cell Count (Y)
> > Integer
> > -DXY:<str> Cell Size
> > Floating point
> > -XMIN:<str> Left Border (X)
> > Floating point
> > -YMIN:<str> Lower Border (Y)
> > Floating point
> > -UNIT:<str> Unit Name
> > Text
> > -ZFACTOR:<str> Z Multiplier
> > Floating point
> > -NODATA:<str> No Data Value
> > Floating point
> > -DATA_OFFSET:<num> Data Offset (Bytes)
> > Integer
> > -LINE_OFFSET:<num> Line Offset (Bytes)
> > Integer
> > -LINE_ENDSET:<num> Line Endset (Bytes)
> > Integer
> > -DATA_TYPE:<num> Data Type
> > Choice
> > Available Choices:
> > [0] 1 Byte Integer (unsigned)
> > [1] 1 Byte Integer (signed)
> > [2] 2 Byte Integer (unsigned)
> > [3] 2 Byte Integer (signed)
> > [4] 4 Byte Integer (unsigned)
> > [5] 4 Byte Integer (signed)
> > [6] 4 Byte Floating Point
> > [7] 8 Byte Floating Point
> > -BYTEORDER_BIG:<num> Byte Order
> > Choice
> > Available Choices:
> > [0] Little Endian (Intel)
> > [1] Big Endian (Motorola)
> > -TOPDOWN:<num> Line Order
> > Choice
> > Available Choices:
> > [0] Bottom to Top
> > [1] Top to Bottom
> > 
> > Then, I wrote the following command for importing a grid of binary raw 
> > data while specifying the parameters I usually enter under SAGA:
> > 
> >  > rsaga.geoprocessor("io_grid", 4, list(GRID="199710.sgrd", 
> > FILE_DATA="C:/Documents and Settings/lescroel/Mes 
> > documents/pub/DATASETS/seaice/polar-stereo/nasateam/final-gsfc/south/monthly/nt_199710_f13_v01_s.bin", 
> > NX=316, NY=332, DXY=25, XMIN=-3950, DATA_OFFSET=300, TOPDOWN=1))
> > 
> > and I got:
> > 
> > Le service Beep n'est pas lanc?.
> > 
> > Vous obtiendrez une aide suppl?mentaire en entrant NET HELPMSG 3521.
> > 
> > 
> > C:\Documents and 
> > Settings\lescroel\Bureau>C:\Progra~1\saga_vc\saga_cmd.exe io_grid 4 
> > -silent -GRID 199710.sgrd -FILE_DATA C:\Documents and 
> > Settings\lescroel\Mes 
> > documents\pub\DATASETS\seaice\polar-stereo\nasateam\final-gsfc\south\monthly\nt_199710_f13_v01_s.bin 
> > -NX 316 -NY 332 -DXY 25 -XMIN -3950 -DATA_OFFSET 300 -TOPDOWN 1
> > 
> > SAGA CMD 2.0.3
> > library path: C:/Progra~1/saga_vc/modules
> > library name: io_grid
> > module name : Import Binary Raw Data
> > author : (c) 2003 by O.Conrad
> > 
> > error: executing module [Import Binary Raw Data]
> > Usage: -silent [-GRID <str>] [-FILE_DATA <str>] [-NX <num>] [-NY <num>] 
> > [-DXY <str>] [-XMIN <str>] [-YMIN <str>] [-UNIT <str>] [-ZFACTOR <str>] 
> > [-NODATA <str>] [-DATA_OFFSET <num>] [-LINE_OFFSET <num>] [-LINE_ENDSET 
> > <num>] [-DATA_TYPE <num>] [-BYTEORDER_BIG <num>] [-TOPDOWN <num>]
> > -GRID:<str> Grid
> > Data Object (optional output)
> > -FILE_DATA:<str> Raw Data File
> > File path
> > -NX:<num> Cell Count (X)
> > Integer
> > -NY:<num> Cell Count (Y)
> > Integer
> > -DXY:<str> Cell Size
> > Floating point
> > -XMIN:<str> Left Border (X)
> > Floating point
> > -YMIN:<str> Lower Border (Y)
> > Floating point
> > -UNIT:<str> Unit Name
> > Text
> > -ZFACTOR:<str> Z Multiplier
> > Floating point
> > -NODATA:<str> No Data Value
> > Floating point
> > -DATA_OFFSET:<num> Data Offset (Bytes)
> > Integer
> > -LINE_OFFSET:<num> Line Offset (Bytes)
> > Integer
> > -LINE_ENDSET:<num> Line Endset (Bytes)
> > Integer
> > -DATA_TYPE:<num> Data Type
> > Choice
> > Available Choices:
> > [0] 1 Byte Integer (unsigned)
> > [1] 1 Byte Integer (signed)
> > [2] 2 Byte Integer (unsigned)
> > [3] 2 Byte Integer (signed)
> > [4] 4 Byte Integer (unsigned)
> > [5] 4 Byte Integer (signed)
> > [6] 4 Byte Floating Point
> > [7] 8 Byte Floating Point
> > -BYTEORDER_BIG:<num> Byte Order
> > Choice
> > Available Choices:
> > [0] Little Endian (Intel)
> > [1] Big Endian (Motorola)
> > -TOPDOWN:<num> Line Order
> > Choice
> > Available Choices:
> > [0] Bottom to Top
> > [1] Top to Bottom
> > Unexpected parameter 'and'
> > 
> > Could someone already using the RSAGA package provide some help in 
> > telling me what I did wrong?
> > Thanks for your help,
> > 
> > Am?lie
>   

-- Alexander Brenning brenning at uwaterloo.ca - T +1-519-888-4567 ext 
35783 Department of Geography and Environmental Management University of 
Waterloo 200 University Ave. W - Waterloo, ON - Canada N2L 3G1 
http://www.fes.uwaterloo.ca/geography/faculty/brenning/

-- 

-------------------------------------------------------------------------------------------------------------------------------- 

*Amélie Lescroël*
Postdoc - Seabird ecology
Centre d’Etudes Biologiques de Chizé – 79360 Villiers en Bois – France

*_http://www.cebc.cnrs.fr/Fidentite/lescroel/lescroel.htm_*

*_http://www.cebc.cnrs.fr/ecomm/En_ecomm/En_index.html_*

*_http://www.penguinscience.com_* <http://www.penguinscience.com/>
-------------------------------------------------------------------------------------------------------------------------------- 

/"You have to have the debate and you have to have people thinking 
creatively, and then, ultimately, you'll come down to the truth"/





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    part000.txt - is OK

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