R help - Jul 2015 - PythonInR. Python script in R with parameters required. Download satellite images from NASA

Hello,

I'm trying to execute a python script within R (3.2.1 x 64) with the
PythonInR package. I would like to download an order of satellite images
from Nasa using a python script (
http://landsat.usgs.gov/documents/espa_bulk_downloader_v1.0.0.zip) but I
have no success. I first run the pyExecfile command with the *feedparser.py*
script and then the *download_espa_order.py* giving the required parameters
(my mail acount and the order number), here is the code:

setwd("C:/Python27")
install.packages("PythonInR")
library(PythonInR)
pyConnect(pythonExePath="C:/Python27/python.exe")
pyIsConnected()
# autodetectPython("C:/Python27/python.exe")

pyExecfile("C:/Landsat/feedparser.py")
pyExecfile("C:/Landsat/download_espa_order.py" -e "magifranquesa
at gmail.com"
-o "magifranquesa at gmail.com-07222015-120911" -d
"C:/Landsat/ESPA")

and I get this error:

Error: unexpected string constant in
"pyExecfile("C:/Landsat/download_espa_order.py" -e
"magifranquesa at gmail.com""

The code "C:/Landsat/download_espa_order.py" -e
"magifranquesa at gmail.com" -o "magifranquesa at
gmail.com-07222015-120911"
-d "C:/Landsat/ESPA" runs ok when I use it within
system console.

I appreciate if someone could help me to solve this problem.

Thank you

	[[alternative HTML version deleted]]

Magi, is there a reason that you need to run the script via R? If your
plan is to download the data via python than then process with R, you
might consider using the Rpy2 package to link them.  This would allow
you to call the downloading code from python and then have python feed
the data to R.

    Collin.

On Wed, Jul 29, 2015 at 12:29 PM, Magi Franquesa
<magifranquesa at gmail.com> wrote:
> Hello,
>
> I'm trying to execute a python script within R (3.2.1 x 64) with the
> PythonInR package. I would like to download an order of satellite images
> from Nasa using a python script (
> http://landsat.usgs.gov/documents/espa_bulk_downloader_v1.0.0.zip) but I
> have no success. I first run the pyExecfile command with the
*feedparser.py*
> script and then the *download_espa_order.py* giving the required parameters
> (my mail acount and the order number), here is the code:
>
> setwd("C:/Python27")
> install.packages("PythonInR")
> library(PythonInR)
> pyConnect(pythonExePath="C:/Python27/python.exe")
> pyIsConnected()
> # autodetectPython("C:/Python27/python.exe")
>
> pyExecfile("C:/Landsat/feedparser.py")
> pyExecfile("C:/Landsat/download_espa_order.py" -e
"magifranquesa at gmail.com"
> -o "magifranquesa at gmail.com-07222015-120911" -d
"C:/Landsat/ESPA")
>
> and I get this error:
>
> Error: unexpected string constant in
> "pyExecfile("C:/Landsat/download_espa_order.py" -e
> "magifranquesa at gmail.com""
>
> The code "C:/Landsat/download_espa_order.py" -e
> "magifranquesa at gmail.com" -o "magifranquesa at
gmail.com-07222015-120911"
> -d "C:/Landsat/ESPA" runs ok when I use it within
> system console.
>
> I appreciate if someone could help me to solve this problem.
>
> Thank you
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

I believe the Problem is that you trying to give command line arguments
pyExecfile("myPythonScript.py") and pyExecfile only expects to get a 
filename.


In Pyhton27 pyExecfile only runs the Python command execfile on the 
given filename. So the Problem is that in

pyExecfile("C:/Landsat/download_espa_order.py" -e "magifranquesa
at gmail.com"
-o "magifranquesa at gmail.com-07222015-120911" -d
"C:/Landsat/ESPA")

your not only providing a file name but also command line arguments.


It is maybe easier for you to use the command line. Something like the 
following should work

python <- "C:/Python27/python.exe"
pyScript <- "C:/Landsat/download_espa_order.py"
email <- "youremail at gmail.com"
order <- "youremail at gmail.com-order-number"
targetDirectory <- "C:/Landsat/ESPA"
pyArgs <- sprintf("--email %s --order %s --target_directory %s",
                   email, order, targetDirectory)
pyArgs
cmd <- sprintf("%s %s %s", python, pyScript, pyArgs)
cmd
system(cmd ,wait=FALSE)

or

system("C:/Python27/python.exe C:/Landsat/download_espa_order.py --email 
magifranquesa at gmail.com --order magifranquesa at gmail.com-07222015-120911 
--target_directory C:/Landsat/ESPA", wait=FALSE)


If you want to use PythonInR you could something like the following.
pyConnect(pythonExePath=python)
setwd("C:/Landsat/")
pyExec("import download_espa_order")
pySet("email", email)
pySet("order", order)
pyGet("[scene for scene in SceneFeed(email).get_items(order)]")


Florian


On 07/29/2015 06:29 PM, Magi Franquesa wrote:
> Hello,
>
> I'm trying to execute a python script within R (3.2.1 x 64) with the
> PythonInR package. I would like to download an order of satellite images
> from Nasa using a python script (
> http://landsat.usgs.gov/documents/espa_bulk_downloader_v1.0.0.zip) but I
> have no success. I first run the pyExecfile command with the
*feedparser.py*
> script and then the *download_espa_order.py* giving the required parameters
> (my mail acount and the order number), here is the code:
>
> setwd("C:/Python27")
> install.packages("PythonInR")
> library(PythonInR)
> pyConnect(pythonExePath="C:/Python27/python.exe")
> pyIsConnected()
> # autodetectPython("C:/Python27/python.exe")
>
> pyExecfile("C:/Landsat/feedparser.py")
> pyExecfile("C:/Landsat/download_espa_order.py" -e
"magifranquesa at gmail.com"
> -o "magifranquesa at gmail.com-07222015-120911" -d
"C:/Landsat/ESPA")
>
> and I get this error:
>
> Error: unexpected string constant in
> "pyExecfile("C:/Landsat/download_espa_order.py" -e
> "magifranquesa at gmail.com""
>
> The code "C:/Landsat/download_espa_order.py" -e
> "magifranquesa at gmail.com" -o "magifranquesa at
gmail.com-07222015-120911"
> -d "C:/Landsat/ESPA" runs ok when I use it within
> system console.
>
> I appreciate if someone could help me to solve this problem.
>
> Thank you
>
> 	[[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>