[Rd] Where to drop a python script?
Paul Gilbert
pgilbert902 at gmail.com
Fri Nov 1 18:34:36 CET 2013
Jonathan
Below is a python script I have been playing with for extracing some
system information and additional information about modules that I need
to import in my TSjson package. My intention is to put R code in tests/
that will check this before going on to do other tests, but I have not
yet done that. The reason for this is that error message are not
especially enlightening when other tests fail because python is not
working as needed.
Please let me know if you find improvements.
Paul
__________
def test():
try:
import sys
have_sys = True
except:
have_sys = False
if sys.version_info >= (3, 0): return dict( error=
"TSjson requires Python 2. Running "+ str(sys.version_info))
# mechanize is not (yet) available for Python 3,
# Also, urllib2 is split into urllib.request, urllib.error in Python 3
try:
import urllib2
have_urllib2 = True
except:
have_urllib2 = False
try:
import re
have_re = True
except:
have_re = False
try:
import csv
have_csv = True
except:
have_csv = False
try:
import mechanize
have_mechanize = True
except:
have_mechanize = False
if (have_sys & have_urllib2 & have_re & have_csv & have_mechanize):
err = 0
else:
err = 1
return dict(
exit=err,
have_sys=have_sys, have_urllib2=have_urllib2,
have_re = have_re, have_csv = have_csv,
have_mechanize = have_mechanize)
try:
import json
print(json.JSONEncoder().encode(test()))
except:
print(dict(exit=1, have_json = False))
On 13-11-01 10:17 AM, Jonathan Greenberg wrote:
> This was actually the little script I was going to include (prompting me
> to ask the question): a test for the python version number.
> Save this (between the ***s) as e.g. python_version.py:
>
> ***
>
> import sys
> print(sys.version_info)
>
> ***
>
> I've done almost no python coding, so I was going to call this with a
> system("/pathto/python /pathto/python_version.py",intern=TRUE) call and
> post-process the one-line text output.
>
> --j
>
>
> On Thu, Oct 31, 2013 at 12:45 PM, Paul Gilbert <pgilbert902 at gmail.com
> <mailto:pgilbert902 at gmail.com>> wrote:
>
>
>
> On 13-10-31 01 <tel:13-10-31%2001>:16 PM, Prof Brian Ripley wrote:
>
> On 31/10/2013 15:33, Paul Gilbert wrote:
>
>
>
> On 13-10-31 03 <tel:13-10-31%2003>:01 AM, Prof Brian Ripley
> wrote:
>
> On 31/10/2013 00:40, Paul Gilbert wrote:
>
> The old convention was that it went in the exec/
> directory, but as you
> can see at
> http://cran.at.r-project.org/__doc/manuals/r-devel/R-exts.__html#Non_002dR-scripts-in-__packages
> <http://cran.at.r-project.org/doc/manuals/r-devel/R-exts.html#Non_002dR-scripts-in-packages>
>
>
>
> it can be in inst/anyName/. A minor convenience
> of exec/ is that the
> directory has the same name in source and when
> installed, whereas
> inst/anyName gets moved to anyName/, so debugging
> can be a tiny bit
> easier with exec/.
>
> Having just put a package (TSjson) on CRAN with a
> python script, here
> are a few other pointers for getting it on CRAN:
>
> -SystemRequirements: should indicate if a particular
> version of python
> is needed, and any non-default modules that are
> needed. (My package
> does
> not work with Python 3 because some modules are not
> available.) Some of
> the libraries have changed, so it could be a bit
> tricky to make
> something work easily with both 2 and 3.
>
> -You need a README to explain how to install Python.
> (If you look at or
> use mine, please let me know if you find problems.)
>
>
> Better to describe exactly what you need: installation
> instructions go
> stale very easily.
>
> -The Linux and Sun CRAN test machines have Python 2
> whereas winbuilder
> has Python 3. Be prepared to explain that the
> package will not work on
> one or the other.
>
>
> Not true. Linux and Solaris (sic) have both: the
> Solaris machines have
> 2.6 and 3.3.
>
>
> For an R package how does one go about specifying which
> should be used?
>
>
> You ask the user to tell you the path or at least the command
> name, e.g.
> by an environment variable or R function argument. Just like
> any other
> external program such as GhostScript.
>
>
> Yes, but since I don't have direct access to the CRAN test machines,
> specifically, on the CRAN test machines, how do I specify to use
> Python 2 or Python 3? (That is, I think you are the user when CRAN
> tests are done on Solaris, so I am asking you.)
>
>
>
>
> Please do not spread misinformation about machines you do
> not have any access to.
>
>
> Another option to system() is pipe()
>
> Paul
>
> On 13-10-30 03 <tel:13-10-30%2003>:15 PM, Dirk
> Eddelbuettel wrote:
>
>
> On 30 October 2013 at 13:54, Jonathan Greenberg
> wrote:
> | R-developers:
> |
> | I have a small python script that I'd like to
> include in an R
> package I'm
> | developing, but I'm a bit unclear about which
> subfolder it should go
> in. R
> | will be calling the script via a system()
> call. Thanks!
>
> Up to you as you control the path. As "Writing R
> Extensions" explains,
> everything below the (source) directory inst/
> will get installed. I
> like
> inst/extScripts/ (or similar) as it denotes that
> it is an external
> script.
>
> As an example, the gdata package has Perl code
> for xls reading/writing
> below a
> directory inst/perl/ -- and I think there are
> more packages doing
> this.
>
> Dirk
>
>
>
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>
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>
>
>
> --
> Jonathan A. Greenberg, PhD
> Assistant Professor
> Global Environmental Analysis and Remote Sensing (GEARS) Laboratory
> Department of Geography and Geographic Information Science
> University of Illinois at Urbana-Champaign
> 259 Computing Applications Building, MC-150
> 605 East Springfield Avenue
> Champaign, IL 61820-6371
> Phone: 217-300-1924
> http://www.geog.illinois.edu/~jgrn/
> AIM: jgrn307, MSN: jgrn307 at hotmail.com <mailto:jgrn307 at hotmail.com>,
> Gchat: jgrn307, Skype: jgrn3007
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