rpy2.rpy_classic is currently lagging behind the other rpy2.* modules
(in terms of reliability).
You have hit a bug. It should be fixed some time soon.
L.
On Tue, 2008-10-28 at 11:43 +1000, Denham Robert wrote:
> I am having problems with rp2.rpy_classic with conversions. If I do:
>
>
> $ python
> Python 2.5.2 (r252:60911, Aug 20 2008, 17:14:32)
> [GCC 4.1.2 20070115 (prerelease) (SUSE Linux)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
> >>> from rpy2.rpy_classic import *
> >>> set_default_mode(NO_CONVERSION)
> >>> x = r.seq(1, 3, by=0.5)
> >>> print x
> <rpy2.rpy_classic.Robj object at 0x2ba5a898c710>
> >>>
> >>> set_default_mode(BASIC_CONVERSION)
> >>> x = r.seq(1, 3, by=0.5)
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rpy_
> classic.py", line 215, in __call__
> res = rpy2py(res)
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rpy_
> classic.py", line 174, in rpy2py
> res = rpy2py_basic(obj)
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rpy_
> classic.py", line 154, in rpy2py_basic
> if obj.typeof() in [ri.INTSXP, ri.REALSXP, ri.CPLXSXP,
> TypeError: 'int' object is not callable
> >>>
>
>
> So with no conversion I can use seq(1,3), but with basic conversion I
> can't seem to. I am using python 2.5.2, R-2.8.0 on Suse x86_64. Any
> suggestions as to why the conversion doesn't work?
>
> I have tried other examples, like
>
> $ python
> Python 2.5.2 (r252:60911, Aug 20 2008, 17:14:32)
> [GCC 4.1.2 20070115 (prerelease) (SUSE Linux)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import rpy2.robjects as robjects
> >>> x = robjects.r.seq(1, 10)
> >>> print x
> [1] 1 2 3 4 5 6 7 8 9 10
> >>> x.r[-1]
> 2:10
> >>>
>
> and they work fine.
>
> I did the test of the install and got results like this:
> $ python
> Python 2.5.2 (r252:60911, Aug 20 2008, 17:14:32)
> [GCC 4.1.2 20070115 (prerelease) (SUSE Linux)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import rpy2.tests
> >>> import unittest
> >>> tr = unittest.TextTestRunner(verbosity = 1)
> >>> suite = rpy2.tests.suite()
> >>> tr.run(suite)
> ..................Error in .Primitive("[")(0:10, list("a", "b", "c")) :
> invalid subscript type 'list'
>
> ....................................................E..F....Loading
> required package: splines
>
> ..................Error in function (x) : object "y" not found
>
> ...Error in .Primitive("sum")(c("a", "b", "c", "d", "e", "f", "g", "h",
> "i", :
> invalid 'type' (character) of argument
>
> ......F......................................
> ======================================================================
> ERROR: testNewString
> (rpy2.rinterface.tests.test_SexpVector.SexpVectorTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rint
> erface/tests/test_SexpVector.py", line 95, in testNewString
> ri.NA_STRING[0]
> ValueError: Cannot handle type 9
>
> ======================================================================
> FAIL: testNewWithoutInit
> (rpy2.rinterface.tests.test_SexpVector.SexpVectorTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rint
> erface/tests/test_SexpVector.py", line 37, in testNewWithoutInit
> self.assertTrue(False) # worked when tested, but calling
> endEmbeddedR causes trouble
> AssertionError
>
> ======================================================================
> FAIL: testCallErrorWhenEndedR
> (rpy2.rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/opt/freeware/Python/Python-2.5.2/lib/python2.5/site-packages/rpy2/rint
> erface/tests/test_EmbeddedR.py", line 30, in testCallErrorWhenEndedR
> self.assertTrue(False) # worked when tested, but calling
> endEmbeddedR causes trouble
> AssertionError
>
> ----------------------------------------------------------------------
> Ran 144 tests in 0.195s
>
> FAILED (failures=2, errors=1)
> <unittest._TextTestResult run=144 errors=1 failures=2>
>
>
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