Not yet, not yet... but getting there. The segfault issues should be
gone (thanks to an unusually long airport transit).
Beside the usual "test not yet implemented", and unicode + numpy array
issue, there should only be:
- few things with the new NA types (and by the time people have read the
doc, use them and the are about to complain about
- testing for the interruption of R code (won't block the release anyway)
You have an extra issue with pickling, which I do not observe here with
Python 2.6.
The traceback point to something that is not rpy2-specific, but a part
of the Python stdlib:
tmp_file = tempfile.NamedTemporaryFile()
Your Python install might have issues.
Laurent
On 3/14/10 12:40 AM, Yaroslav Halchenko wrote:
> should we expect all unittests to pass? ;)
>
> I am getting following with 1093:198d59806bee
>
> $> python2.6 -c 'import rpy2.tests, unittest; tr =
> unittest.TextTestRunner(verbosity = 1); suite = rpy2.tests.suite();
> tr.run(suite)'
> ...F...Error in function (new = FALSE) : file choice cancelled
> .......F..F............................F....................................Error:
> unimplemented type 'char' in 'eval'
> E....F...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
> .................Error in function (description, open = "", blocking = FALSE,
> encoding = getOption("encoding")) :
> cannot open the connection
> In addition: Warning message:
> In function (description, open = "", blocking = FALSE, encoding =
> getOption("encoding")) :
> cannot create fifo '/home/yoh/.tmp/RtmpGRWQ7r/Rf327b23c6', reason 'No such
> file or directory'
> E(/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/tests/testRObject.py:61):
> testPickle
> 61 tmp_file = tempfile.NamedTemporaryFile()
> (Pydb)
> E.............................Error in .Primitive("[")(0:10, list("a", "b",
> "c")) :
> invalid subscript type 'list'
> ..................................................................F.......................................
> ======================================================================
> ERROR: testNACharactertoR
> (rpy2.rinterface.tests.test_SexpVector.NAValuesTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_SexpVector.py",
> line 90, in testNACharactertoR
> self.assertEquals(True, ri.baseenv["is.na"](na_character)[0])
> RRuntimeError: Error: unimplemented type 'char' in 'eval'
>
>
> ======================================================================
> ERROR: testStr (rpy2.robjects.tests.testRObject.RObjectTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/tests/testRObject.py",
> line 30, in testStr
> s = prt.__str__()
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/robject.py",
> line 29, in __str__
> tmp = self.__fifo(rpy2.rinterface.StrSexpVector(["", ]))
> RRuntimeError: Error in function (description, open = "", blocking = FALSE,
> encoding = getOption("encoding")) :
> cannot open the connection
>
>
> ======================================================================
> ERROR: testPickle (rpy2.robjects.tests.testRObject.RObjectPicklingTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/tests/testRObject.py",
> line 61, in testPickle
> tmp_file = tempfile.NamedTemporaryFile()
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/tests/testRObject.py",
> line 61, in testPickle
> tmp_file = tempfile.NamedTemporaryFile()
> File "/usr/lib/pymodules/python2.6/pydb/gdb.py", line 249, in
> trace_dispatch_gdb
> sys.exit()
> SystemExit
>
> ======================================================================
> FAIL: testInterruptR (rpy2.rinterface.tests.test_EmbeddedR.EmbeddedRTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_EmbeddedR.py",
> line 107, in testInterruptR
> self.assertFalse(ret_code is None) # Interruption failed
> AssertionError
>
> ======================================================================
> FAIL: testSetShowMessage
> (rpy2.rinterface.tests.test_EmbeddedR.CallbacksTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_EmbeddedR.py",
> line 214, in testSetShowMessage
> self.assertTrue(False) # no unit test (yet)
> AssertionError
>
> ======================================================================
> FAIL: testShowMessageWithError
> (rpy2.rinterface.tests.test_EmbeddedR.CallbacksTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_EmbeddedR.py",
> line 220, in testShowMessageWithError
> self.assertTrue(False) # no unit test (yet)
> AssertionError
>
> ======================================================================
> FAIL: testGetItemLang
> (rpy2.rinterface.tests.test_SexpVector.SexpVectorTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_SexpVector.py",
> line 241, in testGetItemLang
> self.assertEquals(ri.LANGSXP, y.typeof)
> AssertionError: 6 != 1
>
> ======================================================================
> FAIL: testNARealtoR (rpy2.rinterface.tests.test_SexpVector.NAValuesTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_SexpVector.py",
> line 77, in testNARealtoR
> self.assertEquals(True, ri.baseenv["is.na"](na_real)[0])
> AssertionError: True != False
>
> ======================================================================
> FAIL: testRtoNAReal (rpy2.rinterface.tests.test_SexpVector.NAValuesTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/rinterface/tests/test_SexpVector.py",
> line 73, in testRtoNAReal
> self.assertTrue(r_na_real is na_real)
> AssertionError
>
> ======================================================================
> FAIL: testVectorUnicodeCharacter
> (rpy2.robjects.tests.testNumpyConversions.NumpyConversionsTestCase)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File
> "/home/yoh/proj/rpy2/build/lib.linux-x86_64-2.6/rpy2/robjects/tests/testNumpyConversions.py",
> line 53, in testVectorUnicodeCharacter
> self.assertTrue(False) # arrays of unicode characters causing segfault
> AssertionError
>
> ----------------------------------------------------------------------
> Ran 265 tests in 2.699s
>
> FAILED (failures=7, errors=3)
>
>
>
> On Sat, 13 Mar 2010, Laurent Gautier wrote:
>
>> Hi,
>
>> rpy2-2.1beta is out. Stability issues since 2.1.0alpha3 were addressed.
>> Source packages are available on bitbucket and sourceforge.
>
>> Win32 compilation, and eventually binaries, could come next and be
>> available for the release candidate thanks to an anonymous patch
>> contribution.
>
>
>> Laurent
>
>> ------------------------------------------------------------------------------
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>> Try the new software tools for yourself. Speed compiling, find bugs
>> proactively, and fine-tune applications for parallel performance.
>> See why Intel Parallel Studio got high marks during beta.
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>> rpy-list mailing list
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>
>
------------------------------------------------------------------------------
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Try the new software tools for yourself. Speed compiling, find bugs
proactively, and fine-tune applications for parallel performance.
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