Hi Laurent,
I am using gcc rather than clang.
I have corrected the typo in setup.py. This time I can run more installing
steps.
However, the installation was interrupted at the gcc compiling stage.
It seems that the problem is due to the unsuitable string after the
paramter -I.
=============
gcc ... - I / b i n / R / l i b 6 4 / R / i n c l u d e
gcc: I: No such file or directory
gcc: b: No such file or directory
gcc: i: No such file or directory
gcc: n: No such file or directory
gcc: R: No such file or directory
gcc: l: No such file or directory
gcc: i: No such file or directory
gcc: b: No such file or directory
gcc: 6: No such file or directory
gcc: 4: No such file or directory
gcc: R: No such file or directory
gcc: i: No such file or directory
gcc: n: No such file or directory
gcc: c: No such file or directory
gcc: l: No such file or directory
gcc: u: No such file or directory
gcc: d: No such file or directory
gcc: e: No such file or directory
gcc: cannot specify -o with -c or -S with multiple files
error: command 'gcc' failed with exit status 1
=================
Thanks,
Xinxin
On Sun, Dec 14, 2014 at 9:38 AM, Xinxin Peng <fred...@gmail.com> wrote:
>
> Hi Laurent,
>
> I am using gcc rather than clang.
>
> I have corrected the typo in setup.py. This time I can run more installing
> steps.
> However, the installation was interrupted at the gcc compiling stage.
>
> It seems that the problem is due to the unsuitable string after the
> paramter -I.
>
> =============
> gcc ... - I / b i n / R / l i b 6 4 / R / i n c l u d e
>
> gcc: I: No such file or directory
> gcc: b: No such file or directory
> gcc: i: No such file or directory
> gcc: n: No such file or directory
> gcc: R: No such file or directory
> gcc: l: No such file or directory
> gcc: i: No such file or directory
> gcc: b: No such file or directory
> gcc: 6: No such file or directory
> gcc: 4: No such file or directory
> gcc: R: No such file or directory
> gcc: i: No such file or directory
> gcc: n: No such file or directory
> gcc: c: No such file or directory
> gcc: l: No such file or directory
> gcc: u: No such file or directory
> gcc: d: No such file or directory
> gcc: e: No such file or directory
> gcc: cannot specify -o with -c or -S with multiple files
> error: command 'gcc' failed with exit status 1
> =================
>
> Thanks,
> Xinxin
>
>
> On Sun, Dec 14, 2014 at 2:59 AM, Laurent Gautier <lgaut...@gmail.com>
> wrote:
>>
>> Typo: warnigs -> warnings
>> Try again.
>>
>> Are you using clang rather than gcc by the way ?
>>
>> 2014-12-13 0:19 GMT-05:00 Xinxin Peng <fred...@gmail.com>:
>>
>>> Hi Laurent,
>>>
>>> There are still errors in other place.
>>>
>>>
>>> Traceback (most recent call last):
>>> File "setup.py", line 283, in <module>
>>> ri_ext = getRinterface_ext()
>>> File "setup.py", line 203, in getRinterface_ext
>>> warnigs.warn('No include specified')
>>> NameError: global name 'warnigs' is not defined
>>>
>>>
>>> Thanks,
>>> Xinxin
>>>
>>> On Sat, Dec 13, 2014 at 11:54 AM, Laurent Gautier <lgaut...@gmail.com>
>>> wrote:
>>>>
>>>> That's an error in a different place. We are progressing....
>>>>
>>>> Try again:
>>>> pip install
>>>> https://bitbucket.org/lgautier/rpy2/get/version_2.5.x.tar.gz
>>>>
>>>> 2014-12-12 22:15 GMT-05:00 Xinxin Peng <fred...@gmail.com>:
>>>>
>>>>> Hi Lanrent,
>>>>>
>>>>> Error report still exists.
>>>>>
>>>>> Traceback (most recent call last):
>>>>> File "setup.py", line 280, in <module>
>>>>> ri_ext = getRinterface_ext()
>>>>> File "setup.py", line 202, in getRinterface_ext
>>>>> include_dirs.extend(args.I)
>>>>> TypeError: 'NoneType' object is not iterable
>>>>>
>>>>>
>>>>> Thanks a lot.
>>>>> Xinxin
>>>>>
>>>>> On Sat, Dec 13, 2014 at 10:49 AM, Laurent Gautier <lgaut...@gmail.com>
>>>>> wrote:
>>>>>>
>>>>>> Typo in the fix.
>>>>>>
>>>>>> Try a snapshot from bitbucket:
>>>>>>
>>>>>> pip install
>>>>>> https://bitbucket.org/lgautier/rpy2/get/version_2.5.x.tar.gz
>>>>>>
>>>>>>
>>>>>> 2014-12-12 21:08 GMT-05:00 Xinxin Peng <fred...@gmail.com>:
>>>>>>
>>>>>>> Hi Laurent,
>>>>>>>
>>>>>>> The newly released package still doesn't seem to work for me.
>>>>>>> This time I ran into different errors.
>>>>>>>
>>>>>>> Traceback (most recent call last):
>>>>>>> File "setup.py", line 280, in <module>
>>>>>>> ri_ext = getRinterface_ext()
>>>>>>> File "setup.py", line 190, in getRinterface_ext
>>>>>>> ldf = shlex.split(' '.join(rexec.cmd_config('--ldflags')))
>>>>>>> File "setup.py", line 134, in cmd_config
>>>>>>> warnings.warning("R emitting a warning: %s" % output[0])
>>>>>>> AttributeError: 'module' object has no attribute 'warning'
>>>>>>>
>>>>>>> Thanks a lot.
>>>>>>> Xinxin
>>>>>>>
>>>>>>>
>>>>>>> On Sat, Dec 13, 2014 at 2:07 AM, Laurent Gautier <lgaut...@gmail.com
>>>>>>> > wrote:
>>>>>>>>
>>>>>>>> rpy2-2.5.3 is now on Pypi. Try:
>>>>>>>> pip install rpy2 --upgrade
>>>>>>>>
>>>>>>>> 2014-12-12 12:48 GMT-05:00 Ian York <iay...@iayork.com>:
>>>>>>>>
>>>>>>>>> For what it's worth, I noted the same bug a couple weeks ago. In
>>>>>>>>> case
>>>>>>>>> it didn't go through, I said:
>>>>>>>>>
>>>>>>>>> I have installed rpy2 on this machine in the past and had no
>>>>>>>>> problems,
>>>>>>>>> but now I am unable to get rpy2 properly installed either using
>>>>>>>>> pip or
>>>>>>>>> source. I'm running OSX 10.9.5 (Mavericks), and R version 3.1.1
>>>>>>>>> (2014-07-10) -- "Sock it to Me" (Platform:
>>>>>>>>> x86_64-apple-darwin13.1.0
>>>>>>>>> (64-bit)).
>>>>>>>>>
>>>>>>>>> Both source and pip show similar errors. For example, when I try
>>>>>>>>>
>>>>>>>>> pip install
>>>>>>>>> https://bitbucket.org/lgautier/rpy2/get/version_2.5.x.tar.gz
>>>>>>>>>
>>>>>>>>> I get the following traceback:
>>>>>>>>>
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> Traceback (most recent call last):
>>>>>>>>> File "<string>", line 17, in <module>
>>>>>>>>> File
>>>>>>>>> "/var/folders/7h/kxq84vrx6cq4mh8ycssjhzc4y2bpx0/T/pip-M_AK2m-build/setup.py",
>>>>>>>>> line 275, in <module>
>>>>>>>>> ri_ext = getRinterface_ext()
>>>>>>>>> File
>>>>>>>>> "/var/folders/7h/kxq84vrx6cq4mh8ycssjhzc4y2bpx0/T/pip-M_AK2m-build/setup.py",
>>>>>>>>> line 189, in getRinterface_ext
>>>>>>>>> ldf = shlex.split(' '.join(rexec.cmd_config('--ldflags')))
>>>>>>>>> File
>>>>>>>>> "/var/folders/7h/kxq84vrx6cq4mh8ycssjhzc4y2bpx0/T/pip-M_AK2m-build/setup.py",
>>>>>>>>> line 135, in cmd_config
>>>>>>>>> output = output.strip()
>>>>>>>>> AttributeError: 'list' object has no attribute 'strip'
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> (I used
>>>>>>>>> https://bitbucket.org/lgautier/rpy2/get/version_2.5.x.tar.gz
>>>>>>>>> because I was seeing a separate error before this, and while
>>>>>>>>> trying to
>>>>>>>>> find a solution to that one I saw the suggestion to use
>>>>>>>>> https://bitbucket.org/lgautier/rpy2/get/version_2.5.x.tar.gz.
>>>>>>>>> That
>>>>>>>>> eliminated the previous error but brought in the "strip" error.)
>>>>>>>>>
>>>>>>>>> On trying to install from source (rpy2 2.5.1)
>>>>>>>>>
>>>>>>>>> I get a similar error:
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> ~/Downloads/rpy2-2.5.1 > python setup.py build install
>>>>>>>>> R version 3.1.1 (2014-07-10) -- "Sock it to Me"
>>>>>>>>> /Library/Frameworks/R.framework/Resources/bin/R CMD config
>>>>>>>>> --ldflags
>>>>>>>>> Traceback (most recent call last):
>>>>>>>>> File "setup.py", line 278, in <module>
>>>>>>>>> ri_ext = getRinterface_ext()
>>>>>>>>> File "setup.py", line 192, in getRinterface_ext
>>>>>>>>> ldf = shlex.split(' '.join(rexec.cmd_config('--ldflags')))
>>>>>>>>> File "setup.py", line 135, in cmd_config
>>>>>>>>> output = output.strip()
>>>>>>>>> AttributeError: 'list' object has no attribute 'strip'
>>>>>>>>>
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> I made a guess that the offending line should be output[0].strip()
>>>>>>>>> but
>>>>>>>>> then I got the following error:
>>>>>>>>>
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> Traceback (most recent call last):
>>>>>>>>> File "setup.py", line 280, in <module>
>>>>>>>>> ri_ext = getRinterface_ext()
>>>>>>>>> File "setup.py", line 206, in getRinterface_ext
>>>>>>>>> include_dirs.extend(args.I)
>>>>>>>>> TypeError: 'NoneType' object is not iterable
>>>>>>>>>
>>>>>>>>> -------------------------------------------------
>>>>>>>>>
>>>>>>>>> Suggestions welcome.
>>>>>>>>>
>>>>>>>>> On Fri, Dec 12, 2014 at 12:33 PM, Laurent Gautier <
>>>>>>>>> lgaut...@gmail.com> wrote:
>>>>>>>>> > This might be a genuine bug.
>>>>>>>>> >
>>>>>>>>> > I opened an issue:
>>>>>>>>> >
>>>>>>>>> https://bitbucket.org/lgautier/rpy2/issue/247/error-when-getting-the-r-configuration-and
>>>>>>>>> >
>>>>>>>>> > 2014-12-12 7:21 GMT-05:00 Laurent Gautier <lgaut...@gmail.com>:
>>>>>>>>> >>
>>>>>>>>> >> Hi,
>>>>>>>>> >>
>>>>>>>>> >> This might be a bug in the install script. Consider opening an
>>>>>>>>> issue on
>>>>>>>>> >> bitbucket.
>>>>>>>>> >>
>>>>>>>>> >> Thanks,
>>>>>>>>> >>
>>>>>>>>> >> Laurent
>>>>>>>>> >>
>>>>>>>>> >> On Dec 12, 2014 3:57 AM, "Xinxin Peng" <fred...@gmail.com>
>>>>>>>>> wrote:
>>>>>>>>> >>>
>>>>>>>>> >>> Hi all,
>>>>>>>>> >>>
>>>>>>>>> >>> I have been trying to install rpy2-2.5.2 on a high performance
>>>>>>>>> computer
>>>>>>>>> >>> and run into the following errors:
>>>>>>>>> >>>
>>>>>>>>> >>> Traceback (most recent call last):
>>>>>>>>> >>> File "setup.py", line 275, in <module>
>>>>>>>>> >>> ri_ext = getRinterface_ext()
>>>>>>>>> >>> File "setup.py", line 189, in getRinterface_ext
>>>>>>>>> >>> ldf = shlex.split(' '.join(rexec.cmd_config('--ldflags')))
>>>>>>>>> >>> File "setup.py", line 135, in cmd_config
>>>>>>>>> >>> output = output.strip()
>>>>>>>>> >>> AttributeError: 'list' object has no attribute 'strip'
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> >>> The python version is python2.7. And the R version is R3.1.1.
>>>>>>>>> >>>
>>>>>>>>> >>> Any suggestion is welcome.
>>>>>>>>> >>>
>>>>>>>>> >>> Thanks a lot.
>>>>>>>>> >>>
>>>>>>>>> >>> Best,
>>>>>>>>> >>> Xinxin
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> >>>
>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>> >>> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT
>>>>>>>>> Server
>>>>>>>>> >>> from Actuate! Instantly Supercharge Your Business Reports and
>>>>>>>>> Dashboards
>>>>>>>>> >>> with Interactivity, Sharing, Native Excel Exports, App
>>>>>>>>> Integration & more
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>>>>>>>>> >>>
>>>>>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=164703151&iu=/4140/ostg.clktrk
>>>>>>>>> >>> _______________________________________________
>>>>>>>>> >>> rpy-list mailing list
>>>>>>>>> >>> rpy-list@lists.sourceforge.net
>>>>>>>>> >>> https://lists.sourceforge.net/lists/listinfo/rpy-list
>>>>>>>>> >>>
>>>>>>>>> >
>>>>>>>>> >
>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>> > Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
>>>>>>>>> > from Actuate! Instantly Supercharge Your Business Reports and
>>>>>>>>> Dashboards
>>>>>>>>> > with Interactivity, Sharing, Native Excel Exports, App
>>>>>>>>> Integration & more
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>>>>>>>>> corporations, FREE
>>>>>>>>> >
>>>>>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=164703151&iu=/4140/ostg.clktrk
>>>>>>>>> > _______________________________________________
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>>>>>>>>> > https://lists.sourceforge.net/lists/listinfo/rpy-list
>>>>>>>>> >
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> Ian York (iay...@iayork.com) <http://www.iayork.com/>
>>>>>>>>> "-but as he was a York, I am rather inclined to suppose him a
>>>>>>>>> very respectable Man." -Jane Austen, The History of England
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> ------------------------------------------------------------------------------
>>>>>>>>> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
>>>>>>>>> from Actuate! Instantly Supercharge Your Business Reports and
>>>>>>>>> Dashboards
>>>>>>>>> with Interactivity, Sharing, Native Excel Exports, App Integration
>>>>>>>>> & more
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>>>>>>>>> corporations, FREE
>>>>>>>>>
>>>>>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=164703151&iu=/4140/ostg.clktrk
>>>>>>>>> _______________________________________________
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>>>>>>>>> rpy-list@lists.sourceforge.net
>>>>>>>>> https://lists.sourceforge.net/lists/listinfo/rpy-list
>>>>>>>>>
>>>>>>>>
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