[Neuroimaging] Fwd: [dipy] Issues trying to install dipy

Mon May 30 18:16:59 EDT 2016

Hi Jon,

The error is not related to SSE or to OMP. Those are ommitted and then the
compilation continues properly. The problem appears later. Here is the
message

C:\Anaconda3\libs/python35.lib: error adding symbols: File format not recognized
collect2.exe: error: ld returned 1 exit status

Have you contacted the Anaconda developers? This looks like a problem on
their side.

Let us know what they said to you. Otherwise I wonder if this is a specific
problem with Python 3 or if it affects also Python 2. You may want to try
that too. The problem does look more likely to be related to the compiler
used.

Am I correct to say that the only thing that you did was to install
Anaconda and then pip install dipy? Did you have other compilers already
installed in your system?

Best regards,
Eleftherios

On Mon, May 30, 2016 at 5:51 PM Jon Haitz Legarreta <
jhlegarreta at vicomtech.org> wrote:

> Dear Ariel,
> thanks for your suggestion.
>
> The patches in the link seem to help a little bit, but the process seems
> still to be unsuccessful: the MinGW gcc complains with the message:
> gcc: error: /arch:SSE2: No such file or directory
>
> Attached is the new log.
>
> Again, googling was not of much help. I got bits and parts of related
> errors, but have no clear picture of the issue.
>
> Any suggestion is appreciated.
>
> JON HAITZ
>
>
>
>
> On 24 May 2016 at 01:08, Ariel Rokem <arokem at gmail.com> wrote:
>
>>
>>
>> On Mon, May 23, 2016 at 3:19 PM, Jon Haitz Legarreta <
>> jhlegarreta at vicomtech.org> wrote:
>>
>>> Hi there,
>>> thank you Matthew and Ariel.
>>>
>>> The link pointed by Ariel does not seem to be a solution; after having
>>> installed MinGW, as suggested in the link and although I'm aware it might
>>> be unnecessary, the Anaconda3 powershell still yields a similar error, now
>>> pointing to MSVC (which I do not have on my system):
>>>
>>>   File "C:\Anaconda3\lib\distutils\cygwinccompiler.py", line 157, in
>>> __init__
>>>     self.dll_libraries = get_msvcr()
>>>   File "C:\Anaconda3\lib\distutils\cygwinccompiler.py", line 86, in
>>> get_msvcr
>>>     raise ValueError("Unknown MS Compiler version %s " % msc_ver)
>>> ValueError: Unknown MS Compiler version 1900
>>>
>>> Looks like maybe you ran into this corner case?
>>
>> http://stackoverflow.com/a/34427014/3532933
>>
>>
>>
>>
>>
>>> I'll try to investigate further, and will let you know.
>>>
>>> Kind regards,
>>> JON HAITZ
>>>
>>>
>>>
>>>
>>>
>>>
>>> On 21 May 2016 at 16:55, Ariel Rokem <arokem at gmail.com> wrote:
>>>
>>>> Hi Jon and Matthew,
>>>>
>>>>
>>>> On Sat, May 21, 2016 at 7:30 AM, Matthew Brett <matthew.brett at gmail.com
>>>> > wrote:
>>>>
>>>>> Hi,
>>>>>
>>>>> On Sat, May 21, 2016 at 9:18 AM, Jon Haitz Legarreta
>>>>> <jhlegarreta at vicomtech.org> wrote:
>>>>> > Hi there,
>>>>> > has anybody experienced the issue below?
>>>>> >
>>>>> > Thanks,
>>>>> > JON HAITZ
>>>>> >
>>>>> >
>>>>> >
>>>>> >
>>>>> > ---------- Forwarded message ----------
>>>>> > From: Jon Haitz Legarreta <jhlegarreta at vicomtech.org>
>>>>> > Date: 18 May 2016 at 19:10
>>>>> > Subject: [dipy] Issues trying to install dipy
>>>>> > To: neuroimaging at python.org
>>>>> >
>>>>> >
>>>>> > Hi there,
>>>>> > I'm a newbie to dipy.
>>>>> >
>>>>> > I was trying to follow the instructions in [1] to have dipy
>>>>> installed from
>>>>> > the source code, so that I could execute the dipy examples.
>>>>> >
>>>>> > I'm using Windows 10 and Anaconda 3.
>>>>> >
>>>>> > When trying to execute
>>>>> > python setup.py develop
>>>>> >
>>>>> > the Anaconda prompt yields an error that says in the end:
>>>>> > File: "C:\Anaconda3\lib\distutils\cygwinccompiler.py", line 126,
>>>>> __init__
>>>>> > if self.ld_version >= "2.10.90":
>>>>> > TypeError: unorderable types: NoneType() >= str()
>>>>> >
>>>>> > I've been googling for a solution without success.
>>>>> >
>>>>> > I don't know whether this looks like Anaconda3 is trying to use
>>>>> cygwin
>>>>> > instead of mingw32, and whether that is the root cause.
>>>>> >
>>>>> > In either case, does anyone know how to solve the issue?
>>>>> >
>>>>> > Attached is the trace (it's short) of the error if this is of any
>>>>> help.
>>>>> >
>>>>> >
>>>>> > Thank you,
>>>>> > JON HAITZ
>>>>> >
>>>>> >
>>>>> > [1] http://nipy.org/dipy/installation.html#install-source-nix
>>>>>
>>>>> I'm sorry, I'm afraid I don't personally use Anaconda, so I have no
>>>>> experience of fixing compilation errors on Anaconda.   Ariel - have
>>>>> you come across this?
>>>>>
>>>>
>>>> And I don't personally use Windows...
>>>>
>>>> Might this be helpful:
>>>>
>>>>
>>>> http://stackoverflow.com/questions/24683305/python-cant-install-packages-typeerror-unorderable-types-nonetype-str
>>>>
>>>> It seems like it could be related, though it's all Greek to me.
>>>>
>>>> Cheers,
>>>>
>>>> Ariel
>>>>
>>>>
>>>>> You could also try on the anaconda support channels (issues, mailing
>>>>> list) - it may well be a general problem rather than one specific to
>>>>> dipy,
>>>>>
>>>>> Best,
>>>>>
>>>>> Matthew
>>>>> _______________________________________________
>>>>> Neuroimaging mailing list
>>>>> Neuroimaging at python.org
>>>>> https://mail.python.org/mailman/listinfo/neuroimaging
>>>>>
>>>>
>>>>
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>>>
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>>
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