[yt-users] install error

[Elizabeth Tasker]

Hi Nathan,

This is also a mac - but I'll suggest we update gcc. Thanks!

Elizabeth


On Jul 13, 2012, at 4:21 PM, Nathan Goldbaum wrote:

> Hi Elizabeth,
> 
> I tried running the install script on my mac laptop after your e-mail.  I was able to build yt from the install script with no problems.
> 
> It would help if you could let us know a bit more about the system you're trying to build yt on.  In particular, I think you'll run into issues if you're using an old version of gcc that doesn't support OpenMP.  Version 4.2 or newer should work.
> 
> -Nathan
> 
> 
> On 7/13/12 12:16 AM, Elizabeth Tasker wrote:
>> Hi Andrew,
>> 
>> We ran the install script from scratch, so I assume it would have installed the version of cython it needed?
>> 
>> Elizabeth
>> 
>> 
>> On Jul 13, 2012, at 1:59 PM, Andrew Myers wrote:
>> 
>>> Hi Elizabeth,
>>> 
>>> I saw errors like this when I tried to use an older version of Cython. Are you sure that you're using version 0.16?
>>> 
>>> -Andrew M
>>> 
>>> On Thu, Jul 12, 2012 at 9:55 PM, Elizabeth Tasker <tasker at astro1.sci.hokudai.ac.jp <mailto:tasker at astro1.sci.hokudai.ac.jp>> wrote:
>>> 
>>>    Hi,
>>> 
>>>    We've had some problems installing yt via the install script.
>>> 
>>>    Initially it did not download distribute, which we did by hand.
>>>    Then, it couldn't get pip, so I commented that line out and now
>>>    it's died on cython with:
>>> 
>>> 
>>> 
>>>    cythonc:> yt/utilities/lib/PointsInVolume.c
>>>    building extension "yt.utilities.lib.QuadTree" sources
>>>    cythonc:> yt/utilities/lib/QuadTree.c
>>>    building extension "yt.utilities.lib.RayIntegrators" sources
>>>    cythonc:> yt/utilities/lib/RayIntegrators.c
>>>    building extension "yt.utilities.lib.VolumeIntegrator" sources
>>>    cythonc:> yt/utilities/lib/VolumeIntegrator.c
>>>    building extension "yt.utilities.lib.grid_traversal" sources
>>>    cythonc:> yt/utilities/lib/grid_traversal.c
>>> 
>>>    Error compiling Cython file:
>>>    ------------------------------------------------------------
>>>    ...
>>>            if im.vd_strides[0] == -1:
>>>                with nogil, parallel(num_threads = num_threads):
>>>                    idata = <ImageAccumulator *>
>>>    malloc(sizeof(ImageAccumulator))
>>>                    idata.supp_data = self.supp_data
>>>                    v_pos = <np.float64_t *> malloc(3 *
>>>    sizeof(np.float64_t))
>>>                    for j in prange(size, schedule="static",chunksize=1):
>>>                                  ^
>>>    ------------------------------------------------------------
>>> 
>>>    yt/utilities/lib/grid_traversal.pyx:368:31: Invalid keyword
>>>    argument: chunksize
>>> 
>>>    Error compiling Cython file:
>>>    ------------------------------------------------------------
>>>    ...
>>>                    idata.supp_data = self.supp_data
>>>                    v_pos = <np.float64_t *> malloc(3 *
>>>    sizeof(np.float64_t))
>>>                    v_dir = <np.float64_t *> malloc(3 *
>>>    sizeof(np.float64_t))
>>>                    # If we do not have a simple image plane, we have
>>>    to cast all
>>>                    # our rays
>>>                    for j in prange(size, schedule="dynamic",
>>>    chunksize=100):
>>>                                  ^
>>>    ------------------------------------------------------------
>>> 
>>>    yt/utilities/lib/grid_traversal.pyx:393:31: Invalid keyword
>>>    argument: chunksize
>>> 
>>>    Error compiling Cython file:
>>>    ------------------------------------------------------------
>>>    ...
>>>            cdef np.float64_t px, py
>>>            cdef np.float64_t width[3]
>>>            for i in range(3):
>>>                width[i] = self.width[i]
>>>            if im.vd_strides[0] == -1:
>>>                with nogil, parallel(num_threads = num_threads):
>>>                                   ^
>>>    ------------------------------------------------------------
>>> 
>>>    yt/utilities/lib/grid_traversal.pyx:364:32: Invalid value for
>>>    num_threads argument, expected an int
>>>    error: 3 errors while compiling
>>>    'yt/utilities/lib/grid_traversal.pyx' with Cython
>>> 
>>> 
>>> 
>>>    Has anyone had a similar experience?
>>> 
>>>    Elizabeth
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>>> 
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>> 
>> 
>> 
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