[ncl-talk] Segmentation fault
Amadou Coulibaly
mpapin24 at gmail.com
Wed May 27 19:04:43 MDT 2015
Hi Mary,
Yes my X axis values are too irregularly, and that were problem. Because if
I comment that one, the warring messages are disappeared.
But I want to use "fspan" to represent my X axis, which is very irregular.
Is there any way to do it?
Objective: I have 6 months of hourly data (from January to June), which
represents 4368 hours, but containing some missing values. When I cancelled
those missing values from my data, I got a new one representing 4242 hours.
How can I span these new values over 6 months (from January to June)?
Please, find attached my script and plot.
Best
On 26 May 2015 at 15:53, Mary Haley <haley at ucar.edu> wrote:
> This is an FYI that we have an FAQ that includes various NCL error
> messages and how to fix them. You can go to:
>
> http://www.ncl.ucar.edu/FAQ/
>
> and search for the word "spline" and you will see this question and
> response that might apply here:
>
> http://www.ncl.ucar.edu/FAQ/#err_msgs_028
>
> You need to look at the values being used for the X axis. If they are "too
> irregularly-spaced", then that can cause a spline warning.
>
> --Mary
>
> On Mon, May 25, 2015 at 2:22 PM, Amadou Coulibaly <mpapin24 at gmail.com>
> wrote:
>
>> Hi Alexander,
>>
>> Thank you, this has worked. The problem was like you said the prefix of
>> "cool". When I removed that. It has worked. Just some warring messages such
>> as:
>>
>> warning:_NhlCreateSplineCoordApprox: Attempt to create spline
>> approximation for X axis failed: consider adjusting trXTensionF value
>> warning:IrTransInitialize: error creating spline approximation for
>> trXCoordPoints; defaulting to linear
>> warning:_NhlCreateSplineCoordApprox: Attempt to create spline
>> approximation for X axis failed: consider adjusting trXTensionF value
>> warning:IrTransInitialize: error creating spline approximation for
>> trXCoordPoints; defaulting to linear
>> warning:XyPlotSetValues:xyYStyle is NhlLOG:trYMinF can't be <=
>> 0.0:Setting xyComputeYMin to True
>>
>> Best
>>
>>
>>
>> On 25 May 2015 at 19:37, Alexander Schaefer <
>> alexander.schaefer at mines.sdsmt.edu> wrote:
>>
>>> Amadou,
>>>
>>> NCL might not be finding the .hluresfile since it should be specifically
>>> looking for ".hluresfile" so you having the prefix of "cool" might be
>>> messing things up. If you do a "ls -al" in your home directory you will
>>> likely see a bunch of files starting with a ".". Try moving the hluresfile
>>> to specifically ".hluresfile" and see if that helps. Otherwise you can
>>> also adjust the workspace size in your NCL script. See below:
>>>
>>> wks = gsn_open_wks(type,"my_output_file_title")
>>> setvalues NhlGetWorkspaceObjectId()
>>> "wsMaximumSize" : 200000000
>>> end setvalues
>>>
>>>
>>> Hope that helps,-Alex
>>>
>>> On Mon, May 25, 2015 at 8:36 AM, Amadou Coulibaly <mpapin24 at gmail.com>
>>> wrote:
>>>
>>>> Hi Karin,
>>>>
>>>> Of course, I have comment out *wsMaximumSize : 500000000 inside my
>>>> ~/.hluresfile, which I called "cool.hluresfile" and it's in my home
>>>> directory. But I till have the same error message. Please find attached my
>>>> .hluresfile.
>>>>
>>>> Best
>>>>
>>>>
>>>>
>>>> On 25 May 2015 at 07:51, Karin Meier-Fleischer <meier-fleischer at dkrz.de
>>>> > wrote:
>>>>
>>>>> Please take a look at the following .hlures web page:
>>>>>
>>>>> http://www.ncl.ucar.edu/Document/Graphics/hlures.shtml
>>>>>
>>>>> Bye,
>>>>> Karin
>>>>>
>>>>>
>>>>> Am 25.05.2015 um 07:23 schrieb Amadou Coulibaly <mpapin24 at gmail.com>:
>>>>>
>>>>> Hi Dennis and Rick,
>>>>>
>>>>> I have been able to plot one my wavelet spectrum using 5 years of
>>>>> hourly data, instead of all the 30 years, which were bringing the following
>>>>> error message: Segmentation fault (core dumped).
>>>>>
>>>>> But I till have some warring and errors messages such as:
>>>>>
>>>>> warning:_NhlCreateSplineCoordApprox: Attempt to create spline
>>>>> approximation for X axis failed: consider adjusting trXTensionF value
>>>>> warning:IrTransInitialize: error creating spline approximation for
>>>>> trXCoordPoints; defaulting to linear
>>>>> warning:_NhlCreateSplineCoordApprox: Attempt to create spline
>>>>> approximation for X axis failed: consider adjusting trXTensionF value
>>>>> warning:IrTransInitialize: error creating spline approximation for
>>>>> trXCoordPoints; defaulting to linear
>>>>> warning:XyPlotSetValues:xyYStyle is NhlLOG:trYMinF can't be <=
>>>>> 0.0:Setting xyComputeYMin to True
>>>>> fatal:ContourPlotDraw: Workspace reallocation would exceed maximum
>>>>> size 100000000
>>>>> fatal:ContourPlotDraw: draw error
>>>>> fatal:ContourPlotDraw: draw error
>>>>> fatal:PlotManagerDraw: error in plot draw
>>>>> fatal:_NhlPlotManagerDraw: Draw error
>>>>>
>>>>> I saw somewhere that to solve the first fatal (fatal:ContourPlotDraw:
>>>>> Workspace reallocation would exceed maximum size 100000000), I must
>>>>> change that maximum size 100000000 to *wsMaximumSize : 500000000 in
>>>>> the file:.hluresfile and put it in my home directory. I don't understand
>>>>> how to put it in my home directory?
>>>>>
>>>>> How to solve the issues of those errors?
>>>>>
>>>>> Best
>>>>>
>>>>> On 23 May 2015 at 19:09, Dennis Shea <shea at ucar.edu> wrote:
>>>>>
>>>>>> [1] If your data has missing values, you can not use either
>>>>>> specx_anal or the wavelet tool.
>>>>>>
>>>>>> [2] http://www.ncl.ucar.edu/Document/Functions/Built-in/dtrend.shtml
>>>>>>
>>>>>> states: "Missing values (_FillValue) are not allowed."
>>>>>>
>>>>>> [3] If there are **isolated** missing values you could likely do a
>>>>>> simple linear interpolation
>>>>>> to fill them. However, **any** interpolation will affect the
>>>>>> spectra.
>>>>>>
>>>>>> If you have many _FillValue .... I would not even try to fill
>>>>>> them in.
>>>>>> The resulting spectra will reflect the effects of the
>>>>>> interpolation as much as the 'rea;' data.
>>>>>>
>>>>>> ---
>>>>>> Punch line: I don't think you can get what you want ... given your
>>>>>> data.
>>>>>>
>>>>>> --
>>>>>>
>>>>>> Your statement:
>>>>>>
>>>>>> "My script is from this link:
>>>>>> http://paos.colorado.edu/research/wavelets/
>>>>>>
>>>>>> There is no NCL script at that web site.
>>>>>>
>>>>>> In fact, NCL call the fortran code presented at the website.
>>>>>>
>>>>>> ---
>>>>>> The interactive code there is IDL ... not NCL
>>>>>>
>>>>>> Regards
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Sat, May 23, 2015 at 9:54 AM, Amadou Coulibaly <mpapin24 at gmail.com
>>>>>> > wrote:
>>>>>>
>>>>>>> Hi Dennis,
>>>>>>>
>>>>>>> My script is from this link:
>>>>>>> http://paos.colorado.edu/research/wavelets/
>>>>>>>
>>>>>>> My Temp look like this:
>>>>>>>
>>>>>>> Variable: Temp
>>>>>>> Type: float
>>>>>>> Total Size: 1051968 bytes
>>>>>>> 262992 values
>>>>>>> Number of Dimensions: 1
>>>>>>> Dimensions and sizes: [time | 262992]
>>>>>>> Coordinates:
>>>>>>> time: [410227200..1356994800]
>>>>>>> Number Of Attributes: 7
>>>>>>> coordinates : lon lat
>>>>>>> grid_type : unstructured
>>>>>>> comment : Air temperature is the bulk temperature of the air,
>>>>>>> not the surf
>>>>>>> ace (skin) temperature.
>>>>>>> shortname : ta
>>>>>>> code : 11
>>>>>>> units : K
>>>>>>> _FillValue : 9.96921e+36
>>>>>>> (0) 299.15
>>>>>>> (1) 9.96921e+36
>>>>>>> (2) 9.96921e+36
>>>>>>> (3) 296.35
>>>>>>>
>>>>>>> It contains a lot of missing data. That's why I used the following
>>>>>>> command:
>>>>>>> ; Remove mean and linear trend (recommended, not required)
>>>>>>> ; Missing values are not allowed.
>>>>>>> ;************************************
>>>>>>> Temp = dtrend(Temp,False)
>>>>>>>
>>>>>>> After that I printed Temp, but look stange for me with negative
>>>>>>> values:
>>>>>>>
>>>>>>> Variable: Temp
>>>>>>> Type: float
>>>>>>> Total Size: 1051968 bytes
>>>>>>> 262992 values
>>>>>>> Number of Dimensions: 1
>>>>>>> Dimensions and sizes: [time | 262992]
>>>>>>> Coordinates:
>>>>>>> time: [410227200..1356994800]
>>>>>>> Number Of Attributes: 7
>>>>>>> coordinates : lon lat
>>>>>>> grid_type : unstructured
>>>>>>> comment : Air temperature is the bulk temperature of the air,
>>>>>>> not the surf
>>>>>>> ace (skin) temperature.
>>>>>>> shortname : ta
>>>>>>> code : 11
>>>>>>> units : K
>>>>>>> _FillValue : 9.96921e+36
>>>>>>> (0) -8.256236e+36
>>>>>>> (1) 1.713005e+36
>>>>>>> (2) 1.713035e+36
>>>>>>> (3) -8.256145e+36
>>>>>>>
>>>>>>> I think the problem is from that command trying to remove mean and
>>>>>>> linear trend. Because without that I can get the wavelet function (w), but
>>>>>>> it contains only zero as values.
>>>>>>>
>>>>>>> How to handle this issue?
>>>>>>>
>>>>>>> Best
>>>>>>>
>>>>>>>
>>>>>>> On 23 May 2015 at 14:17, Dennis Shea <shea at ucar.edu> wrote:
>>>>>>>
>>>>>>>> [1] I have no idea why the script should seg fault. Maybe your
>>>>>>>> parameter settings are not appropriate for the input data.
>>>>>>>>
>>>>>>>> [2] What does "Temp" look like? printVarSummary(Temp)
>>>>>>>>
>>>>>>>> [3] Are there missing values?
>>>>>>>>
>>>>>>>> [4] If you want the "power spectrum", why not look at
>>>>>>>>
>>>>>>>> http://www.ncl.ucar.edu/Document/Functions/Built-in/specx_anal.shtml
>>>>>>>> http://www.ncl.ucar.edu/Applications/spec.shtml
>>>>>>>>
>>>>>>>> Good luck
>>>>>>>>
>>>>>>>> On Sat, May 23, 2015 at 8:00 AM, Amadou Coulibaly <
>>>>>>>> mpapin24 at gmail.com> wrote:
>>>>>>>>
>>>>>>>>> Dear ncl users,
>>>>>>>>>
>>>>>>>>> When I tried ti run my script (wavelet1.ncl), I am getting a
>>>>>>>>> strange error which is:
>>>>>>>>> Segmentation fault (core dumped)
>>>>>>>>>
>>>>>>>>> I am using ncl.6.2.1 and my system is: Linux
>>>>>>>>> amadou-Satellite-C855 3.19.0-16-generic #16-Ubuntu SMP Thu Apr 30 16:09:58
>>>>>>>>> UTC 2015 x86_64 x86_64 x86_64 GNU/Linux
>>>>>>>>>
>>>>>>>>> My dataset contains hourly data (1983-2012) of
>>>>>>>>> wind(speed/direction), air_temperature, ... for 46 sites. I just wanted to
>>>>>>>>> plot the power spectrum of only one site and for the all 30 years. I think
>>>>>>>>> the error comes from line 45 when I tried to compute the wavelet function
>>>>>>>>> (w). Please find attached my script.
>>>>>>>>>
>>>>>>>>> How can I solve this issue?
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> * COULIBALY AMADOU *
>>>>>>>>> PhD Student on West African Climate System (WACS)
>>>>>>>>> FUTA - Federal University of Technology of Akure, Nigeria
>>>>>>>>>
>>>>>>>>> *Visiting Student - *
>>>>>>>>> *University of Cologne, Germany**Institute of Geophysics and
>>>>>>>>> Meteorology*
>>>>>>>>> Pohligstr. 3 / Office 3.102
>>>>>>>>> D-50969 Köln
>>>>>>>>>
>>>>>>>>> *Project*: WASCAL (West African Science Service Centre on Climate
>>>>>>>>> Change and Adapted Land Use)
>>>>>>>>> Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27
>>>>>>>>> /+49 15218352574
>>>>>>>>>
>>>>>>>>> E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
>>>>>>>>>
>>>>>>>>> "*The time is always right to do right": Nelson Mandela*
>>>>>>>>>
>>>>>>>>> *"Character is like a tree and reputation like a shadow. The
>>>>>>>>> shadow is what we think of it; the tree is the real thing" : Abraham
>>>>>>>>> Lincoln*
>>>>>>>>>
>>>>>>>>> *"Do what you can, with what you have, where you are" Theodore
>>>>>>>>> Roosevelt*
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> _______________________________________________
>>>>>>>>> ncl-talk mailing list
>>>>>>>>> List instructions, subscriber options, unsubscribe:
>>>>>>>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>>>>>>>
>>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> * COULIBALY AMADOU *
>>>>>>> PhD Student on West African Climate System (WACS)
>>>>>>> FUTA - Federal University of Technology of Akure, Nigeria
>>>>>>>
>>>>>>> *Visiting Student - *
>>>>>>> *University of Cologne, Germany**Institute of Geophysics and
>>>>>>> Meteorology*
>>>>>>> Pohligstr. 3 / Office 3.102
>>>>>>> D-50969 Köln
>>>>>>>
>>>>>>> *Project*: WASCAL (West African Science Service Centre on Climate Change
>>>>>>> and Adapted Land Use)
>>>>>>> Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27 /+49
>>>>>>> 15218352574
>>>>>>>
>>>>>>> E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
>>>>>>>
>>>>>>> "*The time is always right to do right": Nelson Mandela*
>>>>>>>
>>>>>>> *"Character is like a tree and reputation like a shadow. The shadow
>>>>>>> is what we think of it; the tree is the real thing" : Abraham Lincoln*
>>>>>>>
>>>>>>> *"Do what you can, with what you have, where you are" Theodore
>>>>>>> Roosevelt*
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> * COULIBALY AMADOU *
>>>>> PhD Student on West African Climate System (WACS)
>>>>> FUTA - Federal University of Technology of Akure, Nigeria
>>>>>
>>>>> *Visiting Student - *
>>>>> *University of Cologne, Germany**Institute of Geophysics and
>>>>> Meteorology*
>>>>> Pohligstr. 3 / Office 3.102
>>>>> D-50969 Köln
>>>>>
>>>>> *Project*: WASCAL (West African Science Service Centre on Climate Change
>>>>> and Adapted Land Use)
>>>>> Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27 /+49
>>>>> 15218352574
>>>>>
>>>>> E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
>>>>>
>>>>> "*The time is always right to do right": Nelson Mandela*
>>>>>
>>>>> *"Character is like a tree and reputation like a shadow. The shadow
>>>>> is what we think of it; the tree is the real thing" : Abraham Lincoln*
>>>>>
>>>>> *"Do what you can, with what you have, where you are" Theodore
>>>>> Roosevelt*
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> <wavelet2.ncl>
>>>>>
>>>>> _______________________________________________
>>>>> ncl-talk mailing list
>>>>> List instructions, subscriber options, unsubscribe:
>>>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> * COULIBALY AMADOU *
>>>> PhD Student on West African Climate System (WACS)
>>>> FUTA - Federal University of Technology of Akure, Nigeria
>>>>
>>>> *Visiting Student - *
>>>> *University of Cologne, Germany**Institute of Geophysics and
>>>> Meteorology*
>>>> Pohligstr. 3 / Office 3.102
>>>> D-50969 Köln
>>>>
>>>> *Project*: WASCAL (West African Science Service Centre on Climate Change
>>>> and Adapted Land Use)
>>>> Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27 /+49
>>>> 15218352574
>>>>
>>>> E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
>>>>
>>>> "*The time is always right to do right": Nelson Mandela*
>>>>
>>>> *"Character is like a tree and reputation like a shadow. The shadow is
>>>> what we think of it; the tree is the real thing" : Abraham Lincoln*
>>>>
>>>> *"Do what you can, with what you have, where you are" Theodore
>>>> Roosevelt*
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> ncl-talk mailing list
>>>> List instructions, subscriber options, unsubscribe:
>>>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>>>
>>>>
>>>
>>
>>
>> --
>> * COULIBALY AMADOU *
>> PhD Student on West African Climate System (WACS)
>> FUTA - Federal University of Technology of Akure, Nigeria
>>
>> *Visiting Student - *
>> *University of Cologne, Germany**Institute of Geophysics and Meteorology*
>> Pohligstr. 3 / Office 3.102
>> D-50969 Köln
>>
>> *Project*: WASCAL (West African Science Service Centre on Climate Change
>> and Adapted Land Use)
>> Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27 /+49
>> 15218352574
>>
>> E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
>>
>> "*The time is always right to do right": Nelson Mandela*
>>
>> *"Character is like a tree and reputation like a shadow. The shadow is
>> what we think of it; the tree is the real thing" : Abraham Lincoln*
>>
>> *"Do what you can, with what you have, where you are" Theodore Roosevelt*
>>
>>
>>
>>
>>
>>
>> _______________________________________________
>> ncl-talk mailing list
>> List instructions, subscriber options, unsubscribe:
>> http://mailman.ucar.edu/mailman/listinfo/ncl-talk
>>
>>
>
--
* COULIBALY AMADOU *
PhD Student on West African Climate System (WACS)
FUTA - Federal University of Technology of Akure, Nigeria
*Visiting Student - *
*University of Cologne, Germany**Institute of Geophysics and Meteorology*
Pohligstr. 3 / Office 3.102
D-50969 Köln
*Project*: WASCAL (West African Science Service Centre on Climate Change
and Adapted Land Use)
Phone:(+234) 810 795 2836 /(+223) 65 67 27 57 /(+226) 64 57 37 27 /+49
15218352574
E-mail: mpapin24 at gmail.com / coulibalya68 at yahoo.com
"*The time is always right to do right": Nelson Mandela*
*"Character is like a tree and reputation like a shadow. The shadow is
what we think of it; the tree is the real thing" : Abraham Lincoln*
*"Do what you can, with what you have, where you are" Theodore Roosevelt*
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mailman.ucar.edu/pipermail/ncl-talk/attachments/20150528/604233b5/attachment-0001.html
-------------- next part --------------
A non-text attachment was scrubbed...
Name: wavelet_2012_JFMAMJ_new.png
Type: image/png
Size: 132067 bytes
Desc: not available
Url : http://mailman.ucar.edu/pipermail/ncl-talk/attachments/20150528/604233b5/attachment-0001.png
-------------- next part --------------
A non-text attachment was scrubbed...
Name: wavelet_2012_jfmamj.ncl
Type: application/octet-stream
Size: 7776 bytes
Desc: not available
Url : http://mailman.ucar.edu/pipermail/ncl-talk/attachments/20150528/604233b5/attachment-0001.obj
More information about the ncl-talk
mailing list