[issm-support] data format conversion question..
djl22
djl22 at psu.edu
Sun Jan 27 14:15:17 PST 2013
Greetings,
Seem close to getting inversion stage of model running. Keep getting
this error and not sure what the source might be as I have used the
gridded versions of the CRESIS data (GEOTIFFS) over Jakobshavn and they
already compute ice thickness. I also tried recomputing the ice
thickness from their imported surface and bed grids. Both computed and
imported as identical and after setting md.geometry.thickness to either
I keep getting this error:
model not consistent: equality thickness=surface-bed violated
Error using ismodelselfconsistent (line 39)
I also forwarded the link to my dropbox folder holding the shapefile for
the import test.
Thank you for all your valued assistance.
Best
On 1/16/2013 12:55 AM, Larour, Eric (385J) wrote:
> I'm going to bounce that one to John Schiermeier, who wrote converters
> from shape
> files to kml, and from kml to exp. Theoretically, it should be possible to
> use our
> code to do this.
>
> John?
>
> Eric L.
>
>
> On 1/15/13 9:51 PM, "djl22" <djl22 at psu.edu> wrote:
>
>> Hi,
>>
>> I had a small question about data format conversion. I actually have a
>> shapefile created in ARCGIS that defines a regions bounded by polygons.
>> I know I can get them imported into matlab, but I want to use them in a
>> similar way as you did in your Jakobshavn example where you create an
>> Argus file to define regions for shear margin softening.
>> The issue is converting my shapefile into the Argus format without
>> retracing the shapefile using exptool (which is possible, the primary
>> reservation is that some of my polygon geometry is a bit complex in
>> spots), or without having to buy ARGUS ONE personally.
>>
>> Any ideas?
>>
>> Thank you very much.
>> Best
>>
>> On 12/31/2012 5:18 PM, Larour, Eric (385J) wrote:
>>> Derrick,
>>>
>>> I ran your example and everything went fine. So the only thing right now
>>> I can think
>>> of is that your model is not in sync with svelint (i.e. svelint is not a
>>> vertex based vector of
>>> size (md.mesh.numberofvertices,1)). To check on that, could you send me
>>> the results of the following?
>>>
>>>
>>>>> md.mesh
>>>>> whos x y svelocity svelint
>>> Thanks!
>>>
>>> Eric L.
>>>
>>>
>>>
>>>
>>>
>>> On 12/31/12 1:53 PM, "Larour, Eric (385J)" <eric.larour at jpl.nasa.gov>
>>> wrote:
>>>
>>>> Derrick,
>>>>
>>>> I'm also puzzled as to why bang is giving you an error. I am right now
>>>> working
>>>> on reproducing the bug from your procedure document. Will keep you
>>>> posted
>>>> as soon
>>>> as I find the bug. Should not be long.
>>>>
>>>> For further reference, please include issm-support at issm.ess.uci.edu in
>>>> your reply
>>>> all, so other ISSM folks can also help you :)
>>>>
>>>> Eric L.
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On 12/31/12 12:17 AM, "djl22" <djl22 at psu.edu> wrote:
>>>>
>>>>> Hi,
>>>>>
>>>>> I think I found a way through it. I tried working with the original
>>>>> data, which provides surface velocity over the entire Greenland ice
>>>>> sheet projected in polar stereographic. I used geotiffread to import
>>>>> the
>>>>> GEOTIFF image. I used exptool to draw my domain as a sub-region
>>>>> (Jakobshavn area) from the imported image and set the initial
>>>>> resolution
>>>>> of my mesh at 2km (2000m). The output mesh looks about right. I then
>>>>> extract the pixel center coordinates using the pixcenters command:
>>>>>>> info=geotiffinfo(filename);From
>>>>>>> [x,y] = pixcenters(info);
>>>>> This gets my coordinates for pixel centers. I then have to flip my (y)
>>>>> coordinates because the InterpFromGridToMesh command complains that
>>>>> the
>>>>> values should be decreasing. After doing so I run the
>>>>> InterpFromGridToMesh command and here things get odd. I notice that in
>>>>> your examples the velx and vely variables in your Searise and
>>>>> jakobshavn
>>>>> examples are entered in the InterpFromGridToMesh command as the
>>>>> transpose of these variables, is this correct? (i.e.
>>>>> vx=InterpFromGridToMesh(x1,y1,velx',md.mesh.x,md.mesh.y,0);).
>>>>> If I enter my velocity grid as such then I get an error. if I enter
>>>>> without the transpose the command seems to work, but then I get an odd
>>>>> message when I use the output from the Interp command in the following
>>>>> bamg command. I get:
>>>>>
>>>>> Anisotropic mesh adaptation
>>>>> Error message: 'field' should have 930 rowsError using BamgMesher
>>>>>
>>>>> At this point I'm lost as to why its not working. When I attempted to
>>>>> run your Searise example as indicated, I ended up with the same exact
>>>>> error in running bamg (I ran the lines of code provided directly from
>>>>> the example). I also go tthis error when I ran the Searise example:
>>>>> Error message: Input parameter of class single not supported yetError
>>>>> using InterpFromGridToMesh
>>>>>
>>>>> when I ran
>>>>> vx=InterpFromGridToMesh(x1,y1,velx',md.mesh.x,md.mesh.y,0);...in this
>>>>> case I converted the input variables x1, y1 and velx, vely to double
>>>>> (x1=double(x1), etc...) was this necessary to get it to work? The
>>>>> command worked after doing this which means ISSM could not recognize
>>>>> the
>>>>> data type "single" as oppose to "double"
>>>>>
>>>>> at any rate, i'm now stuck at bamg where I'm attempting to use the
>>>>> velocity i assume were interpolated to my initial mesh within my
>>>>> custom
>>>>> domain to refine my initial mesh which would ideally create finer mesh
>>>>> grids near the margins of Jakobshavn than outside of the margins....
>>>>>
>>>>> Thanks so much for the assistance....
>>>>>
>>>>>
>>>>> On 12/29/2012 3:04 AM, Larour, Eric (385J) wrote:
>>>>>> Dear Derrick,
>>>>>>
>>>>>> I think the issue is that when you plotted your surface velocities in
>>>>>> matlab (before calling exptool
>>>>>> on it), you did not specify the x and y coordinates of your image.
>>>>>>
>>>>>> Typically, in matlab, one does:
>>>>>>
>>>>>> imagesc(velocity) where velocity is a matrix. This will get you
>>>>>> coordinates in scene coordinates.
>>>>>>
>>>>>> For your example, what you need to do is:
>>>>>> imagesc(x,y,velocity),
>>>>>> where x=0:(xmax-xmin)/m:xmax and
>>>>>> y=0:(ymax-ymin)/n:ymax
>>>>>>
>>>>>> and m,n is the size of the velocity matrix.
>>>>>>
>>>>>> If you do this, you will recover from exptools the true vertex
>>>>>> coordinates.
>>>>>>
>>>>>> Tell me how it goes!
>>>>>>
>>>>>> Thanks!
>>>>>> Eric L.
>>>>>>
>>>>>>
>>>>>>
>>>>>> On 12/28/12 11:58 PM, "Derrick Lampkin" <djl22 at psu.edu> wrote:
>>>>>>
>>>>>>> Greetings,
>>>>>>>
>>>>>>> I recently attended the ISSM workshop and found it useful. I'm
>>>>>>> attempting
>>>>>>> to use the system to model a system in the Jakobshavn outlet basin.
>>>>>>> I
>>>>>>> have been using your Jakobshavn example as a template. The exception
>>>>>>> is
>>>>>>> I'm using a base of surface velocity data derived from NSIDC
>>>>>>> (Joughin
>>>>>>> data set). I have imported a surface velocity grid as GEOTIFF into
>>>>>>> matlab
>>>>>>> and I use the exptool to draw the outline of my domain on top of
>>>>>>> this
>>>>>>> base map. The map is in the polar stereo graphic projection but
>>>>>>> when I
>>>>>>> create the initial mesh using triangle at the nominal resolution of
>>>>>>> the
>>>>>>> data (500 m), the grid spacing was not nearly as dense as expected.
>>>>>>> I
>>>>>>> inspected the domain file I created and the vertices coordinates are
>>>>>>> in
>>>>>>> scene coordinates (row/column) values and not the projected
>>>>>>> coordinates ,
>>>>>>> therefore the mesh spacing are not reasonable and do not correspond
>>>>>>> to
>>>>>>> the specified resolution I indicate in the triangle command. How
>>>>>>> might
>>>>>>> I
>>>>>>> fix this issue?
>>>>>>>
>>>>>>> Thanks
>>>>>>>
>>>>>>> derrick j lampkin
>>>>>>> __________________
>>>>>>> research professor
>>>>>>>
>>>>>>> institute of arctic and alpine research
>>>>>>>
>>>>>>> university of colorado-boulder
>>>>>>>
>>>>>>> __________________
>>>>>>>
>>>>>>> email: djl22 at psu.edu
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> issm-support mailing list
>>>>>>> issm-support at issm.ess.uci.edu
>>>>>>> http://issm.ess.uci.edu/cgi-bin/mailman/listinfo/issm-support
>>>>> --
>>>>> derrick j lampkin
>>>>> __________________
>>>>> research professor
>>>>>
>>>>> institute of arctic and alpine research
>>>>> university of colorado-boulder
>>>>> adjunct
>>>>> department of geoscience
>>>>> pennsylvania state university
>>>>> __________________
>>>>>
>>>>> email: djl22 at psu.edu
>>>>> web: http://www.geosc.psu.edu/academic-faculty/lampkin-derrick
>>>>>
>>>> _______________________________________________
>>>> issm-support mailing list
>>>> issm-support at issm.ess.uci.edu
>>>> http://issm.ess.uci.edu/cgi-bin/mailman/listinfo/issm-support
>>
>> --
>> derrick j lampkin
>> __________________
>> research professor
>>
>> institute of arctic and alpine research
>> university of colorado-boulder
>> adjunct
>> department of geoscience
>> pennsylvania state university
>> __________________
>>
>> email: djl22 at psu.edu
>> web: http://www.geosc.psu.edu/academic-faculty/lampkin-derrick
>>
--
derrick j lampkin
__________________
research professor
institute of arctic and alpine research
university of colorado-boulder
adjunct
department of geoscience
pennsylvania state university
__________________
email: djl22 at psu.edu
web: http://www.geosc.psu.edu/academic-faculty/lampkin-derrick
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