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rhdodds / warp3d

Open source code for nonlinear finite element analysis of 3D solids and structures
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overflow error in warp3d2exii #16

Closed vivelakorea closed 2 years ago

vivelakorea commented 2 years ago

Hi, I'm trying to expand previous center hole example to notch and shear specimen. Problem is that when I try to use warp3dexii, overflow error happened. Can you tell me how can I resolve this problem?

These were the input files. input_files.zip

Error message was like this: ... ... ... ./wes0000200_stream files read: 200 ./wes0000250_stream files read: 250 ./wes0000300_stream files read: 300 ./wes0000350_stream files read: 350 ./wes0000400_stream files read: 400 ./wes0000450_stream files read: 450 ./wes0000500_stream files read: 500 ...done

Reading integration point results (not implemented)... ...done

Completed reading model/results @ wall time: 22.6 (secs)

Writing model and results to ExodusII file: shear.exo ...coordinates written ...element data written Traceback (most recent call last): File "C:\Users\MML-WORK4\warp3d\warp3d2exii\warp3d2exii", line 202, in w.write(model) File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 62, in write self.write_nodal_variables(model) File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 271, in write_nodal_variables self.ncdf.sync() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush self._write() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write self._write_var_array() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array self._write_var_metadata(name) File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 503, in _write_var_metadata self._pack_int(vsize) File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int self.fp.write(array(value, '>i').tobytes()) OverflowError: Python int too large to convert to C long Exception ignored in: <function ExodusIIWriter.del at 0x0000022AF69DE280> Traceback (most recent call last): File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 325, in del File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 319, in close File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 503, in _write_var_metadata File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int OverflowError: Python int too large to convert to C long Exception ignored in: <function netcdf_file.close at 0x0000022AF68FA670> Traceback (most recent call last): File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 294, in close File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfrar_metadata F8p0\LocalCache\lo8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int OverflowError: Python int too large to convert to C long

rhdodds commented 2 years ago

Hi Gyujang,

Several items/issues about your shear model.

  1. The errors below seem to be caused by an overflow on your PC.

    As is, your model generates > 11 GB of results files to be read by warp3d2exii to make a .exo file for ParaView.

    Suspect your PC does not have enough physical memory and/or swap space.

    warp3d2exii reads all the data files into memory first then writes the .exo file.

    Your model, warp3d2exii and ParaView all ran fine on my iMacPro (64 GB physical memory)

  2. Suggestions:

    • reduce the number of load steps at which results files are generated.

    • in your warp3d.inp file use this command instead:

      output commands use "get_output.inp" steps 10-1000 by 10

      only 50 sets (rather than 500 sets) of results files will be generated - about 600 MB rather than 11+ GB

  3. Change the get_output.inp file to be the following:

! output for paraview ! output model flat patran convention text file “shear” <<<<<<< now commented only needed once in an analysis output flat stream displacements ! output flat stream nodal strains <<<<<<< now commented ! output flat stream nodal reactions <<<<<<< now commented
output flat stream element stresses output flat stream element strains output flat stream element states

With all these results in .exo ParaView file, the number of variables for post- processing grows quite large.

Might want to think about what you really want to see.

  1. Nice mesh for the shear specimen.

    HOWEVER, I believe you have errors in the boundary conditions.

    Your input:

    constraints plane x=0 symmetry plane y=20 symmetry <<<<< likely wrong plane z=1.5 symmetry <<<<< likely wrong plane y=20. v 0.5

    I think your mean: plane y = -20 symmetry at the bottom of the specimen. this just sets v = 0 on those nodes

    It seems you are modeling the full thickness (3 mm) of the test specimen. Then why do you impose symmetry conditions plane z=1.5 symmetry at mid thickness ? Why not then model 1/2 of the specimen thickness ????

Best,

Bob

On Feb 25, 2022, at 1:08 AM, 심규장 Gyujang Sim @.***> wrote:

Hi, I'm trying to expand previous center hole example to notch and shear specimen. Problem is that when I try to use warp3dexii, overflow error happened. Can you tell me how can I resolve this problem?

These were the input files. input_files.zip https://github.com/rhdodds/warp3d/files/8139532/input_files.zip Error message was like this: ... ... ... ./wes0000200_stream files read: 200 ./wes0000250_stream files read: 250 ./wes0000300_stream files read: 300 ./wes0000350_stream files read: 350 ./wes0000400_stream files read: 400 ./wes0000450_stream files read: 450 ./wes0000500_stream files read: 500 ...done

Reading integration point results (not implemented)... ...done

Completed reading model/results @ wall time: 22.6 (secs)

Writing model and results to ExodusII file: shear.exo ...coordinates written ...element data written Traceback (most recent call last): File "C:\Users\MML-WORK4\warp3d\warp3d2exii\warp3d2exii", line 202, in w.write(model) File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 62, in write self.write_nodal_variables(model) File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 271, in write_nodal_variables self.ncdf.sync() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush self._write() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write self._write_var_array() File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array self._write_var_metadata(name) File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 503, in _write_var_metadata self._pack_int(vsize) File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int self.fp.write(array(value, '>i').tobytes()) OverflowError: Python int too large to convert to C long Exception ignored in: <function ExodusIIWriter.del at 0x0000022AF69DE280> Traceback (most recent call last): File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 325, in del File "C:\Users\MML-WORK4\warp3d\warp3d2exii\writers.py", line 319, in close File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 503, in _write_var_metadata File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int OverflowError: Python int too large to convert to C long Exception ignored in: <function netcdf_file.close at 0x0000022AF68FA670> Traceback (most recent call last): File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 294, in close File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 404, in flush File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 416, in _write File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfra8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 464, in _write_var_array File "C:\Users\MML-WORK4\AppData\Local\Packages\PythonSoftwareFoundation.Python.3.9_qbz5n2kfrar_metadata F8p0\LocalCache\lo8p0\LocalCache\local-packages\Python39\site-packages\scipy\io\netcdf.py", line 777, in _pack_int OverflowError: Python int too large to convert to C long

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vivelakorea commented 2 years ago

Thank you for your suggestions. I think I confused constraints with another specimen. I have three follow up questions..

1.

! output model flat patran convention text file “shear” <<<<<<< now commented only needed once in an analysis

: So do I have to add this command right before output commands use "get_output.inp" steps 1-1000 this command?

2.

! output flat stream nodal strains <<<<<<< now commented ! output flat stream nodal reactions <<<<<<< now commented

About this part.. I have to get history of four values, which are PEEQ, 1st/2nd/3rd principal stress at element that have maximum PEEQ value at failure. Also, I have to get y direction reaction force history at end point of the specimen(which is contact in real experiment) to compare with experimental results. So I think I can't comment out reaction part, but I can comment out strains part. My question is that is PEEQ(c1 value) handled by element state or element stresses?

3. I am running warp3d in D drive and it has 525GB left, so I can't understand why it is running out of memory... Anyway, is there some method to edit warp3d2exii to get data using buffering or somthing like that, to handle data not as whole?

rhdodds commented 2 years ago

Hi,

  1. I usually put the command: output model flat patran convention text file .... before the nonlinear solution parameters. just needs to be after the elements, coordinates, incidences are define.

    1. You don't need any strain values output by the: output flat stream nodal strains ... The accumulated plastic strain \bar \varepsilon^p (e.g. PEEQ) is the c1 or c2 value output in the stresses (nodal or element).

    2. Reactions. You don't need reactions at all nodes. Get regular "printed" output with:

      output reactions totals only <list of nodes>

    3. If you are not familiar with physical memory vs virtual memory and issues with stacks and paging files, please find a friend to give you are short explanation.