Hi, Sorry about the crazy delay, here is a script that reproduces the error with the IsolatedGalaxy dataset! The script is attached. I am happy to help someone look into it, or look more myself with a bit of extra guidance. Thanks!! Stephanie -- Dr. Stephanie Tonnesen Associate Research Scientist CCA, Flatiron Institute New York, NY stonnes@gmail.com On Fri, Sep 14, 2018 at 6:51 AM Stephanie Tonnesen <stonnes@gmail.com> wrote:
Hi Britton!
No, I have not resolved the issue, unfortunately. I will try and get a script that reproduces the problem up soon.
Best, Stephanie
On Thu, Sep 13, 2018 at 7:45 PM Britton Smith <brittonsmith@gmail.com> wrote:
HI Stephanie,
Have you managed to resolve this issue? If so, would you be willing to submit a pull request to get this fix in the main repo? If not, could you post a script that could be used to reproduce this error with some of the public data?
Britton
On Fri, Sep 7, 2018 at 1:05 PM Nathan Goldbaum <nathan12343@gmail.com> wrote:
Generally an error like this is due to a bug in yt. I don't know enough about the code you're using to provide useful advice, but perhaps we should be checking if `children` is `None` and doing something else. The "workaround" is likely to fix whatever bug you've run into.
On Fri, Sep 7, 2018 at 2:56 PM, Stephanie Tonnesen <stonnes@gmail.com> wrote:
Hi yt-users!
I have been fiddling some more with yt's clump finder and have another question. I want to use density to find clumps, but want my maximum threshold value to be below the fiducial setting--instead of above the maximum possible density in the code I just want the finder to stop searching at, say 3.2e-24.
The code was working but running out of memory until I set the max threshold, and I now get this error:
....lots of pleasant looking output messages.... Updating joins ... : 0%| | 0/7 [00:00<?, ?it/s] Updating joins ... : 100%|██████████| 7/7 [00:00<00:00, 48933.55it/s] yt : [INFO ] 2018-09-07 14:08:55,007 Investigating 2 children. yt : [INFO ] 2018-09-07 14:08:55,007 Finding clumps: min: 3.200000e-24, max: 3.200000e-24, step: 2.000000 yt : [INFO ] 2018-09-07 14:08:55,041 Finding clumps: min: 3.200000e-24, max: 3.200000e-24, step: 2.000000 yt : [INFO ] 2018-09-07 14:08:55,042 Eliminating invalid, childless clump with 2 cells. yt : [INFO ] 2018-09-07 14:08:55,042 1 of 2 children survived, linking its children to parent. Traceback (most recent call last): File "yt_clump_fingert.py", line 59, in <module> find_clumps(master_clump, c_min, c_max, step) File "/mnt/home/stonnesen/yt-conda/yt/yt/analysis_modules/level_sets/clump_handling.py", line 444, in find_clumps find_clumps(child, min_val*d_clump, max_val, d_clump) File "/mnt/home/stonnesen/yt-conda/yt/yt/analysis_modules/level_sets/clump_handling.py", line 438, in find_clumps find_clumps(clump, min_val*d_clump, max_val, d_clump) File "/mnt/home/stonnesen/yt-conda/yt/yt/analysis_modules/level_sets/clump_handling.py", line 438, in find_clumps find_clumps(clump, min_val*d_clump, max_val, d_clump) File "/mnt/home/stonnesen/yt-conda/yt/yt/analysis_modules/level_sets/clump_handling.py", line 438, in find_clumps find_clumps(clump, min_val*d_clump, max_val, d_clump) File "/mnt/home/stonnesen/yt-conda/yt/yt/analysis_modules/level_sets/clump_handling.py", line 461, in find_clumps for child in clump.children: TypeError: 'NoneType' object is not iterable
I tried to circumvent this error by changing my max to 2e-24 (not a multiple of 2 of 1e-25), and got the same error when the min was 3.2e-24 and the max was 2e-24 (!).
Is there any way I can get around this error and have the clumpfinder stop looking once it has clump edges at my maximum density?
Thanks! Stephanie -- Dr. Stephanie Tonnesen Associate Research Scientist CCA, Flatiron Institute New York, NY
stonnes@gmail.com
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-- -- Dr. Stephanie Tonnesen Associate Research Scientist CCA, Flatiron Institute New York, NY
stonnes@gmail.com