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Use physical units instead of things like "steps" whenever they are available. Please check all notebooks for that.
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I had a look at the object position_xyz's in the latest v1.1.4_small catalog. Although it is clearer when you move around , there are some overlapping regions (probably at the healpix borders) with hi…
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I've been developing a set of notebooks to analyze fairly large MOM5 ocean model output for at 1, 0.25, and 0.1 degree resolutions. Under the hood, it is primarily using xarray/dask with the intentio…
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Hi,
I'm running MSMC, but have been wondering why the likelihood sometimes gets worse.
Here is an example -- see iteration 12:
[1/30] Baumwelch iteration
* [3/3] Expectation Step, log like…
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Hello all,
I am using the ck tests in pyemma to test the quality of my MSMs. I wanted just a quick verification of what the plots are telling me about convergence.
I have a ~100 microseconds ag…
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Hi,
sorry, I just noticed that I must have overlooked the merging of #1082, that happened a month ago:
https://github.com/markovmodel/PyEMMA/commit/16dd0c3527322850e58dc185999233ddc32fb58f
Bu…
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The notebook PyEMMA.thermo.estimate_multi_temperatur_-_asymmetric_double_well fails during computing PCCA with the following error:
cell 8, input:
```
# Run PCCA to find metastable sets
msm.pcc…
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This is probably not a bug but a matter of design. Calling `accumulator_set::collective_merge(comm, 0)` will currently collect the measurements from all MPI processes into the master, but also leave t…
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Make sure the generic ews workflow is documented the following functions should have their respective roxygen comments:
- [x] generic_spews (main function)
- [x] plot methods
- [x] indictest.generic…