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- jacobtomlinson · 25 ✖
id | html_url | issue_url | node_id | user | created_at | updated_at ▲ | author_association | body | reactions | performed_via_github_app | issue |
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1498773949 | https://github.com/pydata/xarray/issues/7721#issuecomment-1498773949 | https://api.github.com/repos/pydata/xarray/issues/7721 | IC_kwDOAMm_X85ZVXm9 | jacobtomlinson 1610850 | 2023-04-06T09:39:43Z | 2023-04-06T09:39:43Z | CONTRIBUTOR | Ping @leofang in case you have thoughts? |
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`as_shared_dtype` converts scalars to 0d `numpy` arrays if chunked `cupy` is involved 1655290694 | |
1199637580 | https://github.com/pydata/xarray/issues/6847#issuecomment-1199637580 | https://api.github.com/repos/pydata/xarray/issues/6847 | IC_kwDOAMm_X85HgQRM | jacobtomlinson 1610850 | 2022-07-29T16:10:12Z | 2022-07-29T16:10:12Z | CONTRIBUTOR | I think ideally you could pass a |
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Please expose __cuda_array_interface__ via the xarray.__array__() function if present 1322112135 | |
924108418 | https://github.com/pydata/xarray/issues/5648#issuecomment-924108418 | https://api.github.com/repos/pydata/xarray/issues/5648 | IC_kwDOAMm_X843FMaC | jacobtomlinson 1610850 | 2021-09-21T15:37:12Z | 2021-09-21T15:38:56Z | CONTRIBUTOR | I can be there! @jakirkham and @pentschev are also Dask maintainers so there should be good representation. |
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Duck array compatibility meeting 956103236 | |
889909886 | https://github.com/pydata/xarray/issues/5648#issuecomment-889909886 | https://api.github.com/repos/pydata/xarray/issues/5648 | IC_kwDOAMm_X841CvJ- | jacobtomlinson 1610850 | 2021-07-30T13:55:56Z | 2021-07-30T13:55:56Z | CONTRIBUTOR | Happy to attend. It might also be useful to have @pentschev involved too. |
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Duck array compatibility meeting 956103236 | |
662555403 | https://github.com/pydata/xarray/issues/3245#issuecomment-662555403 | https://api.github.com/repos/pydata/xarray/issues/3245 | MDEyOklzc3VlQ29tbWVudDY2MjU1NTQwMw== | jacobtomlinson 1610850 | 2020-07-22T16:31:14Z | 2020-07-22T16:31:14Z | CONTRIBUTOR | Thanks for writing that up @dcherian. Sounds good to me! |
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sparse and other duck array issues 484240082 | |
661087703 | https://github.com/pydata/xarray/issues/3245#issuecomment-661087703 | https://api.github.com/repos/pydata/xarray/issues/3245 | MDEyOklzc3VlQ29tbWVudDY2MTA4NzcwMw== | jacobtomlinson 1610850 | 2020-07-20T14:49:55Z | 2020-07-20T14:49:55Z | CONTRIBUTOR | Thanks @keewis. I did consider that but I assumed that kind of thing wouldn't be encouraged. Happy to go down that path, but I wonder if life would be easier if there were an extension API for this purpose. I was thinking of something along these lines which would help keep things in check. ```python @xr.register_dataarray_as_method("cupy") class CupyAsMethod: def to_cupy(self): """Convert all data arrays to cupy."""
``` There would need to be some logic around dispatching Perhaps some I could go as you suggest and use the current accessor tooling to test this functionality out. Then upstream it into something more maintainable if it works out ok? |
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sparse and other duck array issues 484240082 | |
661050583 | https://github.com/pydata/xarray/issues/3245#issuecomment-661050583 | https://api.github.com/repos/pydata/xarray/issues/3245 | MDEyOklzc3VlQ29tbWVudDY2MTA1MDU4Mw== | jacobtomlinson 1610850 | 2020-07-20T13:47:45Z | 2020-07-20T13:47:45Z | CONTRIBUTOR | Given the current guidance in #4212 is to aim for cupy to mostly be handled via accessors I wonder if xarray could be extended a little further to allow Currently with the accessor model a user would need to do something like Enabling accessors to register |
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sparse and other duck array issues 484240082 | |
660210572 | https://github.com/pydata/xarray/issues/4212#issuecomment-660210572 | https://api.github.com/repos/pydata/xarray/issues/4212 | MDEyOklzc3VlQ29tbWVudDY2MDIxMDU3Mg== | jacobtomlinson 1610850 | 2020-07-17T16:36:18Z | 2020-07-17T16:36:18Z | CONTRIBUTOR | I've written this comment a few times to try and not come across as confrontational. I'm not intending to be at all, so please don't take it that way 😅. Tone is hard in comments! I'm just trying to figure out how to proceed quickly. I've noticed a diverging theme that seems to be coming up in various conversations (see #3234 and #3245) around API design for alternative array implementations. It seems to boil down to whether an array implementation has 1st party or 3rd party support within xarray. For numpy and Dask they appear to be 1st party. They influence the main API of xarray and xarray contains baked in logic to create and work with them. The work on pint so far points towards it being 3rd party. While I'm sure some compatibility code has gone into xarray much of the logic lives out in an accessor library. Given that pint is extending the numpy API this makes sense. I initially started this work assuming that cupy would be added as 1st party type, given that it attempts to replicate the numpy API without addition. However I'm not sure this is the right stance. There are a few questions such as "should I think it would help with API design and speed here if a decision were to be made about cupy (and sparse) being 1st or 3rd party. Perhaps some core maintainers could weigh in here? |
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Add cupy support 654135405 | |
660201690 | https://github.com/pydata/xarray/issues/3245#issuecomment-660201690 | https://api.github.com/repos/pydata/xarray/issues/3245 | MDEyOklzc3VlQ29tbWVudDY2MDIwMTY5MA== | jacobtomlinson 1610850 | 2020-07-17T16:22:06Z | 2020-07-17T16:22:06Z | CONTRIBUTOR | @dcherian pointed me over here after I raised #4234.
I very much agree with this reasoning.
I also agree with this reasoning. In cupy many things will break because For cupy I do think that automatic coercion to numpy for One suggestion is to add an accessor to make things explicit. So it would become |
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sparse and other duck array issues 484240082 | |
660192634 | https://github.com/pydata/xarray/issues/4234#issuecomment-660192634 | https://api.github.com/repos/pydata/xarray/issues/4234 | MDEyOklzc3VlQ29tbWVudDY2MDE5MjYzNA== | jacobtomlinson 1610850 | 2020-07-17T16:07:31Z | 2020-07-17T16:08:34Z | CONTRIBUTOR | Those Yeah it is possible to read direct to GPU from storage with GDS. We've experimented a little with zarr, I expect if something like zarr got GDS support and a zarr dataset was configured to use GDS then
I think that would be best. However I did run into issues when trying to run the Compare weighted and unweighted mean temperature example with cupy. In that example the In my testing I just cast the |
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Add ability to change underlying array type 659129613 | |
660154476 | https://github.com/pydata/xarray/issues/4234#issuecomment-660154476 | https://api.github.com/repos/pydata/xarray/issues/4234 | MDEyOklzc3VlQ29tbWVudDY2MDE1NDQ3Ng== | jacobtomlinson 1610850 | 2020-07-17T14:58:53Z | 2020-07-17T14:58:53Z | CONTRIBUTOR | The only things I can think of that would make sense initially in an accessor would be An accessor does seem like a reasonable place to put that logic, but it also seems like a tiny amount of code to make, ship and maintain a separate package for. Plus those methods will either need to be used or duplicated in the core codebase to support things like plotting. |
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Add ability to change underlying array type 659129613 | |
660148433 | https://github.com/pydata/xarray/issues/4234#issuecomment-660148433 | https://api.github.com/repos/pydata/xarray/issues/4234 | MDEyOklzc3VlQ29tbWVudDY2MDE0ODQzMw== | jacobtomlinson 1610850 | 2020-07-17T14:48:01Z | 2020-07-17T14:54:41Z | CONTRIBUTOR | This does sound like an option. However there are many situations within xarray where we need explicit cupy logic. Converting back to numpy before plotting is one example. I don't think that kind of logic can live in an accessor. Unless you expect users to do something like this. ```python import xarray as xr import cupy as cp ds = xr.tutorial.load_dataset("air_temperature") gds = ds.cupy.to_cupy() Do some manipulation on the GPUGrab a time slicetime_slice = gds.air.isel(time=0) time_slice.cupy.to_numpy().plot() # I would hope that time_slice.plot() would work ``` I would be tempted to say that cupy is more like dask in that it is trying to implement the numpy array interface exactly but in a different paradigm (distributed, GPU, etc). And of course there are limitations and divergences because of the different paradigm. However it's not the same as pint which is trying to extend numpy and add more functionality. So it makes sense to me that accessors for pint exist to add this extra functionality to xarray. But at least in theory cupy should be a drop-in replacement for numpy. So I don't expect a huge amount of logic will live in an accessor, compared to the amount of compatibility code that will need to go into xarray itself. |
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Add ability to change underlying array type 659129613 | |
660136749 | https://github.com/pydata/xarray/issues/4234#issuecomment-660136749 | https://api.github.com/repos/pydata/xarray/issues/4234 | MDEyOklzc3VlQ29tbWVudDY2MDEzNjc0OQ== | jacobtomlinson 1610850 | 2020-07-17T14:26:35Z | 2020-07-17T14:32:03Z | CONTRIBUTOR | @jthielen Something like this? ```python import xarray as xr import cupy as cp @xr.register_dataset_accessor("cupy") class CupyAccessor: def to_cupy(self): """Convert all data arrays to cupy."""
``` Which would then be used like this. ```python import xarray as xr import cupy as cp ds = xr.open_mfdataset("/path/to/files/*.nc") gds = ds.cupy.to_cupy() ``` |
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Add ability to change underlying array type 659129613 | |
660030480 | https://github.com/pydata/xarray/issues/4234#issuecomment-660030480 | https://api.github.com/repos/pydata/xarray/issues/4234 | MDEyOklzc3VlQ29tbWVudDY2MDAzMDQ4MA== | jacobtomlinson 1610850 | 2020-07-17T10:37:46Z | 2020-07-17T10:37:46Z | CONTRIBUTOR | cc @quasiben |
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Add ability to change underlying array type 659129613 | |
657662153 | https://github.com/pydata/xarray/pull/4214#issuecomment-657662153 | https://api.github.com/repos/pydata/xarray/issues/4214 | MDEyOklzc3VlQ29tbWVudDY1NzY2MjE1Mw== | jacobtomlinson 1610850 | 2020-07-13T16:31:34Z | 2020-07-13T16:31:34Z | CONTRIBUTOR | Nightlies are running. Sorry we can't do more than this right now. |
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Add initial cupy tests 654678508 | |
657627277 | https://github.com/pydata/xarray/pull/4214#issuecomment-657627277 | https://api.github.com/repos/pydata/xarray/issues/4214 | MDEyOklzc3VlQ29tbWVudDY1NzYyNzI3Nw== | jacobtomlinson 1610850 | 2020-07-13T15:27:01Z | 2020-07-13T15:27:01Z | CONTRIBUTOR | Many thanks! We will start running nightlies from today. |
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Add initial cupy tests 654678508 | |
656761038 | https://github.com/pydata/xarray/pull/4214#issuecomment-656761038 | https://api.github.com/repos/pydata/xarray/issues/4214 | MDEyOklzc3VlQ29tbWVudDY1Njc2MTAzOA== | jacobtomlinson 1610850 | 2020-07-10T16:18:01Z | 2020-07-10T16:18:01Z | CONTRIBUTOR | Ok great! Once this is merged we will get that set up on our end. |
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Add initial cupy tests 654678508 | |
656629069 | https://github.com/pydata/xarray/pull/4214#issuecomment-656629069 | https://api.github.com/repos/pydata/xarray/issues/4214 | MDEyOklzc3VlQ29tbWVudDY1NjYyOTA2OQ== | jacobtomlinson 1610850 | 2020-07-10T11:34:37Z | 2020-07-10T11:34:37Z | CONTRIBUTOR | I think what we can offer at the moment is to run a nightly against the default branch on some GPU hardware. If the nightly fails we will open an issue and look into resolving it. Not as neat as hooking into PRs like the rest of the CI though. Hopefully this will improve over time. |
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Add initial cupy tests 654678508 | |
656627686 | https://github.com/pydata/xarray/issues/3232#issuecomment-656627686 | https://api.github.com/repos/pydata/xarray/issues/3232 | MDEyOklzc3VlQ29tbWVudDY1NjYyNzY4Ng== | jacobtomlinson 1610850 | 2020-07-10T11:30:36Z | 2020-07-10T11:30:36Z | CONTRIBUTOR | @fjanoos I'm afraid I don't. In RAPIDS we support cupy as our GPU array implementation. So this request has come from the desire to make xarray compatible with the RAPIDS suite of tools. We commonly see folks using cupy to switch straight over to a tool like pytorch using DLPack. https://docs-cupy.chainer.org/en/stable/reference/interoperability.html#dlpack But I don't really see #4212 as an effort to make cupy the GPU backend for xarray. I see it as adding support for another backend to xarray. The more the merrier! |
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Use pytorch as backend for xarrays 482543307 | |
656613425 | https://github.com/pydata/xarray/pull/4214#issuecomment-656613425 | https://api.github.com/repos/pydata/xarray/issues/4214 | MDEyOklzc3VlQ29tbWVudDY1NjYxMzQyNQ== | jacobtomlinson 1610850 | 2020-07-10T10:50:32Z | 2020-07-10T10:50:32Z | CONTRIBUTOR | @TomNicholas I've been trying to find a way to do this. In order for the cupy tests to be run the CI machine will need an NVIDIA GPU. But setting up a GPU CI would be a burden on the xarray team both technically and financially. This is why I'm just skipping for now. For projects over in RAPIDS we have have a private GPU CI. We aren't in a position to integrate this here but we may be able to run nightlies. I'll update when I have more info. |
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Add initial cupy tests 654678508 | |
656604704 | https://github.com/pydata/xarray/issues/4212#issuecomment-656604704 | https://api.github.com/repos/pydata/xarray/issues/4212 | MDEyOklzc3VlQ29tbWVudDY1NjYwNDcwNA== | jacobtomlinson 1610850 | 2020-07-10T10:27:29Z | 2020-07-10T10:27:29Z | CONTRIBUTOR | This PR for adding pint support is a useful reference. https://github.com/pydata/xarray/pull/3238 |
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Add cupy support 654135405 | |
656178897 | https://github.com/pydata/xarray/issues/3232#issuecomment-656178897 | https://api.github.com/repos/pydata/xarray/issues/3232 | MDEyOklzc3VlQ29tbWVudDY1NjE3ODg5Nw== | jacobtomlinson 1610850 | 2020-07-09T14:58:40Z | 2020-07-09T14:58:40Z | CONTRIBUTOR | @andersy005 I'm about to start working actively on Cupy requests that instead of calling |
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Use pytorch as backend for xarrays 482543307 | |
426377254 | https://github.com/pydata/xarray/pull/2449#issuecomment-426377254 | https://api.github.com/repos/pydata/xarray/issues/2449 | MDEyOklzc3VlQ29tbWVudDQyNjM3NzI1NA== | jacobtomlinson 1610850 | 2018-10-02T18:15:28Z | 2018-10-02T18:15:28Z | CONTRIBUTOR | Thanks for the feedback. I think when working in iris that you expect multiple cubes to be returned as a cube list. Also when calling I would propose that |
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Add 'to_iris' and 'from_iris' to methods Dataset 365367839 | |
412947889 | https://github.com/pydata/xarray/issues/2335#issuecomment-412947889 | https://api.github.com/repos/pydata/xarray/issues/2335 | MDEyOklzc3VlQ29tbWVudDQxMjk0Nzg4OQ== | jacobtomlinson 1610850 | 2018-08-14T17:15:01Z | 2018-08-14T17:15:01Z | CONTRIBUTOR | Yup seems fine in 0.10.8. |
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Spurious "Zarr requires uniform chunk sizes excpet for final chunk." 346525275 | |
412939138 | https://github.com/pydata/xarray/issues/2335#issuecomment-412939138 | https://api.github.com/repos/pydata/xarray/issues/2335 | MDEyOklzc3VlQ29tbWVudDQxMjkzOTEzOA== | jacobtomlinson 1610850 | 2018-08-14T16:47:15Z | 2018-08-14T16:47:15Z | CONTRIBUTOR | Great! We are still on 0.10.7 so I'll update and give it another go. |
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Spurious "Zarr requires uniform chunk sizes excpet for final chunk." 346525275 |
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