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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,35 @@ | ||
| """Testing module for regression tests""" | ||
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| import numpy as np | ||
| import pyarrow as pa | ||
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| import tiledbsoma as soma | ||
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| def test_nd_dense_non_contiguous_write(tmp_path): | ||
| """Test regression dected in GitHub Issue #2537""" | ||
| # Create data. | ||
| data = ( | ||
| np.arange(np.product(24), dtype=np.uint8) | ||
| .reshape((4, 3, 2)) | ||
| .transpose((2, 0, 1)) | ||
| ) | ||
| coords = tuple(slice(0, dim_len) for dim_len in data.shape) | ||
| tensor = pa.Tensor.from_numpy(data) | ||
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| # Create array and write data to it. | ||
| with soma.DenseNDArray.create( | ||
| tmp_path.as_posix(), type=pa.uint8(), shape=data.shape | ||
| ) as array: | ||
| array.write(coords, tensor) | ||
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| # Check the data is correct when we read it back. | ||
| with soma.DenseNDArray.open(tmp_path.as_posix()) as array: | ||
| result = array.read(coords) | ||
| np.testing.assert_equal(data, result.to_numpy()) | ||
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| # Check the data is correct when we read it back. | ||
| with soma.DenseNDArray.open(tmp_path.as_posix()) as array: | ||
| result = array.read(coords, result_order="column-major") | ||
| np.testing.assert_equal(data.transpose(), result.to_numpy()) |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,19 +1,27 @@ | ||
| # Basic on-laptop setup | ||
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| ``` | ||
| pip install . | ||
| Build the docs with: | ||
| ```bash | ||
| ./local-build.sh | ||
| ``` | ||
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| This is very important -- _for developers_, the nominal use-mode is `python setup.py develop` as documented in our [../apis/python/README.md](../apis/python/README.md). But this local build _will not find_ `tiledbsoma-py` from this local install. You must install `pip install apis/python so it can find Python source for document autogen, _and_ you must re-run `pip install apis/python after each and every source-file edit, even if you're just doing an edit-build-preview iteration loop in a sandbox checkout. | ||
| The first time you run this, it will: | ||
| 1. Create and activate a virtualenv (`venv/`) | ||
| 2. Install [`requirements_doc.txt`](requirements_doc.txt) | ||
| 3. Install `..apis/python` (editable) | ||
| 4. Build the docs (output to `doc/html/`) | ||
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| ``` | ||
| #!/bin/bash | ||
| set -euo pipefail | ||
| sphinx-build -E -T -b html -d foo/doctrees -D language=en doc/source doc/html | ||
| ``` | ||
| Subsequent runs will only perform the 4th step (unless `-r`/`--reinstall` is passed). | ||
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| Once the docs are built, you can: | ||
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| ```bash | ||
| open source/_build/html/index.html | ||
| ``` | ||
| #!/bin/bash | ||
| set -euo pipefail | ||
| open doc/html/python-api.html | ||
| or e.g.: | ||
| ```bash | ||
| http-server source/_build/html & | ||
| open http://localhost:8080/ | ||
| ``` | ||
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| and inspect them. |
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