levita_a
7d39015719
response to dayne's review
2025-10-17 23:41:08 +02:00
levita_a
f022b5e2c4
Get the tests passing again after the change of the optimization functions in the model classes
2025-10-16 15:58:28 +02:00
yoshikisd
82ce845385
Changed the names of the reconstructors and updated the old optimizer class documentation
2025-08-04 16:51:24 +00:00
yoshikisd
1e7fe2eb5f
Added pytests for reconstructors
2025-08-01 22:31:40 +00:00
gnzng
fc5a76ad61
linting test_plotting.py and test_propagators.py
2025-07-07 15:13:11 -07:00
gnzng
65e83753a8
linting test_interactions.py, test_losses.py, and test_measurements.py
2025-07-07 14:58:11 -07:00
gnzng
88df4c0794
linting test_image_processing.py and test_initializers.py
2025-07-07 14:40:17 -07:00
gnzng
b00f39e1fe
linting test_analysis.py and test_data.py
2025-07-07 14:28:23 -07:00
gnzng
96d8b10792
linting test_fancy_ptycho.py
2025-07-07 14:11:50 -07:00
gnzng
ecb8ee4864
linting test_simple_ptycho.py
2025-07-07 13:59:35 -07:00
gnzng
745f7b73e6
Fix background calculation in test_Ptycho2DDataset_downsample
2025-07-07 13:55:54 -07:00
gnzng
f463144347
linting test_datasets.py
2025-07-07 13:49:46 -07:00
gnzng
4d812db68a
restructured conftest.py imports
2025-07-07 13:39:44 -07:00
gnzng
38be347a18
lint conftest.py
2025-07-07 13:38:52 -07:00
yoshikisd
36de44565b
Set fixed RNG seed for reconstruction pytests
2025-07-07 15:16:12 +00:00
gnzng
b189c3c2af
Add warning for 64-bit float conversion in Ptycho2DDataset and added to tests
2025-06-17 11:01:30 -07:00
levita_a
4ecc782c28
Reply to Daynes comment's and slightly loosen a tolerance in one test that has been failing
2025-06-10 14:11:01 +02:00
levita_a
b6bc7d95cc
Change the behavior of FancyPtycho.center_probes to center the probe in real space even when fourier_probe is set to True
2025-06-10 13:57:03 +02:00
levita_a
2c2f2d2d93
Add a way to save and load the quantum efficiency masks, and add test coverage
2025-05-13 16:05:16 +02:00
levita_a
2fd917350d
response to Dayne's review
2025-03-20 10:46:24 +01:00
levita_a
5b6fd79b28
Add tests for nested_dict_to_numpy and nested_dict_to_torch
2025-03-18 13:13:47 +01:00
levita_a
a30930b082
Fix bug with loading h5 files including strings, and add test coverage for h5_to_nested_dict and nested_dict_to_h5
2025-03-18 11:54:06 +01:00
a7904491be
Added a function to allow for deletion of translation positions with logical indexing ( #16 )
...
* Added a function to allow for deletion of translation positions via logical indexing
In ptycho_2d_dataset.py
- Created remove_translations_mask. This handles logical-indexing-based deletion of translation points
- Refactored crop_translations to be dependent on remove_translations_mask
* Add validation and tests for remove_translations_mask method in Ptycho2DDataset
* Switch mask to mask_remove
---------
Co-authored-by: gnzng <damian@guenzing.de >
Co-authored-by: Clemens Schmid <clemisch@tuta.io >
2025-02-26 06:52:04 +01:00
yoshikisd
1da20c8427
improvements: Implemented requested changes for PR13
...
For crop_translations in ptycho_2d_dataset.py
- crop_2d_translations is now crop_translations
- roi is now order-insensitive within the first and last pairs of elements.
- the definition of top, bottom, left, and right, are now consistent with figures generated by matplotlib.pyplot.imshow
- self.intensities is now updated
For tests_datasets.py
- the order-insensitivity of roi in crop_translation is tested, and tests for specific ordering of values in roi are removed.
2024-12-30 01:36:54 +00:00
yoshikisd
920f17bc66
Added a test for crop_2D_translations in Ptycho2DDataset.
2024-12-23 04:12:09 +00:00
levita_a
ba7c8a17c6
Add a function to downsample a dataset by an integer factor
2024-12-06 15:59:56 +01:00
allevitan
40651eaf54
Remove the various deprication warnings related to converting h5py datasets to arrays with np.array()
2024-10-14 08:30:15 -04:00
allevitan
25224d4d44
deal with the string_ related issues
2024-10-13 13:08:17 -04:00
Abe Levitan
13a2ba86df
Make big changes to docs to update the tutorial section, and also to finally autoload the documentation of the models and datasets
2024-09-01 13:04:28 +02:00
levita_a
30a989fe3e
Add first tests for models, and replace t.tensor with t.as_tensor in models
2024-08-30 16:10:26 +02:00
levita_a
21b618d2e0
Remove the vestigges of the polarization-dependent code. It belongs in it's own repo
2024-08-30 14:13:36 +02:00
levita_a
47aa3c41e2
Remove a bunch of models that really didn't belong in the main repo, and fix an issue with the RPI interaction conventions
2024-08-30 11:53:20 +02:00
levita_a
35f140d348
Fully replace orthogonalize_probes and update most models
2024-07-25 17:35:48 +02:00
levita_a
943dde13e6
Fix a remaining bug in orthogonalize_probes and also fix some lingering issues with the liveplotting for unified mode fancy ptycho
2024-07-25 16:32:10 +02:00
levita_a
5141320c6f
rewrite the probe orthogonalization for fancy_ptycho, and introduce a new probe orthogonalization tool in analysis. Also, update some tracking plots in fancy_ptycho
2024-07-25 15:46:53 +02:00
levita_a
59d103f6d6
update RPI to work with the latest data saving method, change dependence to latest pytorch for LBFGS to work on complex leaf tensors, and fix an issue with the test for the FRCs
2024-07-01 17:16:07 +02:00
Abe Levitan
5925ee74ab
Checked and fixed the tests, got them all running
2024-02-12 14:55:26 -05:00
Abe Levitan
dd30f58d2d
Start to make the lab bragg ptycho code sane, and fix the bug with probe bases when using probe fourier crop
2024-02-11 17:32:41 -05:00
levita_a
d0a0d12521
Add a normalize reconstruction set function
2024-01-04 16:50:10 +01:00
levita_a
f3b6ac9056
fix the numerical stability issue in the angular spectrum propagator code, but remove the ability to choose whether or not to include an explicit z dependence
2023-12-04 15:29:40 +01:00
levita_a
a9e0157707
Get tests to past and removeopt_for_fft
2023-12-01 15:58:18 +01:00
Abe Levitan
036fa8ea2c
remove dependency on fftpack completely
2022-08-19 10:02:11 -07:00
Abe Levitan
883ac0175a
Changed module name no lowercase because that's really how it should be
2022-06-08 12:52:33 -07:00
Abe Levitan
101e969eda
Fix the failing tests
2022-04-18 17:18:20 -07:00
Abe Levitan
096ec4ff20
Add analysis tools for comparing incoherent wavefields
2021-08-11 14:23:38 -04:00
Anastasiia Kutakh
3db2d0cdf6
.
2021-08-05 22:55:43 -04:00
Anastasiia Kutakh
894a5c697e
modified polarization and polarization tests
2021-08-05 18:47:46 -04:00
Abe Levitan
3e6072acb7
Finally remove the scourge of from __future__ import ... and remove any lingering suggestion that this code is python 2 compatible
2021-08-05 11:08:13 -04:00
Abe Levitan
960740f39f
Go over Anastasia's polarization tests and clean up repo a bit
2021-08-05 10:44:32 -04:00
Abe Levitan
14114f2bd4
Add tests to confirm that that the generation of angular spectrum propagators works with AD (and fix gasp so it indeed is)
2021-08-04 22:32:58 -04:00
levita_a
yoshikisd