maelclemence
b6c4dbac4a
modification remove amplitude exponent, there was dimension mismatch
2025-07-08 17:24:33 +02:00
maelclemence
b47216312d
adding a different window for FRC than for phase ramp
2025-07-08 16:49:22 +02:00
maelclemence
41e6f68a19
Small modifications of phase ramp correciton and standarize set
2025-07-07 15:04:57 +02:00
Damian Guenzing
3516405954
Merge pull request #41 from cdtools-developers/pipdocs
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Update the documentation to reflect the existence of a PyPI package.
I see I can just merge it.
2025-07-02 10:00:50 -07:00
levita_a
ab30afb10e
Update the documentation to reflect the existence of a PyPI package
2025-07-02 15:04:39 +02:00
Dayne Yoshiki Sasaki
b223011b0f
Merge pull request #40 from cdtools-developers/fixpypinaming
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fix: change name from cdtools to cdtools-py to match pypi naming
2025-06-30 10:17:37 -07:00
Damian Guenzing
1ecf001ad4
change name from cdtools to cdtools-py to match pypi naming
2025-06-29 21:14:49 +00:00
Abe Levitan
99139f59c9
Merge pull request #39 from cdtools-developers/pypirelease
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Add pypi workflow
2025-06-29 11:11:50 +02:00
gnzng
302decd922
remove version increase
2025-06-23 15:46:32 -07:00
gnzng
2c764d4190
add pypi workflow
2025-06-23 15:38:44 -07:00
Dayne Yoshiki Sasaki
8c216aa7e6
Merge pull request #36 from cdtools-developers/version0-3-0
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Pin current codebase version to 0.3.0
2025-06-23 09:37:16 -07:00
gnzng
951636e39f
pin current version to 0.3.0
2025-06-18 14:09:43 -07:00
Dayne Yoshiki Sasaki
b95bdba1ef
Merge pull request #35 from gnzng/float64
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handling of 64-bit floats in Ptycho2DDataset cxi import
2025-06-17 16:21:56 -07:00
gnzng
d7a1ea82c9
adjusted warn msg based on Daynes suggestion
2025-06-17 15:50:51 -07:00
gnzng
b189c3c2af
Add warning for 64-bit float conversion in Ptycho2DDataset and added to tests
2025-06-17 11:01:30 -07:00
Abe Levitan
eb19ce3995
Merge pull request #32 from yoshikisd/bugfix/rpi_compare
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[Bugfix] model.compare(dataset) does not work for the RPI test script
2025-06-12 07:50:18 -04:00
Dayne Yoshiki Sasaki
31318819d0
Merge branch 'cdtools-developers:master' into bugfix/rpi_compare
2025-06-11 17:03:06 -07:00
yoshikisd
4c784de922
Fixed sim_data shape change in CDIModel.compare for RPI measurements
2025-06-12 00:02:32 +00:00
Dayne Yoshiki Sasaki
b3a70ec325
Merge pull request #30 from cdtools-developers/variable_qe
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Add the ability for fancy_ptycho to model detectors with spatially varying quantum efficiency
2025-06-10 08:44:22 -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
2c5587cacf
Fix an issue for datasets with colinear translations
2025-06-10 13:57:03 +02:00
Dayne Yoshiki Sasaki
da695c7c06
Merge pull request #29 from cdtools-developers/center_probe_real_space
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Change the behavior of FancyPtycho.center_probes to always center the probe in real space
2025-06-09 19:17:10 -07:00
Abe Levitan
b74aa82c32
Merge pull request #28 from cdtools-developers/bugfix/notranslationdataset
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Fix an issue for datasets with colinear translations
2025-05-20 11:52:00 +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
c86e505ae5
Make it possible to add a quantum efficiency mask to a dataset, allow fancy_ptycho to load that and use it in the forward model
2025-05-13 14:06:02 +02:00
levita_a
ac1499f511
get it running in principle, but it is not good
2025-05-12 16:55:26 +02:00
levita_a
91717b65d6
Change the behavior of FancyPtycho.center_probes to center the probe in real space even when fourier_probe is set to True
2025-05-12 16:46:28 +02:00
levita_a
cb5942c39a
Fix an issue for datasets with colinear translations
2025-05-12 16:07:12 +02:00
Abe Levitan
d853a141bf
Merge pull request #26 from gnzng/update-doc-link
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[minor doc fix] update links to automatic docs
2025-04-02 18:32:31 +02:00
Damian Guenzing
a2ec05f63b
Update CITATION.cff
2025-04-01 10:45:07 -07:00
Damian Guenzing
dbd54f310b
Update README.md
2025-04-01 10:43:54 -07:00
Dayne Yoshiki Sasaki
1c434dd277
Merge pull request #25 from cdtools-developers/bugfix/h5_strings
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Bugfix/h5 strings
2025-03-20 12:03:00 -07:00
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
Dayne Yoshiki Sasaki
fce2add124
Merge pull request #24 from gnzng/fix-doc-deployment
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[fix] remove environment from github actions for docs deployment
2025-03-07 13:23:00 -08:00
gnzng
48ca3a675a
remove environment from github actions
2025-03-07 08:48:33 -08:00
allevitan
ee7f7eecd4
Merge pull request #21 from gnzng/master
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Include docs in main repo and automatic deploy using github actions
2025-03-07 16:25:05 +01:00
allevitan
54decc486a
Merge pull request #22 from gnzng/fix-gaussian
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Fix use of gaussian_probe() + typo
2025-03-07 16:22:00 +01:00
gnzng
f8bebd0436
typo, factor -> factors
2025-03-04 14:21:51 -08:00
gnzng
efadaf807e
Rename probe_size parameter to probe_shape in FancyPtycho and MultislicePtycho classes to match the gaussian_probe function
2025-03-04 14:20:09 -08:00
gnzng
e1b76f0959
DOCS: Force-Push due to rebasing unnecessary large commits to just add an extra doc publishing action
2025-03-03 10:11:20 -08:00
gnzng
a097dd50d2
Update .gitignore to include .DS_Store files
2025-03-02 13:05:39 -08:00
allevitan
db2450c5ae
Merge pull request #18 from gnzng/master
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add github workflow using pip installation for python 3.8 - 3.12
2025-02-27 10:34:19 +01:00
Damian Guenzing
b39cd2b705
updated installation.rst for pip installation
2025-02-26 15:24:29 +00:00
Damian Guenzing
165ff8aced
Merge branch 'cdtools-developers:master' into master
2025-02-26 07:19:48 -08:00
a7904491be
Added a function to allow for deletion of translation positions with logical indexing ( #16 )
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* 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
Damian Guenzing
5f30990e55
Delete constraints.txt
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constraints not needed anymore, relict from rebasing
2025-02-25 17:07:30 -08:00
gnzng
9159afa987
add github workflow using pip installation for python 3.8 - 3.12
2025-02-25 16:04:09 -08:00
maelclemence
levita_a