Add prephasors, rewinders etc. (#276)

* Added

* Fix

* Remove bymistake add

* Fix

* Fixed lint

* Lint

* Added refbackend

* Fix NDFT

* feat: use finufft as ref backend.

* feat(tests): move ndft vs nufft tests to own file.

* Add support for pipe

* \!docs_build try to run cufinufft tests

* \!docs_build fix style

* Added next235 for stability

* Fix lint

* Fix CUPY

* WIP

* Updates

* fix back learn examples

* move tto flatiron

* fix black

* Move to test on GPU

* Update pyproject toml and use it in test-ci, to prevent duplication of dependencies and actually test them!

* Make CI build shorter

* Test run to run

* \!docs_build Added

* adding density normalization

* Start support for finufft spread and interpolate (pipe)

* Add support for density comp

* Add support for normlize back

* Added a bunch of extra codes

* PEP fixes

* Update siemens.py

* Added fixes

* add [docs]

* Fixes and updates on the locatuions

* Update the codes to be in sync with cufinufft / finufft 2.4.0

* Merged to master

* [style]

* Fix toml ffile [docs]

* Fix toml ffile [docs]

* Update testbatch stuff

* Update the tests

* Fixed tests againnnn

* All set

* Add finufft

* Updates

* Fixes

* More fixes

* make tests less strict again

* remove bymistake

* Remove strictness, everything works, hopefully [docs]

* [docs] setup cufinufft also

* [docs] fix style

* [docs] more updates, fixes

* pywavelets

* [docs] fixes further

* [docs] try again

* [docs] final comments

* [docs] method class use

* WIP, updated codes to get itw orking

* trying to vectorize

* WIP

* WIP

* added direct change

* More updates

* Added timing and gradients

* Update gradspec and codes

* Update the error for slew

* Added tests

* Setup PEP, ready for review

* Minor update on spec

* WIP

* Fixes for tests

* fix docs

* Update src/mrinufft/io/nsp.py

Co-authored-by: Pierre-Antoine Comby <[email protected]>

* remove unused stuff

* Final fixes. [docs]

* Haandleing comments

* Update src/mrinufft/trajectories/tools.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* [docs] update the docnames

* update TE_pos

* style fixes

* style fixes

* Fix for ramps

* Update src/mrinufft/trajectories/tools.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Apply suggestions from code review

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Update src/mrinufft/io/nsp.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Update src/mrinufft/io/nsp.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Update src/mrinufft/io/nsp.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Update src/mrinufft/io/nsp.py

Co-authored-by: Guillaume Daval-Frérot <[email protected]>

* Handle comments

* rename parameters and fix ordering

* Handle comments

* Update codes

* More updates

* Fixed some bugs

* Update the tools

* style fixes and [docs]

* More bugs! Fixes

* [WIP]

* Updateds WIP

* wip

* WIP: moved to solvers

* Fixed everything, ready for review

* Update src/mrinufft/trajectories/tools.py

Co-authored-by: Pierre-Antoine Comby <[email protected]>

* style fixes

* Update ruff

* Added joblib

* style changes [docs]

* Apply suggestions from code review

Co-authored-by: Pierre-Antoine Comby <[email protected]>

* Renaming

* Fix more comments

* Undo changes

* fix undo

* refactor: split test in two

---------

Co-authored-by: chaithyagr <[email protected]>
Co-authored-by: Pierre-antoine Comby <[email protected]>
Co-authored-by: Asma TANABENE <[email protected]>
Co-authored-by: Guillaume Daval-Frérot <[email protected]>
Co-authored-by: Pierre-Antoine Comby <[email protected]>

Author: 5 people

src/mrinufft/io/nsp.py

@@ -319,6 +319,8 @@ def write_trajectory(
             kspace_start_loc=final_positions,
             acq=acq,
         )
+        gradients = np.hstack([gradients, end_gradients])
+        Ns_to_skip_at_end = end_gradients.shape[1]
     # Check constraints if requested
     if check_constraints:
         slewrates, _ = convert_gradients_to_slew_rates(gradients, acq)