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@chriseclectic chriseclectic commented Sep 28, 2021

Summary

Adds add_analysis_callback to DbExperimentData that allows running analysis functions as a done callback to the running job futures, or as a separate future if no jobs are running. This separate the processes for job execution and analysis post-processing and allows multiple post-processing functions to be added and run in order, but still collectively as an asynchronous background processes.

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Depends on #402

@jyu00
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jyu00 commented Sep 29, 2021

I think this would work. However, a maybe simpler solution is to continue using add_done_callback() but wrap the real callback function with a helper that 1) indicate post processing is still running (e.g. a dictionary of callback id & status) so status() reports the true status and 2) catch and save any exception. Since you already wrote this code, it's up to you whether you want to keep it.

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@jyu00 I've updated PR to go back to using a mix of job_done_callback if there is already a job futures. Or to create a new analysis future if there are no job futures so analysis added through callback still runs async (and then adding any additional analysis callbacks will get added as job done callbacks to that analysis future so they should still run in order they were added).

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Other than some minor comments, I think this looks good. Although you might want to add at least 1 test on adding multiple callback functions.

LOG.info("Waiting for data job %s to finish.", jobs)
with contextlib.suppress(Exception):
fut.result(timeout)
_, timeout = combined_timeout(fut.result, timeout)
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There seems to be a bug in the old code. How would the caller know the wait timed out if all exceptions are suppressed lol

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I never quite understood why this was in the code! So should the with suppress lines be removed then?

* VALIDATING - if any job is being validated.
* INITIALIZING - if any job is being initialized.
* POST_PROCESSING - if any analysis callbacks are still running
* DONE - if all jobs and analysis callbacks are finished.
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Probably IntEnum (this is not what you implemented though)?

return figure_data


def combined_timeout(
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Seems this is bit problematic from usability point of view. When user adds one more scan point and it triggers job splitting, it suddenly increases a chance to get timeout error though jobs are executed at normal speed. The problem here is splitting is performed implicitly.

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That's the point though. If you set timeout for 60 seconds when calling block for results, you would expect it to time out in 60 seconds. Previously if you have a bunch of jobs and analysis callbacks the timeout before would have been 60 seconds for each jobs/callback, so potentially much longer than 60 seconds total.

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If only one job left and it reaches timeout, it is hard for most of users to resubmit last one of automatically split job. Also it is difficult to predict number of split jobs (one needs to check the count of .circuits and backend max experiments before execution, to scale timeout value). Probably many people don't use timeout feature (it's rarely explained in the tutorial/textbook), so this will not quite hurt usability.

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wshanks commented Oct 7, 2021

I was wondering how this would interact with #251. There BaseExperiment.run() is overridden like:

https://github.com/Qiskit/qiskit-experiments/blob/fe9b24451d2248d128adc6fb156e7ffe8f93874a/qiskit_experiments/calibration_management/base_calibration_experiment.py#L336-L361

With add_analysis_callback, this could be refactored to:

    def run(self, ...):
         experiment_data = super().run(backend, analysis, experiment_data, **run_options) 
  
         if self.auto_update:
             experiment_data.add_analysis_callback(self.update_calibrations)
  
         return experiment_data

So the block_for_results() can be dropped (which opens up other issues but not ones related to this PR) but run() still needs to be overridden because there is no other way to add analysis callbacks after the default one.

Is overriding run the intended usage, or should there be another way for experiments to add the analysis chain? Or is add_analysis_callback intended for higher level code that calls run() and then calls add_analysis_callback itself?

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yaelbh commented Oct 7, 2021

I'm not following what's happening in this PR, but, working on #364, I noticed that things that are done with experiment data don't always work with composite experiment data. #364 contains tests for composite experiment data, that are currently missing. Since this PR has "ExperimentData" in its title, please verify that it doesn't break anything with composite experiment data.

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@wshanks Either run could be overridden like you suggest, or run_analysis, or we could build some standard post-analysis hook into the base class such as the approach in #404 (which might need some slight refactoring to use these callbacks), though maybe there is little need for the hooks if the run / run_analysis override is minimal.

With the callback the update will always run after jobs and analysis without needing to block. Though I think it would likely be better if the calibration update method could update a separate calibration container passed as an argument so same container could be used in multiple experiments. We would need to make that container thread safe like the data structures used in DbExperimentData so only one experiment can update it at a time (This is stuff that is probably better discussed in #251)

Adds `add_analysis_callback` to `DbExperimentData` that allows running an analysis function as a future that will wait for currently running jobs to finish first. This separate the futures for job execution and analysis post-processing.
This changes back to using the `add_done_callback` method of Python Futures, but wraps the callback in a custom function that can track its status during async running.
* Add dataclass for callback status
* Modified behavior of `block_for_results` to show warnings if jobs or callbacks errored, cancelled, or timedout.
* Fix behavior of `status` and `errors` so that they should return the same values if called multiple times when jobs failed or were cancelled. This required removing the `_errors` attribute and manually retrieving job and callback errors each time `errors` is called. For `status` job futures are only removed from the list if they successfully finish without errors.
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nkanazawa1989 commented Oct 11, 2021

What is the status of this PR? I think this is good to go in. Regarding what @yaelbh suggested, I think this doesn't break any composite workflow because, in the composite, this will just add a run_analysis of base class to the thread safe dictionary, then each nested analysis will be separately called in the _run_analysis method of composite analysis. At this moment, the data is no longer future object (I'm not 100% sure).

@chriseclectic chriseclectic merged commit fd62526 into qiskit-community:main Oct 11, 2021
gadial pushed a commit to gadial/qiskit-experiments that referenced this pull request Dec 7, 2021
coruscating added a commit that referenced this pull request Jan 13, 2022
* Mitigation experiment initial commit

* Added mitigation analysis

* Small fixes to ensure figures are generated

* Linting

* Adding tensored mitigation as parallel experiment

* Changing method into class

* Bug fixes

* Restructuring to avoid reliance on composite experiment, and simplifying tensored experiment

* Refactor mitigation experiment to have two experiment classes

* RB Interleaved element fix (#399)

* Slightly changing the way interleaved element is passed and used

* Linting

* Linting

* Linting

* Allow splitting of jobs for all backends (#402)

* Allow splitting of jobs for all backends

Allows splitting experiments containing more circuits than can be executed at once into multiple jobs for legacy backends and 3rd party backends that don't support job splitting automatically.

* Update requirements.txt mpl req

* Add test

Also had to fix bug in FakeJob where the job id of the result and job didn't match which would lead to errors in the number of added jobs.

* Fixup

* Fix missing callback

Fix missing callback call when all added data is non-job data

* Add lock to add_data

* Fix type hint for run_analysis

* Update releasenotes/notes/job-splitting-775dc9aed9cf20c2.yaml

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

* FineAmp without schedules (#420)

* * FineAmp can now run without a schedule.

* * Added test on gates.

* * Made fine drag work without schedules.

* Update qiskit_experiments/library/calibration/fine_drag.py

* * Docstring

* Update qiskit_experiments/library/calibration/fine_drag.py

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* Update qiskit_experiments/library/calibration/fine_drag.py

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* Fix bug in curve_fit for sigma=None (#422)

Setting `sigma=None` for curve_fit would raise an error from trying to call `np.isnan(None)`. This adds a check that sigma is not None first.

* Fix bug in DbExperimentData._retrieve_data (#421)

* Add analysis callback to ExperimentData (#407)

* Add default pre-processing to curve analysis (#409)

* add pre-processing to curve fit

* black&lint

* add reno

* rb notebook update

* update averaging method with shot number

* revert RB analysis

* update reno

* fix test

* revert rb notebook

* fix documentation from comments

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* add shots to data sort

* fix bug

* black

* fix bug

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* Improve calibration experiments (#251)

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Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* english (#429)

* PR for saving and loading composite experiments (#364)

Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Bump terra to the most recent master (#426)

* * Terra bump

* * Constraints.

* * Delete constraints.

* Make verify_headers verify files in the test folder (#433)

* Make verify_headers verify files in the test folder

* made verify_headers nicer

* lint

* update tox.ini to run black and lint also for the tools folder

* Fix bug with ExperimentData.load (#423)

* * Fix issue 430 (#434)

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* * Added loading bug fix and corresponding test. (#444)

* * Added tearDown. (#449)

* Adjust tomography doc strings to automatic template (#375)

* tomography autotemplate doc

* fix lint errors

* fix indentation

* add blank lines

* small doc change

* Update qpt_analysis.py

* Update qpt_experiment.py

* Update qst_analysis.py

* lint docs fix

* misc

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* Drag fit instability (#450)

* * Exposed seed in mock iq backend.
* Changed default bounds and initial p0 guess in drag analysis.

* * Fix tests.

* * Improve doc and black.

* Amp cal refactor (#439)

* * Added specializations.
* Moved fine amp to characterization.
* Refactored some tests.

* * Added tests.
* Added transpile options.

* * Removed obsolete test.
* Black

* * Docs and lint.

* * Docs and tests.

* * Begining of NB reworking.

* * Updated the tutorial.

* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/calibration/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* * Documentation.

* * Documentation.

* * Added metadata hook in base class.
* Added metadata in fine amp cal circuits.

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* Fix DB display for non-float values (#301)

* Fix DB display for non-finite floats

* Add safe JSON serialization of inf and NaN

* Fix some issues with safe float and recusion

* A few more fixes

* Add string conversion for result display

Add ability to display complex, list, and array results in result DB by converting to string. Currently this limits display to cases where the resulting string is < 60 characters.

* Add tests for display conversion

* Fix array2string conversion

* Remove special handling for non float values

Now only complex numbers are converted to strings, and any string values are uploaded to the database without checking their length (the service should do its own checking and truncation if required). For values that are not a float or string type, they are uploaded as a string of the class name "(cls)".

* Fixup tests for renamed method

* Remove unused import

* Include safe nan handling for chisq

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* remove double test (#454)

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* Update computation of probability (#424)

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* Documentation patch for PR424 (#458)

* Cleaned up composite_analysis.py (#443)

* Hack for non-existing parent id (#461)

* Remove ``experiment_data`` from ``BaseExperiment.run`` (#463)

* Remove experiment_data for BaseExperiment.run to prevent adding additional job data to existing experiment using this method. Now all executions must return unique ExperimentData objects, which can still manually be combined using `add_data` if the user wants.

* Add backend property to experiments (#462)

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* Add ExperimentConfig dataclass (#469)

* Half angle (#418)

* * First draft of half angle calibration.

* * inits and docstring.

* * Added transpile options, reference and more doc.

* * First draft of half angle.

* * Docs and test

* * removed transpile options (for a future PR).
* extended test.
* added analysis class.

* * fix docs.

* * Docstring

* Update qiskit_experiments/library/characterization/half_angle.py

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* * Added transpiler options for inst_map
* Bumped terra to main

* * ParameterRepr

* * Calibration class
* Black
* Tests

* * Improved doc.
* Implemented update rule.

* * Fixed update rule.

* * Update for half angle cal.

* * Bug fixes.
* Tutorial clean-up.

* * Black

* * Test align to bug fix.

* * Lint.

* * Added comment on options.

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/calibration/half_angle_cal.py

* * Changed init arg order.

* * refactor update rule.

* * Black

* Update qiskit_experiments/library/calibration/analysis/fine_half_angle_analysis.py

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* Update qiskit_experiments/library/calibration/half_angle_cal.py

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* Update docs/tutorials/fine_calibrations.ipynb

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* * Doc.

* * Decorators, and decorators.

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* Rabi refactor (#466)

* * Moved Rabi to characterization.

* * Refactor EFRabi and tests accordingly.
* Added tests for rough amp calibration.
* Reworked init files and docs in them.
* Added rough amplitude cal.
* Moved mock rabi backend.
* Removed amplitude update from updates.

* * Black and lint.

* * Docs

* * Docs.

* * Updated NB and caught some bugs.

* * Lint and removed updater amplitude test as Amplitude no longer exists.

* * Black

* * Test lint

* * Black.

* * Removed dt info

* * rabi_rate_12

* * Named tuple.

* * Bug fix with options.

* * Test fix after merge main.

* * setting of transpile options and the config test.

* Update qiskit_experiments/library/characterization/rabi.py

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* Update docs/tutorials/calibrating_armonk.ipynb

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* Add ``replace_results`` kwarg to ``BaseAnalysis.run`` (#464)

* This fixes issue with re-analyzing experiment data when trying to save to the result database. Now if replace_results is True any previous analysis results will be cleared and replaced with the new results, while if False a copy (with a new experiment id) will be generated containing only the new results.
* This change also requires a change that `BaseAnalysis.run` runs as an analysis callback, rather than just `BaseExperiment.run`.

* Fix typos in t1/t2 experiments (#480)

* T1 T2 analysis migration (#427)

* analysis class migration

* fix t1 test

* black

* fix conversion factor handling

* update tutorials

* bug fix

* documentation fix

* move some evaluation criteria from common analysis

* remove conversion factor and unit from result metadata

* keep conversion factor

* remove osc_freq from initial guess

* update conversion factor logic for init guess

* lint

* typo fix

* Added 0/1 cals for fine sx amp (#483)

* * Added 0/1 cals for fine sx amp.
* Added dedicated class for fine X amp analysis.

* * Aligned cal and characterization value.
* Fixed tests.
* Updated NB.

* * Fix method redefine.

* * Dropped negative bound on amp.

* Fix output array shape of SVD data processing node (#476)

* fix SVD shape

* fix docs

* fix comment

* fix var name

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* comments

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* Edge-case: fitting constant y values with decay analysis (#487)

* Small fixes from recent PRs (#489)

Fixes a couple bugs from recent PRs
* set_backend has to be called last during initialization so that all instance attributes are created first in case they are used by _set_backend
* block_for_results in CompositeExperimentData was not returning self like the super class does
* BaseExperiment.run and BaseExperiment.run_analysis should return the output of Analysis.run / run_analysis in case a copy of the experiment data is created by the `replace_results` analysis kwarg.

* Drag cal refactor (#473)

* * Moved calibration.DragCal -> characterization.RoughDrag.
* New cal class RoughDragCal.
* Added test and refactored tests.
* Adjusted inits.

* * Default options.

* * Black.
* Amp. update fix.

* * Removed Drag update library test as this is now redundent with RoughDragCal test.

* * Removed Drag updater.

* * Removed unused import.

* * updated NB.

* * Aligned tests to the gate naming.

* * Tutorial NB.

* * Config test.

* * Args order and set options.

* Ramsey refactor. (#485)

* * Moved RamseyXY to characterization.
* Added a cal version of the class.

* * refactored RamseyXY.

* * Test config.

* Update qiskit_experiments/calibration_management/base_calibration_experiment.py

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* * Arg order in init.

* * Removed updated and fixed tests.

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* Fix some typos in warnings (#493)

* Fix some typos in warnings

* Update qiskit_experiments/database_service/db_experiment_data.py

* Update qiskit_experiments/database_service/db_experiment_data.py

* Add child data support to ExperimentData (#451)

* BaseExperiment to accept only a list of qubits (#431)

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* Replace `str(uuid4())` with `uuid4().hex` (#492)

* Revert "Replace `str(uuid4())` with `uuid4().hex` (#492)" (#501)

This reverts commit f5da13c.

* Fine drag cal refactor (#519)

* * First draft of framework to save and rebuild calibrations from metadata.

* * Moved FineDrag to characterization and created a calibration version of the experiment.

* * Undo git merging issues.

* * Fix merge issues.

* * Lint

* * Docs.

* * Lint.

* * Docs

* * Docs.

* Fix storing of component metadata in composite experiment (#510)

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* Consolidate the analysis classes in characterization. (#523)

* * Consolidated the analysis classes in characterization.

* * Black.

* Update qiskit_experiments/library/characterization/cr_hamiltonian.py

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* * Removed ~

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* Add ``Settings`` mixin class (#520)

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* Refactor where the calibration metadata is stored. (#524)

* * refactor of where the calibration metadata is stored.

* * Lint.

* Improve JSON encoder and decoder (#470)

* Move error about less than three points from T1 to DecayAnalysis (#490)

* Move error about less than three points from T1 to DecayAnalysis

* removed check also from decay

* lint

* Save-load test and bug fixes (#467)

* Test counts in composite experiments (#506)

* Bug fix: T1 and T2Ramsey don't run correctly on devices (#529)

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* Recursive methods for adding and removing tags (#522)

* wrote add_tags_recursive and remove_tag_recursive

* docs

* lint

* Update qiskit_experiments/database_service/db_experiment_data.py

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* release notes

* fix method docs

* fixed test

* black

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* Readout angle experiment (#525)

* Readout angle experiment

* readout angle files

* removed fix_class_docs

* bug fix in composite save

* removed debug prints

* moved location of analysis file

* removed the parallel test

* black

* lint

* black

* lint

* black

* update init file

* docs

* release notes

* addressing review comments

* Update ``ExperimentData.analysis_results`` to be blocking by default (#486)

* Serialize the basis gate library (#539)

* * Serialization support for the BasisGateLibrary.

* Update qiskit_experiments/calibration_management/basis_gate_library.py

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* * Internal clean-up of basis gate library.

* * Warning message.

* * Hashing of basis gate library.

* * dict(...) -> .copy()

* * Added a test for raising a user warning on different hash values.

* * Test docs.

* * Refactored schedule building.

* * Made test robust.

* * Test fix and cleaner implementation.

* * removed use_drag.

* * Test fix.

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* Data processor with uncertainties package (#481)

* fix SVD shape

* fix docs

* fix comment

* fix var name

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* comments

* update except for SVD

* update note tests

* fix processor logic

* documentation

* lint

* add reno

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* fix test

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add description for correlation

* remove typehint for trainable node

* update return doc

* add type check

* detail for full array

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add comment

* fix document

* black

* Update qiskit_experiments/data_processing/__init__.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* update docs

* update docs

* restrict count validation

* update return type of data processor

* lint

* add svd test

* update average node

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add comment

* add handling for level2 memory

* black

* lint

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* ignore assigning-non-slot (#553)

* Clean-up of Base calibration experiments (#547)

* * Removed unused methods and added some validation.

* * Moved validation to after init.

* * Moved validation to before super().__init__
* Removed validate schedules.

* * Fix validation.

* Change config from property to method (#555)

* Add StoreInitArgs mixin (#554)

* Start of BaseAnalysis refactor (#517)

* Analysis refactor part 2 (#556)

* small fixes

* Change to deprecated analysis class usage

* Analysis returns mitigator object instead of matrices

* Refactoring mitigation experiment

* Refactoring mitigation analysis

* Linting

* Linting

* Linting

* Linting

* Mitigation tutorial notebook

* Mitigation tutorial notebook update

* Mitigation experiment tests

* Linting

* Changes to visualization

* Bugfix

* Linting

* Avoiding failing test due to small bug in Terra

* Linting

* Linting

* Refactoring

* Tutorial texts

* Plot fix

* Release note

Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>
Co-authored-by: Matthew Treinish <mtreinish@kortar.org>
Co-authored-by: Daniel Egger <38065505+eggerdj@users.noreply.github.com>
Co-authored-by: Will Shanks <wshaos@posteo.net>
Co-authored-by: Naoki Kanazawa <knzwnao@jp.ibm.com>
Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>
Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: dekelmeirom <33314493+dekelmeirom@users.noreply.github.com>
Co-authored-by: Will Shanks <willshanks@us.ibm.com>
Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>
nkanazawa1989 added a commit to nkanazawa1989/qiskit-experiments that referenced this pull request Jan 19, 2022
* Mitigation experiment initial commit

* Added mitigation analysis

* Small fixes to ensure figures are generated

* Linting

* Adding tensored mitigation as parallel experiment

* Changing method into class

* Bug fixes

* Restructuring to avoid reliance on composite experiment, and simplifying tensored experiment

* Refactor mitigation experiment to have two experiment classes

* RB Interleaved element fix (qiskit-community#399)

* Slightly changing the way interleaved element is passed and used

* Linting

* Linting

* Linting

* Allow splitting of jobs for all backends (qiskit-community#402)

* Allow splitting of jobs for all backends

Allows splitting experiments containing more circuits than can be executed at once into multiple jobs for legacy backends and 3rd party backends that don't support job splitting automatically.

* Update requirements.txt mpl req

* Add test

Also had to fix bug in FakeJob where the job id of the result and job didn't match which would lead to errors in the number of added jobs.

* Fixup

* Fix missing callback

Fix missing callback call when all added data is non-job data

* Add lock to add_data

* Fix type hint for run_analysis

* Update releasenotes/notes/job-splitting-775dc9aed9cf20c2.yaml

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

* FineAmp without schedules (qiskit-community#420)

* * FineAmp can now run without a schedule.

* * Added test on gates.

* * Made fine drag work without schedules.

* Update qiskit_experiments/library/calibration/fine_drag.py

* * Docstring

* Update qiskit_experiments/library/calibration/fine_drag.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/calibration/fine_drag.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix bug in curve_fit for sigma=None (qiskit-community#422)

Setting `sigma=None` for curve_fit would raise an error from trying to call `np.isnan(None)`. This adds a check that sigma is not None first.

* Fix bug in DbExperimentData._retrieve_data (qiskit-community#421)

* Add analysis callback to ExperimentData (qiskit-community#407)

* Add default pre-processing to curve analysis (qiskit-community#409)

* add pre-processing to curve fit

* black&lint

* add reno

* rb notebook update

* update averaging method with shot number

* revert RB analysis

* update reno

* fix test

* revert rb notebook

* fix documentation from comments

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* add shots to data sort

* fix bug

* black

* fix bug

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* Improve calibration experiments (qiskit-community#251)

Co-authored-by: Will Shanks <wshaos@posteo.net>
Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* english (qiskit-community#429)

* PR for saving and loading composite experiments (qiskit-community#364)

Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Bump terra to the most recent master (qiskit-community#426)

* * Terra bump

* * Constraints.

* * Delete constraints.

* Make verify_headers verify files in the test folder (qiskit-community#433)

* Make verify_headers verify files in the test folder

* made verify_headers nicer

* lint

* update tox.ini to run black and lint also for the tools folder

* Fix bug with ExperimentData.load (qiskit-community#423)

* * Fix issue 430 (qiskit-community#434)

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* * Added loading bug fix and corresponding test. (qiskit-community#444)

* * Added tearDown. (qiskit-community#449)

* Adjust tomography doc strings to automatic template (qiskit-community#375)

* tomography autotemplate doc

* fix lint errors

* fix indentation

* add blank lines

* small doc change

* Update qpt_analysis.py

* Update qpt_experiment.py

* Update qst_analysis.py

* lint docs fix

* misc

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: knzwnao <knzwnao@jp.ibm.com>

* Drag fit instability (qiskit-community#450)

* * Exposed seed in mock iq backend.
* Changed default bounds and initial p0 guess in drag analysis.

* * Fix tests.

* * Improve doc and black.

* Amp cal refactor (qiskit-community#439)

* * Added specializations.
* Moved fine amp to characterization.
* Refactored some tests.

* * Added tests.
* Added transpile options.

* * Removed obsolete test.
* Black

* * Docs and lint.

* * Docs and tests.

* * Begining of NB reworking.

* * Updated the tutorial.

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/calibration/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Documentation.

* * Documentation.

* * Added metadata hook in base class.
* Added metadata in fine amp cal circuits.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix DB display for non-float values (qiskit-community#301)

* Fix DB display for non-finite floats

* Add safe JSON serialization of inf and NaN

* Fix some issues with safe float and recusion

* A few more fixes

* Add string conversion for result display

Add ability to display complex, list, and array results in result DB by converting to string. Currently this limits display to cases where the resulting string is < 60 characters.

* Add tests for display conversion

* Fix array2string conversion

* Remove special handling for non float values

Now only complex numbers are converted to strings, and any string values are uploaded to the database without checking their length (the service should do its own checking and truncation if required). For values that are not a float or string type, they are uploaded as a string of the class name "(cls)".

* Fixup tests for renamed method

* Remove unused import

* Include safe nan handling for chisq

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* remove double test (qiskit-community#454)

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* Update computation of probability (qiskit-community#424)

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Documentation patch for PR424 (qiskit-community#458)

* Cleaned up composite_analysis.py (qiskit-community#443)

* Hack for non-existing parent id (qiskit-community#461)

* Remove ``experiment_data`` from ``BaseExperiment.run`` (qiskit-community#463)

* Remove experiment_data for BaseExperiment.run to prevent adding additional job data to existing experiment using this method. Now all executions must return unique ExperimentData objects, which can still manually be combined using `add_data` if the user wants.

* Add backend property to experiments (qiskit-community#462)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Add ExperimentConfig dataclass (qiskit-community#469)

* Half angle (qiskit-community#418)

* * First draft of half angle calibration.

* * inits and docstring.

* * Added transpile options, reference and more doc.

* * First draft of half angle.

* * Docs and test

* * removed transpile options (for a future PR).
* extended test.
* added analysis class.

* * fix docs.

* * Docstring

* Update qiskit_experiments/library/characterization/half_angle.py

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* * Added transpiler options for inst_map
* Bumped terra to main

* * ParameterRepr

* * Calibration class
* Black
* Tests

* * Improved doc.
* Implemented update rule.

* * Fixed update rule.

* * Update for half angle cal.

* * Bug fixes.
* Tutorial clean-up.

* * Black

* * Test align to bug fix.

* * Lint.

* * Added comment on options.

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/calibration/half_angle_cal.py

* * Changed init arg order.

* * refactor update rule.

* * Black

* Update qiskit_experiments/library/calibration/analysis/fine_half_angle_analysis.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/calibration/half_angle_cal.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/half_angle.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/characterization/half_angle.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update docs/tutorials/fine_calibrations.ipynb

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Doc.

* * Decorators, and decorators.

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Will Shanks <wshaos@posteo.net>

* Rabi refactor (qiskit-community#466)

* * Moved Rabi to characterization.

* * Refactor EFRabi and tests accordingly.
* Added tests for rough amp calibration.
* Reworked init files and docs in them.
* Added rough amplitude cal.
* Moved mock rabi backend.
* Removed amplitude update from updates.

* * Black and lint.

* * Docs

* * Docs.

* * Updated NB and caught some bugs.

* * Lint and removed updater amplitude test as Amplitude no longer exists.

* * Black

* * Test lint

* * Black.

* * Removed dt info

* * rabi_rate_12

* * Named tuple.

* * Bug fix with options.

* * Test fix after merge main.

* * setting of transpile options and the config test.

* Update qiskit_experiments/library/characterization/rabi.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update docs/tutorials/calibrating_armonk.ipynb

Co-authored-by: Will Shanks <wshaos@posteo.net>

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Add ``replace_results`` kwarg to ``BaseAnalysis.run`` (qiskit-community#464)

* This fixes issue with re-analyzing experiment data when trying to save to the result database. Now if replace_results is True any previous analysis results will be cleared and replaced with the new results, while if False a copy (with a new experiment id) will be generated containing only the new results.
* This change also requires a change that `BaseAnalysis.run` runs as an analysis callback, rather than just `BaseExperiment.run`.

* Fix typos in t1/t2 experiments (qiskit-community#480)

* T1 T2 analysis migration (qiskit-community#427)

* analysis class migration

* fix t1 test

* black

* fix conversion factor handling

* update tutorials

* bug fix

* documentation fix

* move some evaluation criteria from common analysis

* remove conversion factor and unit from result metadata

* keep conversion factor

* remove osc_freq from initial guess

* update conversion factor logic for init guess

* lint

* typo fix

* Added 0/1 cals for fine sx amp (qiskit-community#483)

* * Added 0/1 cals for fine sx amp.
* Added dedicated class for fine X amp analysis.

* * Aligned cal and characterization value.
* Fixed tests.
* Updated NB.

* * Fix method redefine.

* * Dropped negative bound on amp.

* Fix output array shape of SVD data processing node (qiskit-community#476)

* fix SVD shape

* fix docs

* fix comment

* fix var name

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* comments

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Edge-case: fitting constant y values with decay analysis (qiskit-community#487)

* Small fixes from recent PRs (qiskit-community#489)

Fixes a couple bugs from recent PRs
* set_backend has to be called last during initialization so that all instance attributes are created first in case they are used by _set_backend
* block_for_results in CompositeExperimentData was not returning self like the super class does
* BaseExperiment.run and BaseExperiment.run_analysis should return the output of Analysis.run / run_analysis in case a copy of the experiment data is created by the `replace_results` analysis kwarg.

* Drag cal refactor (qiskit-community#473)

* * Moved calibration.DragCal -> characterization.RoughDrag.
* New cal class RoughDragCal.
* Added test and refactored tests.
* Adjusted inits.

* * Default options.

* * Black.
* Amp. update fix.

* * Removed Drag update library test as this is now redundent with RoughDragCal test.

* * Removed Drag updater.

* * Removed unused import.

* * updated NB.

* * Aligned tests to the gate naming.

* * Tutorial NB.

* * Config test.

* * Args order and set options.

* Ramsey refactor. (qiskit-community#485)

* * Moved RamseyXY to characterization.
* Added a cal version of the class.

* * refactored RamseyXY.

* * Test config.

* Update qiskit_experiments/calibration_management/base_calibration_experiment.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Arg order in init.

* * Removed updated and fixed tests.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix some typos in warnings (qiskit-community#493)

* Fix some typos in warnings

* Update qiskit_experiments/database_service/db_experiment_data.py

* Update qiskit_experiments/database_service/db_experiment_data.py

* Add child data support to ExperimentData (qiskit-community#451)

* BaseExperiment to accept only a list of qubits (qiskit-community#431)

Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Replace `str(uuid4())` with `uuid4().hex` (qiskit-community#492)

* Revert "Replace `str(uuid4())` with `uuid4().hex` (qiskit-community#492)" (qiskit-community#501)

This reverts commit f5da13c.

* Fine drag cal refactor (qiskit-community#519)

* * First draft of framework to save and rebuild calibrations from metadata.

* * Moved FineDrag to characterization and created a calibration version of the experiment.

* * Undo git merging issues.

* * Fix merge issues.

* * Lint

* * Docs.

* * Lint.

* * Docs

* * Docs.

* Fix storing of component metadata in composite experiment (qiskit-community#510)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Consolidate the analysis classes in characterization. (qiskit-community#523)

* * Consolidated the analysis classes in characterization.

* * Black.

* Update qiskit_experiments/library/characterization/cr_hamiltonian.py

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* * Removed ~

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Add ``Settings`` mixin class (qiskit-community#520)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Refactor where the calibration metadata is stored. (qiskit-community#524)

* * refactor of where the calibration metadata is stored.

* * Lint.

* Improve JSON encoder and decoder (qiskit-community#470)

* Move error about less than three points from T1 to DecayAnalysis (qiskit-community#490)

* Move error about less than three points from T1 to DecayAnalysis

* removed check also from decay

* lint

* Save-load test and bug fixes (qiskit-community#467)

* Test counts in composite experiments (qiskit-community#506)

* Bug fix: T1 and T2Ramsey don't run correctly on devices (qiskit-community#529)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Recursive methods for adding and removing tags (qiskit-community#522)

* wrote add_tags_recursive and remove_tag_recursive

* docs

* lint

* Update qiskit_experiments/database_service/db_experiment_data.py

Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>

* release notes

* fix method docs

* fixed test

* black

Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>

* Readout angle experiment (qiskit-community#525)

* Readout angle experiment

* readout angle files

* removed fix_class_docs

* bug fix in composite save

* removed debug prints

* moved location of analysis file

* removed the parallel test

* black

* lint

* black

* lint

* black

* update init file

* docs

* release notes

* addressing review comments

* Update ``ExperimentData.analysis_results`` to be blocking by default (qiskit-community#486)

* Serialize the basis gate library (qiskit-community#539)

* * Serialization support for the BasisGateLibrary.

* Update qiskit_experiments/calibration_management/basis_gate_library.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Internal clean-up of basis gate library.

* * Warning message.

* * Hashing of basis gate library.

* * dict(...) -> .copy()

* * Added a test for raising a user warning on different hash values.

* * Test docs.

* * Refactored schedule building.

* * Made test robust.

* * Test fix and cleaner implementation.

* * removed use_drag.

* * Test fix.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Data processor with uncertainties package (qiskit-community#481)

* fix SVD shape

* fix docs

* fix comment

* fix var name

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* comments

* update except for SVD

* update note tests

* fix processor logic

* documentation

* lint

* add reno

use np.testing

* fix test

* Update qiskit_experiments/data_processing/data_action.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* add description for correlation

* remove typehint for trainable node

* update return doc

* add type check

* detail for full array

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* add comment

* fix document

* black

* Update qiskit_experiments/data_processing/__init__.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* update docs

* update docs

* restrict count validation

* update return type of data processor

* lint

* add svd test

* update average node

* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add comment

* add handling for level2 memory

* black

* lint

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* ignore assigning-non-slot (qiskit-community#553)

* Clean-up of Base calibration experiments (qiskit-community#547)

* * Removed unused methods and added some validation.

* * Moved validation to after init.

* * Moved validation to before super().__init__
* Removed validate schedules.

* * Fix validation.

* Change config from property to method (qiskit-community#555)

* Add StoreInitArgs mixin (qiskit-community#554)

* Start of BaseAnalysis refactor (qiskit-community#517)

* Analysis refactor part 2 (qiskit-community#556)

* small fixes

* Change to deprecated analysis class usage

* Analysis returns mitigator object instead of matrices

* Refactoring mitigation experiment

* Refactoring mitigation analysis

* Linting

* Linting

* Linting

* Linting

* Mitigation tutorial notebook

* Mitigation tutorial notebook update

* Mitigation experiment tests

* Linting

* Changes to visualization

* Bugfix

* Linting

* Avoiding failing test due to small bug in Terra

* Linting

* Linting

* Refactoring

* Tutorial texts

* Plot fix

* Release note

Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>
Co-authored-by: Matthew Treinish <mtreinish@kortar.org>
Co-authored-by: Daniel Egger <38065505+eggerdj@users.noreply.github.com>
Co-authored-by: Will Shanks <wshaos@posteo.net>
Co-authored-by: Naoki Kanazawa <knzwnao@jp.ibm.com>
Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>
Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: dekelmeirom <33314493+dekelmeirom@users.noreply.github.com>
Co-authored-by: Will Shanks <willshanks@us.ibm.com>
Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>
@chriseclectic chriseclectic deleted the analysis-callback branch March 3, 2022 22:43
paco-ri pushed a commit to paco-ri/qiskit-experiments that referenced this pull request Jul 11, 2022
paco-ri pushed a commit to paco-ri/qiskit-experiments that referenced this pull request Jul 11, 2022
* Mitigation experiment initial commit

* Added mitigation analysis

* Small fixes to ensure figures are generated

* Linting

* Adding tensored mitigation as parallel experiment

* Changing method into class

* Bug fixes

* Restructuring to avoid reliance on composite experiment, and simplifying tensored experiment

* Refactor mitigation experiment to have two experiment classes

* RB Interleaved element fix (qiskit-community#399)

* Slightly changing the way interleaved element is passed and used

* Linting

* Linting

* Linting

* Allow splitting of jobs for all backends (qiskit-community#402)

* Allow splitting of jobs for all backends

Allows splitting experiments containing more circuits than can be executed at once into multiple jobs for legacy backends and 3rd party backends that don't support job splitting automatically.

* Update requirements.txt mpl req

* Add test

Also had to fix bug in FakeJob where the job id of the result and job didn't match which would lead to errors in the number of added jobs.

* Fixup

* Fix missing callback

Fix missing callback call when all added data is non-job data

* Add lock to add_data

* Fix type hint for run_analysis

* Update releasenotes/notes/job-splitting-775dc9aed9cf20c2.yaml

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

Co-authored-by: Matthew Treinish <mtreinish@kortar.org>

* FineAmp without schedules (qiskit-community#420)

* * FineAmp can now run without a schedule.

* * Added test on gates.

* * Made fine drag work without schedules.

* Update qiskit_experiments/library/calibration/fine_drag.py

* * Docstring

* Update qiskit_experiments/library/calibration/fine_drag.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update qiskit_experiments/library/calibration/fine_drag.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix bug in curve_fit for sigma=None (qiskit-community#422)

Setting `sigma=None` for curve_fit would raise an error from trying to call `np.isnan(None)`. This adds a check that sigma is not None first.

* Fix bug in DbExperimentData._retrieve_data (qiskit-community#421)

* Add analysis callback to ExperimentData (qiskit-community#407)

* Add default pre-processing to curve analysis (qiskit-community#409)

* add pre-processing to curve fit

* black&lint

* add reno

* rb notebook update

* update averaging method with shot number

* revert RB analysis

* update reno

* fix test

* revert rb notebook

* fix documentation from comments

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* add shots to data sort

* fix bug

* black

* fix bug

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* Improve calibration experiments (qiskit-community#251)

Co-authored-by: Will Shanks <wshaos@posteo.net>
Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* english (qiskit-community#429)

* PR for saving and loading composite experiments (qiskit-community#364)

Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Bump terra to the most recent master (qiskit-community#426)

* * Terra bump

* * Constraints.

* * Delete constraints.

* Make verify_headers verify files in the test folder (qiskit-community#433)

* Make verify_headers verify files in the test folder

* made verify_headers nicer

* lint

* update tox.ini to run black and lint also for the tools folder

* Fix bug with ExperimentData.load (qiskit-community#423)

* * Fix issue 430 (qiskit-community#434)

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* * Added loading bug fix and corresponding test. (qiskit-community#444)

* * Added tearDown. (qiskit-community#449)

* Adjust tomography doc strings to automatic template (qiskit-community#375)

* tomography autotemplate doc

* fix lint errors

* fix indentation

* add blank lines

* small doc change

* Update qpt_analysis.py

* Update qpt_experiment.py

* Update qst_analysis.py

* lint docs fix

* misc

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: knzwnao <knzwnao@jp.ibm.com>

* Drag fit instability (qiskit-community#450)

* * Exposed seed in mock iq backend.
* Changed default bounds and initial p0 guess in drag analysis.

* * Fix tests.

* * Improve doc and black.

* Amp cal refactor (qiskit-community#439)

* * Added specializations.
* Moved fine amp to characterization.
* Refactored some tests.

* * Added tests.
* Added transpile options.

* * Removed obsolete test.
* Black

* * Docs and lint.

* * Docs and tests.

* * Begining of NB reworking.

* * Updated the tutorial.

* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

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* Update qiskit_experiments/library/calibration/fine_amplitude.py

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* Update qiskit_experiments/library/characterization/fine_amplitude.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Documentation.

* * Documentation.

* * Added metadata hook in base class.
* Added metadata in fine amp cal circuits.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix DB display for non-float values (qiskit-community#301)

* Fix DB display for non-finite floats

* Add safe JSON serialization of inf and NaN

* Fix some issues with safe float and recusion

* A few more fixes

* Add string conversion for result display

Add ability to display complex, list, and array results in result DB by converting to string. Currently this limits display to cases where the resulting string is < 60 characters.

* Add tests for display conversion

* Fix array2string conversion

* Remove special handling for non float values

Now only complex numbers are converted to strings, and any string values are uploaded to the database without checking their length (the service should do its own checking and truncation if required). For values that are not a float or string type, they are uploaded as a string of the class name "(cls)".

* Fixup tests for renamed method

* Remove unused import

* Include safe nan handling for chisq

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* remove double test (qiskit-community#454)

Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>

* Update computation of probability (qiskit-community#424)

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>
Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Documentation patch for PR424 (qiskit-community#458)

* Cleaned up composite_analysis.py (qiskit-community#443)

* Hack for non-existing parent id (qiskit-community#461)

* Remove ``experiment_data`` from ``BaseExperiment.run`` (qiskit-community#463)

* Remove experiment_data for BaseExperiment.run to prevent adding additional job data to existing experiment using this method. Now all executions must return unique ExperimentData objects, which can still manually be combined using `add_data` if the user wants.

* Add backend property to experiments (qiskit-community#462)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Add ExperimentConfig dataclass (qiskit-community#469)

* Half angle (qiskit-community#418)

* * First draft of half angle calibration.

* * inits and docstring.

* * Added transpile options, reference and more doc.

* * First draft of half angle.

* * Docs and test

* * removed transpile options (for a future PR).
* extended test.
* added analysis class.

* * fix docs.

* * Docstring

* Update qiskit_experiments/library/characterization/half_angle.py

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* * Added transpiler options for inst_map
* Bumped terra to main

* * ParameterRepr

* * Calibration class
* Black
* Tests

* * Improved doc.
* Implemented update rule.

* * Fixed update rule.

* * Update for half angle cal.

* * Bug fixes.
* Tutorial clean-up.

* * Black

* * Test align to bug fix.

* * Lint.

* * Added comment on options.

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/characterization/half_angle.py

* Update qiskit_experiments/library/calibration/half_angle_cal.py

* * Changed init arg order.

* * refactor update rule.

* * Black

* Update qiskit_experiments/library/calibration/analysis/fine_half_angle_analysis.py

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* Update qiskit_experiments/library/calibration/half_angle_cal.py

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* Update qiskit_experiments/library/characterization/half_angle.py

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* Update qiskit_experiments/library/characterization/half_angle.py

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* Update docs/tutorials/fine_calibrations.ipynb

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Doc.

* * Decorators, and decorators.

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Will Shanks <wshaos@posteo.net>

* Rabi refactor (qiskit-community#466)

* * Moved Rabi to characterization.

* * Refactor EFRabi and tests accordingly.
* Added tests for rough amp calibration.
* Reworked init files and docs in them.
* Added rough amplitude cal.
* Moved mock rabi backend.
* Removed amplitude update from updates.

* * Black and lint.

* * Docs

* * Docs.

* * Updated NB and caught some bugs.

* * Lint and removed updater amplitude test as Amplitude no longer exists.

* * Black

* * Test lint

* * Black.

* * Removed dt info

* * rabi_rate_12

* * Named tuple.

* * Bug fix with options.

* * Test fix after merge main.

* * setting of transpile options and the config test.

* Update qiskit_experiments/library/characterization/rabi.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Update docs/tutorials/calibrating_armonk.ipynb

Co-authored-by: Will Shanks <wshaos@posteo.net>

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Add ``replace_results`` kwarg to ``BaseAnalysis.run`` (qiskit-community#464)

* This fixes issue with re-analyzing experiment data when trying to save to the result database. Now if replace_results is True any previous analysis results will be cleared and replaced with the new results, while if False a copy (with a new experiment id) will be generated containing only the new results.
* This change also requires a change that `BaseAnalysis.run` runs as an analysis callback, rather than just `BaseExperiment.run`.

* Fix typos in t1/t2 experiments (qiskit-community#480)

* T1 T2 analysis migration (qiskit-community#427)

* analysis class migration

* fix t1 test

* black

* fix conversion factor handling

* update tutorials

* bug fix

* documentation fix

* move some evaluation criteria from common analysis

* remove conversion factor and unit from result metadata

* keep conversion factor

* remove osc_freq from initial guess

* update conversion factor logic for init guess

* lint

* typo fix

* Added 0/1 cals for fine sx amp (qiskit-community#483)

* * Added 0/1 cals for fine sx amp.
* Added dedicated class for fine X amp analysis.

* * Aligned cal and characterization value.
* Fixed tests.
* Updated NB.

* * Fix method redefine.

* * Dropped negative bound on amp.

* Fix output array shape of SVD data processing node (qiskit-community#476)

* fix SVD shape

* fix docs

* fix comment

* fix var name

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* comments

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Edge-case: fitting constant y values with decay analysis (qiskit-community#487)

* Small fixes from recent PRs (qiskit-community#489)

Fixes a couple bugs from recent PRs
* set_backend has to be called last during initialization so that all instance attributes are created first in case they are used by _set_backend
* block_for_results in CompositeExperimentData was not returning self like the super class does
* BaseExperiment.run and BaseExperiment.run_analysis should return the output of Analysis.run / run_analysis in case a copy of the experiment data is created by the `replace_results` analysis kwarg.

* Drag cal refactor (qiskit-community#473)

* * Moved calibration.DragCal -> characterization.RoughDrag.
* New cal class RoughDragCal.
* Added test and refactored tests.
* Adjusted inits.

* * Default options.

* * Black.
* Amp. update fix.

* * Removed Drag update library test as this is now redundent with RoughDragCal test.

* * Removed Drag updater.

* * Removed unused import.

* * updated NB.

* * Aligned tests to the gate naming.

* * Tutorial NB.

* * Config test.

* * Args order and set options.

* Ramsey refactor. (qiskit-community#485)

* * Moved RamseyXY to characterization.
* Added a cal version of the class.

* * refactored RamseyXY.

* * Test config.

* Update qiskit_experiments/calibration_management/base_calibration_experiment.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Arg order in init.

* * Removed updated and fixed tests.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Fix some typos in warnings (qiskit-community#493)

* Fix some typos in warnings

* Update qiskit_experiments/database_service/db_experiment_data.py

* Update qiskit_experiments/database_service/db_experiment_data.py

* Add child data support to ExperimentData (qiskit-community#451)

* BaseExperiment to accept only a list of qubits (qiskit-community#431)

Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>

* Replace `str(uuid4())` with `uuid4().hex` (qiskit-community#492)

* Revert "Replace `str(uuid4())` with `uuid4().hex` (qiskit-community#492)" (qiskit-community#501)

This reverts commit f5da13c.

* Fine drag cal refactor (qiskit-community#519)

* * First draft of framework to save and rebuild calibrations from metadata.

* * Moved FineDrag to characterization and created a calibration version of the experiment.

* * Undo git merging issues.

* * Fix merge issues.

* * Lint

* * Docs.

* * Lint.

* * Docs

* * Docs.

* Fix storing of component metadata in composite experiment (qiskit-community#510)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Consolidate the analysis classes in characterization. (qiskit-community#523)

* * Consolidated the analysis classes in characterization.

* * Black.

* Update qiskit_experiments/library/characterization/cr_hamiltonian.py

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* * Removed ~

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Add ``Settings`` mixin class (qiskit-community#520)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Refactor where the calibration metadata is stored. (qiskit-community#524)

* * refactor of where the calibration metadata is stored.

* * Lint.

* Improve JSON encoder and decoder (qiskit-community#470)

* Move error about less than three points from T1 to DecayAnalysis (qiskit-community#490)

* Move error about less than three points from T1 to DecayAnalysis

* removed check also from decay

* lint

* Save-load test and bug fixes (qiskit-community#467)

* Test counts in composite experiments (qiskit-community#506)

* Bug fix: T1 and T2Ramsey don't run correctly on devices (qiskit-community#529)

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>

* Recursive methods for adding and removing tags (qiskit-community#522)

* wrote add_tags_recursive and remove_tag_recursive

* docs

* lint

* Update qiskit_experiments/database_service/db_experiment_data.py

Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>

* release notes

* fix method docs

* fixed test

* black

Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>

* Readout angle experiment (qiskit-community#525)

* Readout angle experiment

* readout angle files

* removed fix_class_docs

* bug fix in composite save

* removed debug prints

* moved location of analysis file

* removed the parallel test

* black

* lint

* black

* lint

* black

* update init file

* docs

* release notes

* addressing review comments

* Update ``ExperimentData.analysis_results`` to be blocking by default (qiskit-community#486)

* Serialize the basis gate library (qiskit-community#539)

* * Serialization support for the BasisGateLibrary.

* Update qiskit_experiments/calibration_management/basis_gate_library.py

Co-authored-by: Will Shanks <wshaos@posteo.net>

* * Internal clean-up of basis gate library.

* * Warning message.

* * Hashing of basis gate library.

* * dict(...) -> .copy()

* * Added a test for raising a user warning on different hash values.

* * Test docs.

* * Refactored schedule building.

* * Made test robust.

* * Test fix and cleaner implementation.

* * removed use_drag.

* * Test fix.

Co-authored-by: Will Shanks <wshaos@posteo.net>

* Data processor with uncertainties package (qiskit-community#481)

* fix SVD shape

* fix docs

* fix comment

* fix var name

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* comments

* update except for SVD

* update note tests

* fix processor logic

* documentation

* lint

* add reno

use np.testing

* fix test

* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_action.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add description for correlation

* remove typehint for trainable node

* update return doc

* add type check

* detail for full array

* Update qiskit_experiments/data_processing/nodes.py

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* Update qiskit_experiments/data_processing/nodes.py

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* add comment

* fix document

* black

* Update qiskit_experiments/data_processing/__init__.py

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* Update qiskit_experiments/data_processing/data_processor.py

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* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* update docs

* update docs

* restrict count validation

* update return type of data processor

* lint

* add svd test

* update average node

* Update qiskit_experiments/data_processing/data_processor.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* Update qiskit_experiments/data_processing/nodes.py

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* add comment

* add handling for level2 memory

* black

* lint

Co-authored-by: Daniel J. Egger <38065505+eggerdj@users.noreply.github.com>

* ignore assigning-non-slot (qiskit-community#553)

* Clean-up of Base calibration experiments (qiskit-community#547)

* * Removed unused methods and added some validation.

* * Moved validation to after init.

* * Moved validation to before super().__init__
* Removed validate schedules.

* * Fix validation.

* Change config from property to method (qiskit-community#555)

* Add StoreInitArgs mixin (qiskit-community#554)

* Start of BaseAnalysis refactor (qiskit-community#517)

* Analysis refactor part 2 (qiskit-community#556)

* small fixes

* Change to deprecated analysis class usage

* Analysis returns mitigator object instead of matrices

* Refactoring mitigation experiment

* Refactoring mitigation analysis

* Linting

* Linting

* Linting

* Linting

* Mitigation tutorial notebook

* Mitigation tutorial notebook update

* Mitigation experiment tests

* Linting

* Changes to visualization

* Bugfix

* Linting

* Avoiding failing test due to small bug in Terra

* Linting

* Linting

* Refactoring

* Tutorial texts

* Plot fix

* Release note

Co-authored-by: Christopher J. Wood <cjwood@us.ibm.com>
Co-authored-by: Matthew Treinish <mtreinish@kortar.org>
Co-authored-by: Daniel Egger <38065505+eggerdj@users.noreply.github.com>
Co-authored-by: Will Shanks <wshaos@posteo.net>
Co-authored-by: Naoki Kanazawa <knzwnao@jp.ibm.com>
Co-authored-by: Yael Ben-Haim <yaelbh@il.ibm.com>
Co-authored-by: Naoki Kanazawa <nkanazawa1989@gmail.com>
Co-authored-by: Kevin Tian <kevin.tian@ibm.com>
Co-authored-by: dekelmeirom <33314493+dekelmeirom@users.noreply.github.com>
Co-authored-by: Will Shanks <willshanks@us.ibm.com>
Co-authored-by: Helena Zhang <Helena.Zhang@ibm.com>
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5 participants