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Update main to move to trunk-based development (#109)
* Uniform task labels (#36) * Make _label case uniform A VERY small PR making the case used for _label uniform. * Capitalise Ex * Pytket v1 upgrade (#41) * Upgrade to pytket v1.0.1 This primarily includes: - remove Rebase passes - change module names * Remove unused imports * Add capitilisation * Update docs with change to pytket version * Correct version requirements * Correct verson requirements Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Remove Partial SPAM correcter (#42) * remove all traces * update docs * Update build_and_test.yml * Remove copy.copy (#43) * update use of copy.copy in code remove in many cases * copy.deepcopy -> deepcopy * reintroduce necessary copy * fix typo * Add ObservableTracker.clear method (#44) * Shot splitter mitres (#40) * Add shot splitting mitres * Better python practice with shot splitting * Correct comment format * Change function name * Add a compiled shot splitting metres * Correct typing on split_index * Use OutcomeArray to gather results * Correct comment spelling * Add splitting mitres to docs * Rebuild docs Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Remove appendix from LICENSE file (#46) * Update graph visualisation (#37) * update to vertical visualisation * Update mitresgraph.png * Delete mitresgraph.png * update manual images * update mitex manual images * update docs image * rebuild docs and manual Co-authored-by: sjdilkes <[email protected]> * Add basic "_cache" attribute for storing all generated edge data from run() (#47) * add bad cache * smarten how cache works * qermit.mittask -> qermit.taskgraph * add .cache to mitres and mitex * remove redundant print * add "run_basic" method (#48) * Correct qubit mutation (#50) * Add qubit relabelling task * Correct typing * Add documentation * Add tests * Code reformatting * Correct manual * Rebuild docs * Add missing tasks to docs Co-authored-by: Daniel Mills <[email protected]> * Minor edits, rebuild docs and manual (#49) * add bad cache * smarten how cache works * qermit.mittask -> qermit.taskgraph * add .cache to mitres and mitex * add "run_basic" method * fix obvious issues * qermit -> Qermit * Update index.rst * Update index.rst * q -> Q * rebuild manual and docs * remove print * rebuild docs and manual * add "real" string back * update docs * update docs * Update pytket version to 1~(#55) * update pytket * update * Remove pytket from test requirements, and cast mean * Update zne.py * Remove use of RebaseToCliffordSingles * BLACK FORMAT Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: sjdilkes <[email protected]> * Add `characterisation` attribute to TaskGraph and pass as kwarg to TaskGraph.run (#61) * Update _version.py * Update zne_test.py * Add characterisation attribute to taskgraph allow to be passed at run * ignore numpy * set mittask characterisation attribute when running * Update frame_randomisation_test.py * update pytket version * Update frame_randomisation_test.py * revert pytket changes * update versioning * Update SPAM correction to use characterisation instead of BackendInfo * Update full_spam_test.py * use characteriastoin in CCL * update manual * Add Spectral Filtering Method (#63) * Initial commit with outline of protocol * Remove unnecessary wires * Add result extraction * Output qpo * Add test * Add characterisation cache * Add documentation * Add spectral filtering tests * Generalise tests to more complicated qpo * Add type annotation * Remove caches * Add documentation * Split FFT from formatting component * Add tests for graph generation and new FFT and formating task * Add tests, docs and type annotation for small coefficient filter * Document FFT and related tasks * Document SignalFilter * Clean up some documentation * Minor corrctions to typing * Simplify NDArray typing * Change to List type annotation * Add additioinal documentation * Address Silas PR comments * Code Formatting * Formatting and type checking * Add compiled docs * Compile manual * Add spectral fiiltering to docs index * Remove use of np array * Correct typing Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Update python version (#66) * Update copyright (#69) * Update pytket version to 1.11(#67) * Change copyright * Add noise scaling via 2 qubit gate folding (#72) * Add 2 qubit gate folding * Run black * Import isclose * Add test call to main call --------- Co-authored-by: dan-mills-cqc <[email protected]> * update docs * Add failing tests (#76) * Add failing SPAM test * Add test backends * Add pytket-quantinuum to test requirements * Remove myqos imports * Add test init * Add failing ZNE test * Add types and docs to mock backend * Fix pytket-quantinuum test version --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * ZNE Include all Qubit Map (#78) * add failing test * Add complete workflow failing test * Pass list of node maps * Correct documentation --------- Co-authored-by: dan-mills-cqc <[email protected]> * Add removed wires in get_full_transition_tomography_circuits (#75) * Add coverage for removing wires, also format * Remove added DecomposeBoxes * format * Move MockQuantinuumBackend to qermit subdirectory, update FullyConneted architeture constructed * remove pytest fails * Update test_requirements.txt * Update mock_quantinuum_backend.py * Format code and add format check to CI (#77) * Format code and add format check to CI * Revert some formatting * Add coverage to requirements * Add flake8 to test requirements * Install test requirements before running tests * Update README with formatting change * Correct formatting --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Update versions * Fix mock backend tests (#82) * Extend mock mackend gateset * Reduce optimisation level * Remove unrequired changes * Add n_cl_reg to mock quantinuum backend * Change node names to match updates quaninuum backends --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Make cache visible (#86) * Make cache visible * Add test for visible cache --------- Co-authored-by: dan-mills-cqc <[email protected]> * Use equivalence check between characterisation (#84) I believe it's okay if they are not exactly the same list of nodes? * correct duplication of experiment mitex (#85) Co-authored-by: dan-mills-cqc <[email protected]> * Docs/update docs theme (#90) * add build and .venv to .gitignore * update theme configuration in conf.py * update theme requirements * replace CQC logo with Quantinuum logo * remove refernce to old logo in index.rst * add built files to .gitignore * update copyright * update docs theme in user manual * add source code links to API docs * update old links in index * remove redundant .gitignore line * Add doc build to tests (#89) Co-authored-by: dan-mills-cqc <[email protected]> * Make Folding and Fit methods staticmethod (#87) * Remove self * Add @staticmethod decorator * Repair high compute tests --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Postselection and leakage example (#88) * Add postselection and leakage example * Add documentation * add rst files * Code formatting * add reset and reorder compilation * Add test comparing to pytket method * remove post_select from manager move to using one work postselect * remove post_select from mitres * Remove post_select from tests * Silas corrections * Correct formatting --------- Co-authored-by: dan-mills-cqc <[email protected]> * Separate NoisyAerBackend (#91) * Sperate noisyaerbackend from mock quantinuum * Correct mypy * Add docstrings on gate sets * Update test requirements * Remove commented out gate set * Correct code formatting * Move noise model definition * Correct gateset --------- Co-authored-by: dan-mills-cqc <[email protected]> * Reformat code with `black` (#92) * Reformat black * Add copyright notices * Fix mypy issues * appease CI * Update versions * Correct type annotatioin (#94) * Correct type annotatioin * Remove prints * Additional typing corrections * install testing requirements * Correct workflow formatting * Correct all type errors * Minor code style changes --------- Co-authored-by: dan-mills-cqc <[email protected]> * Pauli Noise Model Backend (#95) * Add noise model * Correct imports * Use if instead of case * Add stabiliser * Remove tqdm * Remove tqdm * Remove total * Rename to noise model module * Remove error sampler * Extend testing * Correct typing in pytket 1.21.0 * Add documentation to ErrorDistribution * Move to using counter in logical error distribution * Correct logical error simulation test * Finish noise model documentation * Document Stabiliser * Document transpiler backend * Remove reference to stabiliser * Add QermitPauli * Silas requests * Rename to set_rng and move private methods * Noise Aware ZNE (#96) * remove noise scale by 1 as default * Allow list of circuits when scaling and add noise scaled mitex * Add noise aware noise scaling * Add additional documentation * Add end to end noise aware zne test * Test scaling and merge * Repair haging test by removing plot * Review Corrections * Use ResultHandle * Move to using PTMs for scaling * Correct formatting and add docs * Additional inline docs --------- Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Modernise Build System (#98) * Use toml * bump python version * Add optional dependencies * Remove editable install * Correct toml formatting * Remove optinoal * Revet changes * Allow editable builds * Correct build system * Add authors * Add optional dependencies * Correct toml formatting * True -> true * Make optional deps optional * Use os matrix * Add runs-on * Correct MockQuantinuumBackend type annotaion --------- Co-authored-by: Daniel Mills <[email protected]> * Support parallelism in noisy simulator (#97) * Support parallelism in noisy backend * Add documentation and type annotation * Correct some doc strings * Correct test requirements * Move away from using provider * include qiskit-ibmq-provider as dependency * Check install versions * Move away from using IBMQ * Spawn threads in tests * Default to one core * Correct formatting --------- Co-authored-by: Daniel Mills <[email protected]> * Update pytket-quantinuum (#100) * Update pytket-quantinuum * Update workflow versions * Add pytket-quantinuum to docs dependencies * Add issue to project workflow (#101) * fix: Update develop (#110) * Qermit 0.5.0 (#93) * Uniform task labels (#36) * Make _label case uniform A VERY small PR making the case used for _label uniform. * Capitalise Ex * Pytket v1 upgrade (#41) * Upgrade to pytket v1.0.1 This primarily includes: - remove Rebase passes - change module names * Remove unused imports * Add capitilisation * Update docs with change to pytket version * Correct version requirements * Correct verson requirements Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Remove Partial SPAM correcter (#42) * remove all traces * update docs * Update build_and_test.yml * Remove copy.copy (#43) * update use of copy.copy in code remove in many cases * copy.deepcopy -> deepcopy * reintroduce necessary copy * fix typo * Add ObservableTracker.clear method (#44) * Shot splitter mitres (#40) * Add shot splitting mitres * Better python practice with shot splitting * Correct comment format * Change function name * Add a compiled shot splitting metres * Correct typing on split_index * Use OutcomeArray to gather results * Correct comment spelling * Add splitting mitres to docs * Rebuild docs Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Remove appendix from LICENSE file (#46) * Update graph visualisation (#37) * update to vertical visualisation * Update mitresgraph.png * Delete mitresgraph.png * update manual images * update mitex manual images * update docs image * rebuild docs and manual Co-authored-by: sjdilkes <[email protected]> * Add basic "_cache" attribute for storing all generated edge data from run() (#47) * add bad cache * smarten how cache works * qermit.mittask -> qermit.taskgraph * add .cache to mitres and mitex * remove redundant print * add "run_basic" method (#48) * Correct qubit mutation (#50) * Add qubit relabelling task * Correct typing * Add documentation * Add tests * Code reformatting * Correct manual * Rebuild docs * Add missing tasks to docs Co-authored-by: Daniel Mills <[email protected]> * Minor edits, rebuild docs and manual (#49) * add bad cache * smarten how cache works * qermit.mittask -> qermit.taskgraph * add .cache to mitres and mitex * add "run_basic" method * fix obvious issues * qermit -> Qermit * Update index.rst * Update index.rst * q -> Q * rebuild manual and docs * remove print * rebuild docs and manual * add "real" string back * update docs * update docs * Update pytket version to 1~(#55) * update pytket * update * Remove pytket from test requirements, and cast mean * Update zne.py * Remove use of RebaseToCliffordSingles * BLACK FORMAT Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: sjdilkes <[email protected]> * Add `characterisation` attribute to TaskGraph and pass as kwarg to TaskGraph.run (#61) * Update _version.py * Update zne_test.py * Add characterisation attribute to taskgraph allow to be passed at run * ignore numpy * set mittask characterisation attribute when running * Update frame_randomisation_test.py * update pytket version * Update frame_randomisation_test.py * revert pytket changes * update versioning * Update SPAM correction to use characterisation instead of BackendInfo * Update full_spam_test.py * use characteriastoin in CCL * update manual * Add Spectral Filtering Method (#63) * Initial commit with outline of protocol * Remove unnecessary wires * Add result extraction * Output qpo * Add test * Add characterisation cache * Add documentation * Add spectral filtering tests * Generalise tests to more complicated qpo * Add type annotation * Remove caches * Add documentation * Split FFT from formatting component * Add tests for graph generation and new FFT and formating task * Add tests, docs and type annotation for small coefficient filter * Document FFT and related tasks * Document SignalFilter * Clean up some documentation * Minor corrctions to typing * Simplify NDArray typing * Change to List type annotation * Add additioinal documentation * Address Silas PR comments * Code Formatting * Formatting and type checking * Add compiled docs * Compile manual * Add spectral fiiltering to docs index * Remove use of np array * Correct typing Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> * Update python version (#66) * Update copyright (#69) * Update pytket version to 1.11(#67) * Change copyright * Add noise scaling via 2 qubit gate folding (#72) * Add 2 qubit gate folding * Run black * Import isclose * Add test call to main call --------- Co-authored-by: dan-mills-cqc <[email protected]> * update docs * Add failing tests (#76) * Add failing SPAM test * Add test backends * Add pytket-quantinuum to test requirements * Remove myqos imports * Add test init * Add failing ZNE test * Add types and docs to mock backend * Fix pytket-quantinuum test version --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * ZNE Include all Qubit Map (#78) * add failing test * Add complete workflow failing test * Pass list of node maps * Correct documentation --------- Co-authored-by: dan-mills-cqc <[email protected]> * Add removed wires in get_full_transition_tomography_circuits (#75) * Add coverage for removing wires, also format * Remove added DecomposeBoxes * format * Move MockQuantinuumBackend to qermit subdirectory, update FullyConneted architeture constructed * remove pytest fails * Update test_requirements.txt * Update mock_quantinuum_backend.py * Format code and add format check to CI (#77) * Format code and add format check to CI * Revert some formatting * Add coverage to requirements * Add flake8 to test requirements * Install test requirements before running tests * Update README with formatting change * Correct formatting --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Update versions * Fix mock backend tests (#82) * Extend mock mackend gateset * Reduce optimisation level * Remove unrequired changes * Add n_cl_reg to mock quantinuum backend * Change node names to match updates quaninuum backends --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Make cache visible (#86) * Make cache visible * Add test for visible cache --------- Co-authored-by: dan-mills-cqc <[email protected]> * Use equivalence check between characterisation (#84) I believe it's okay if they are not exactly the same list of nodes? * correct duplication of experiment mitex (#85) Co-authored-by: dan-mills-cqc <[email protected]> * Docs/update docs theme (#90) * add build and .venv to .gitignore * update theme configuration in conf.py * update theme requirements * replace CQC logo with Quantinuum logo * remove refernce to old logo in index.rst * add built files to .gitignore * update copyright * update docs theme in user manual * add source code links to API docs * update old links in index * remove redundant .gitignore line * Add doc build to tests (#89) Co-authored-by: dan-mills-cqc <[email protected]> * Make Folding and Fit methods staticmethod (#87) * Remove self * Add @staticmethod decorator * Repair high compute tests --------- Co-authored-by: dan-mills-cqc <[email protected]> Co-authored-by: dan-mills-cqc <[email protected]> * Postselection and leakage example (#88) * Add postselection and leakage example * Add documentation * add rst files * Code formatting * add reset and reorder compilation * Add test comparing to pytket method * remove post_select from manager move to using one work postselect * remove post_select from mitres * Remove post_select from tests * Silas corrections * Correct formatting --------- Co-authored-by: dan-mills-cqc <[email protected]> * Separate NoisyAerBackend (#91) * Sperate noisyaerbackend from mock quantinuum * Correct mypy * Add docstrings on gate sets * Update test requirements * Remove commented out gate set * Correct code formatting * Move noise model definition * Correct gateset --------- Co-authored-by: dan-mills-cqc <[email protected]> * Reformat code with `black` (#92) * Reformat black * Add copyright notices * Fix mypy issues * appease CI * Update versions * Correct type annotatioin (#94) * Correct type annotatioin * Remove prints * Additional typing corrections * install testing requirements * Correct workflow formatting * Correct all type errors * Minor code style changes --------- Co-authored-by: dan-mills-cqc <[email protected]> --------- Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Silas Dilkes <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Seyon Sivarajah <[email protected]> Co-authored-by: sjdilkes <[email protected]> Co-authored-by: cqc-melf <[email protected]> Co-authored-by: CalMacCQ <[email protected]> * Convert tests to floats * Correct typing * Ignore sympy when typing --------- Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Silas Dilkes <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Seyon Sivarajah <[email protected]> Co-authored-by: sjdilkes <[email protected]> Co-authored-by: cqc-melf <[email protected]> Co-authored-by: CalMacCQ <[email protected]> --------- Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Silas Dilkes <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Seyon Sivarajah <[email protected]> Co-authored-by: sjdilkes <[email protected]> Co-authored-by: cqc-melf <[email protected]> Co-authored-by: CalMacCQ <[email protected]> Co-authored-by: Daniel Mills <[email protected]> Co-authored-by: Daniel Mills <[email protected]>
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