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[ENH] improve MEM performance#25

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Edouard2laire wants to merge 49 commits intomultifunkim:mastermultifunkim/best-brainstorm:masterfrom Edouard2laire:wMEM-nirs2Edouard2laire/best-brainstorm:wMEM-nirs2Copy head branch name to clipboard

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Commits on Oct 2, 2024

• improve MNE solver

  Edouard2laire

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  c153b37

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• use scale 3 for nirs noise covariance

  Edouard2laire

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• disable noise covariance in MNE for now

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• keep all the power for nirs

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• Par-for optimization (#8)

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• MNE kernel (#9)

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• small changes (#10)

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• don't transpose the inversion matrix

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• oups

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• Move the normalization outside be_launch_mem

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• Move the conversion to time-series outside be_launch_mem

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• minor changes

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  495be0b

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• clean up output

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• more clean-up on be_slice_obj

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• Merge pull request #11 from Edouard2laire/be_free_energy

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• save sigma_s under obj rather than option

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• pre-compute G * active_var

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• some cleaning

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• Even more optim

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• last changes

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• fix call to be_fusion_of_modalities

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Commits on Oct 7, 2024

• cleam up MNE code

  Edouard2laire

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• Save wMEM results as factor decomposition

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• fix format of obj.data

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Commits on Oct 8, 2024

• Merge pull request #15 from Edouard2laire/storage

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Commits on Oct 15, 2024

• [bugfix] Fix the covariance matrix along the cortical surface (#17)

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• update optimization function (#16)

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Commits on Oct 23, 2024

• Merge branch 'multifunkim:master' into wMEM-nirs2

  Edouard2laire

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Commits on Oct 28, 2024

• [refactor] call be_fusion_of_modality in MNE

  Edouard2laire

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• [be_fusion_of_modality] also create the normalized data/gain

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• Some refactor on MNE

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• continuation

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• remove progress bar

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• several bugfixes

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• put back quasi-netwon for now

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Commits on Oct 29, 2024

• Improve code performance (#18)

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Commits on Nov 1, 2024

• Add option to use noise covariance in MNE. (default to false)

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Commits on Nov 11, 2024

• Refactor memstruct (#19)

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Commits on Nov 27, 2024

• also reduce cMEM file size if only a part of the signal is localized

  Edouard2laire

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• Put back for loop (so much faster for nirs)

  Edouard2laire

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Commits on Dec 4, 2024

• Add datatype to pipeline options

  Edouard2laire

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• wavvelet_inverse_projection: use sparse matrix to avoid memory issue

  Edouard2laire

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  cdc84ee

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• remove extra message from be_slice_obj

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• bugfix when using inactive variance

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Commits on Dec 6, 2024

• Add be_pagemtimes for backward compatibility

  Edouard2laire

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• officially replace be_free_energy

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• Remove be_launch_mem2

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Commits on Dec 7, 2024

• Apply comments

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Commits on Jan 28, 2025

• FIx QR decomposition for matlab < 2022a

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