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[Feature] Synchrofact Detection #322

Merged
merged 65 commits into from Dec 4, 2020
Merged

[Feature] Synchrofact Detection #322

merged 65 commits into from Dec 4, 2020

Commits on May 11, 2020

  1. Add first version of synchrofact detection

    @Kleinjohann
    Kleinjohann committed May 11, 2020
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Commits on May 15, 2020

  1. Implement TODOs, adapt tests accordingly

    @Kleinjohann
    Kleinjohann committed May 15, 2020
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  2. Add tests for raised errors, cleanup

    @Kleinjohann
    Kleinjohann committed May 15, 2020
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  3. Change spread to spread - 1

    @Kleinjohann
    Kleinjohann committed May 15, 2020
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Commits on May 18, 2020

  1. remove unused imports

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  2. add check for list instance in input and rewrite a bit error messages

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  3. refactor docstring for synchrofact detection function. Reorder kwargs… 

    … to a more meaninful way and rename invert with invert_delete
    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  4. refactor docstring for complexity function, rename function to shorte… 

    …r name
    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  5. relocate line of code that came too early

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  6. remove TODO flags

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  7. add the module to the documentation

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  8. make helper function private

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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  9. refactor documentation for nice formatting after build

    @morales-gregorio
    morales-gregorio committed May 18, 2020
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Commits on May 20, 2020

  1. Refactor and cleanup

    @Kleinjohann
    Kleinjohann committed May 20, 2020
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  2. Add wrapper to calculate the complexity histogram

    @Kleinjohann
    Kleinjohann committed May 20, 2020
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  3. move check consistency of spiketrain list to utils

    @morales-gregorio
    morales-gregorio committed May 20, 2020
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Commits on May 21, 2020

  1. refactor docs

    @morales-gregorio
    morales-gregorio committed May 21, 2020
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  2. update checking of spiketrainlist in detect_synchrofacts

    @morales-gregorio
    morales-gregorio committed May 21, 2020
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  3. add test for utils spiketrainlist checking

    @morales-gregorio
    morales-gregorio committed May 21, 2020
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Commits on Jun 10, 2020

  1. create complexity class, that can replace complexity_pdf in statistics

    @morales-gregorio
    morales-gregorio committed Jun 10, 2020
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  2. Work in progress, Synchrotool class. Will have to be changed eventually.

    @morales-gregorio
    morales-gregorio committed Jun 10, 2020
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Commits on Jun 19, 2020

  1. Move complexity class to statistics 

    move documentation to more appropriate locations
add deprecation warning to complexity_pdf
start implementing time_histogram for spread > 0
and epoch for spread = 0
    @Kleinjohann
    Kleinjohann committed Jun 19, 2020
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Commits on Jun 24, 2020

  1. Test whether spiketrains is a list

    @Kleinjohann
    Kleinjohann committed Jun 24, 2020
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  2. Finish complexity class (minus docs)

    @Kleinjohann
    Kleinjohann committed Jun 24, 2020
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Commits on Jul 1, 2020

  1. create list of raised errors in util

    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  2. Update docstrings

    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  3. Fix time_histogram not being returned as list of int (by not multiply… 

    …ing directly with pq.dimensionless)
    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  4. enforce t_start and t_stop checks

    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  5. rename variables to avoid overwriting time_histogram function call

    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  6. include tolerance to binning in spread > 0 case

    @morales-gregorio
    morales-gregorio committed Jul 1, 2020
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  7. Apply bin shifting to epoch without spread

    @Kleinjohann
    Kleinjohann committed Jul 1, 2020
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  8. Implement synchrofact detection as child class 

    Adapt the tests to this class structure
    @Kleinjohann
    Kleinjohann committed Jul 1, 2020
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  9. Merge branch 'branchout_synchrofact' of github.com:INM-6/elephant int… 

    …o branchout_synchrofact
    @Kleinjohann
    Kleinjohann committed Jul 1, 2020
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  10. Fix overlooked occurrence of renamed variable

    @Kleinjohann
    Kleinjohann committed Jul 1, 2020
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Commits on Jul 4, 2020

  1. style changes to docstring

    @morales-gregorio
    morales-gregorio committed Jul 4, 2020
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  2. Merge branch 'branchout_synchrofact' of github.com:INM-6/elephant int… 

    …o branchout_synchrofact
    @morales-gregorio
    morales-gregorio committed Jul 4, 2020
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Commits on Jul 15, 2020

  1. Account for rounding errors in input check

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  2. Test for spread<=1 error raising

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  3. Test for no sampling rate warning

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  4. Test for num_bins rounding error

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  5. Cleanup

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  6. Cleanup

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  7. Remove prints

    @Kleinjohann
    Kleinjohann committed Jul 15, 2020
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  8. update docs, rename invert kwarg to mode

    @morales-gregorio
    morales-gregorio committed Jul 15, 2020
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Commits on Jul 20, 2020

  1. Account for renaming of invert_delete in tests

    @Kleinjohann
    Kleinjohann committed Jul 20, 2020
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  2. Only account for shift when it actually happens

    @Kleinjohann
    Kleinjohann committed Jul 20, 2020
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Commits on Aug 11, 2020

  1. Merge branch 'master' into synchrofact_detection

    @dizcza
    dizcza committed Aug 11, 2020
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  2. decorative refactoring

    @dizcza
    dizcza committed Aug 11, 2020
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Commits on Sep 30, 2020

  1. Merge branch 'master' into synchrofact_detection

    @dizcza
    dizcza committed Sep 30, 2020
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  2. python 2 issue; Capitalize class names; fixed TODOs

    @dizcza
    dizcza committed Sep 30, 2020
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Commits on Oct 5, 2020

  1. Merge branch 'master' into synchrofact_detection

    @dizcza
    dizcza committed Oct 5, 2020
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  2. merged spike_train_processing into spike_train_synchrony

    @dizcza
    dizcza committed Oct 5, 2020
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  3. converted a string to a comment

    @dizcza
    dizcza committed Oct 5, 2020
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Commits on Nov 11, 2020

  1. Faster algorithm for calculating complexity epochs

    @Kleinjohann
    Kleinjohann committed Nov 11, 2020
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Commits on Nov 13, 2020

  1. Merge branch 'master' into synchrofact_detection

    @dizcza
    dizcza committed Nov 13, 2020
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  2. check_neo_consistency test

    @dizcza
    dizcza committed Nov 13, 2020
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  3. updated _epoch_with_spread according to the recent changes in master

    @dizcza
    dizcza committed Nov 13, 2020
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  4. Merge branch 'master' into synchrofact_detection

    @dizcza
    dizcza committed Nov 13, 2020
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Commits on Nov 30, 2020

  1. optimized quantity calls

    @dizcza
    dizcza committed Nov 30, 2020
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  2. overwrite autosummary docs

    @dizcza
    dizcza committed Nov 30, 2020
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  3. round_binning_errors utility function

    @dizcza
    dizcza committed Nov 30, 2020
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Commits on Dec 3, 2020

  1. Support groups only, remove unit and channelindex

    @Kleinjohann
    Kleinjohann committed Dec 3, 2020
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  2. Fix issues in docstrings spotted by @kohlerca

    @Kleinjohann
    Kleinjohann committed Dec 3, 2020
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  3. pep8

    @Kleinjohann
    Kleinjohann committed Dec 3, 2020
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  4. simplified

    @dizcza
    dizcza committed Dec 3, 2020
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