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49 Commits (001d40072973797f159b94b48ac3add10138f58e)

Author SHA1 Message Date
Primoz 001d400729 Clean features and create input files based on all possible targets. 2022-10-06 14:28:12 +00:00
Primoz 6ba4a66deb Squashed commit of the following: 
commit 31a47a5ee4569264e39d7c445525a6e64bb7700a
Author: Primoz <sisko.primoz@gmail.com>
Date:   Wed Jul 20 13:49:22 2022 +0000

    Environment version change.

commit 5b274ed8993f58e783bda6d82fce936764209c28
Author: Primoz <sisko.primoz@gmail.com>
Date:   Tue Jul 19 16:10:07 2022 +0000

    Enabled cleaning for all participants + standardization files.

commit 203fdb31e0f3c647ef8c8a60cb9531831b7ab924
Author: Primoz <sisko.primoz@gmail.com>
Date:   Tue Jul 19 14:14:51 2022 +0000

    Features cleaning fixes after testing. Visualization script for phone features values.

commit 176178d73b154c30b9eb9eb4a67514f00d6a924e
Author: Primoz <sisko.primoz@gmail.com>
Date:   Tue Jul 19 09:05:14 2022 +0000

    Revert "Necessary config changes."

    This reverts commit 6ec1ef50430d2e1f5ce4670d505d5e84ac47f0a0.

commit 26ea6512c9d512f95837e7b047fe510c1d196403
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 18 13:19:47 2022 +0000

    Adding cleaning function condition and cleaning functionality.

commit 575c29eef9c21e6f2d7832871e73bc0941643734
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 18 12:51:56 2022 +0000

    Translation of the cleaning individual RAPIDS function from R to py.

commit 6ec1ef50430d2e1f5ce4670d505d5e84ac47f0a0
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 18 12:02:18 2022 +0000

    Necessary config changes.

commit b5669f51612fbd8378848615d639677851ab032f
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 15 15:26:00 2022 +0000

    Modified snakemake rule to dynamically choose script extention.

commit 66636be1e8ae4828228b37c59b9df1faf3fc3d3d
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 15 14:43:08 2022 +0000

    Trying to modify the snakefile rule to execute scripts in two languages depended on the provider.

commit 574778b00f3cbb368ef4bc74de15cf5070c65ea9
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 15 09:49:41 2022 +0000

    gitignore: adding required files so that RAPIDS can be run successfully.

commit 71018ab178256970535e78961602ab8c7f0ebb14
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 15 08:34:19 2022 +0000

    Standardization bug fixes

commit 6253c470a624e6bfbb02e0c453b652452eb2dbbc
Author: Primoz <sisko.primoz@gmail.com>
Date:   Thu Jul 14 15:28:02 2022 +0000

    Seperate rules for empatica vs. nonempatica standardization.
    Parameter in config that controls the creation of standardized merged files for individual and all participants..

commit 90f902778565e0896d3bae22ae8551be8b487e67
Author: Primoz <sisko.primoz@gmail.com>
Date:   Tue Jul 12 14:23:03 2022 +0000

    Preparing for final csvs' standardization.

commit d25dde3998786a9a582f5cda544ee104386778f9
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 11 12:08:47 2022 +0000

    Revert "Changes in config to be reverted."

    This reverts commit bea7608e7095021fb7c53a9afa07074448fe4313.

commit 6b23e70857e63deda98eb98d190af9090626c84b
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 11 12:08:26 2022 +0000

    Enabled standardization for rest (previously active)  phone features.
    Testing still needed.

commit 8ec58a6f34ba3d42e5cc71d26e6d91837472ca5f
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 11 09:07:55 2022 +0000

    Enabled standardization for phone calls.
    All steps completed and tested.

commit bea7608e7095021fb7c53a9afa07074448fe4313
Author: Primoz <sisko.primoz@gmail.com>
Date:   Mon Jul 11 07:47:51 2022 +0000

    Changes in config to be reverted.

commit 4e84ca0e51bf709bff56fd09437b95310ec6bedd
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 8 14:11:24 2022 +0000

    Standardization for the rest of the features.

commit cc581aa788e3d5c17131af8f3d5dd6b0c3b5aff7
Author: Primoz <sisko.primoz@gmail.com>
Date:   Fri Jul 8 14:11:08 2022 +0000

    README update again
 2022-07-20 13:51:22 +00:00
Primoz 5532043b1f Patching IBI with BVP - completed. 2022-05-25 19:39:47 +00:00
Primoz 2a8f58f5c8 Patching IBI with BVP. WIP 2022-05-20 13:18:45 +00:00
Primoz 9cf9e1fe14 Testing and modifying the code with different E4 data. 2022-05-10 11:36:49 +00:00
Primoz 5638367999 Implementation of the second order features. 2022-04-25 13:07:03 +00:00
= 3c058e4463 Add option to calculate features within windows and store it in CSV (all sensors). 2022-04-13 13:18:23 +00:00
Meng Li 5bad3eb8b5
Data cleaning (#166) 
* Refactor data cleaning module: move it from example workflow to main directory

* Replace NAs with 0 in selected event-based features

* Add one step to drop highly correlated features

Co-authored-by: Weiyu <weiyuhuang7@gmail.com>
 2021-11-19 10:34:36 -05:00
Meng Li a3fb718aea Refactor PHONE_LOCATIONS DORYAB provider to compute features based on location episodes 2021-09-23 17:40:06 -04:00
Meng Li a8a178486b Refactor PHONE_CALLS RAPIDS provider to compute features based on call episodes or events 2021-09-15 10:28:37 -04:00
Meng Li 1c57320ab3 Update segment labels and fix the bug when we do not have any labels for event segments 2021-06-29 09:49:24 -04:00
JulioV e9cd9c94d7 Fix PID matching when joining data from participants 2021-05-11 16:49:04 -04:00
Meng Li 809845143f Test & fix bugs of sleep intraday features 2021-04-27 14:40:14 -04:00
JulioV 9c56422529 Add calories intraday features 2021-04-20 12:00:38 -04:00
Meng Li 8414977331 Fix the bug of utils.py when one participant have multi timezones 2021-04-03 21:20:10 -04:00
Meng Li 1ea5b74eff Fix the bug of utils.py when one participant have multi timezones 2021-03-31 19:34:14 -04:00
JulioV d0858f8833 Fix overlapping periodic time segments 2021-03-28 15:29:07 -04:00
JulioV 4528ab3641 Replace SRC LANGUAGE and FOLDER with SCRIPT 2021-03-14 22:14:13 -04:00
JulioV fb054b539f Add support for multiple time zones 2021-03-11 14:35:34 -05:00
Meng Li 8377c12efb Add sleep intraday features with RAPIDS provider 2021-02-26 17:47:01 -05:00
Meng Li 25a3492eba Drop rows without "assigned_segments" column before feature extraction 2021-01-21 19:41:17 -05:00
Meng Li 797de54b34 Fix merge bug of fetch_provider_features() function 2021-01-21 14:58:31 -05:00
JulioV 05627296f4 Fix filter_data_by_segment bug 2020-12-12 17:10:59 -05:00
JulioV 614e759551 Refactor day segments to time segments 2020-12-02 18:41:03 -05:00
Meng Li 016bdbfe8c Update Python feature scripts to add sensor and provider names automatically 2020-11-30 14:42:19 -05:00
Meng Li b4a512faf3 Add analysis example workflow 2020-11-25 16:34:05 -05:00
JulioV ced3305ddb Update R feature scripts to add sensor and provider names automatically 2020-11-25 14:49:42 -05:00
Meng Li d3241c79f1 Update filter_data_by_segment() function: call chunk_episodes() inside the filter function 2020-11-19 17:27:53 -05:00
Meng Li 25e1f1fbb5 Update Python chunk_episodes 2020-10-26 18:47:57 -04:00
JulioV 2fe5a0d822 Update R chunk_episodes 2020-10-26 15:10:32 -04:00
JulioV c78ccfced7 Remove microseconds from chuncked date times 2020-10-26 15:03:31 -04:00
Meng Li 2b7bd0ae6e Modify output format of chunk_episodes() function 2020-10-26 13:00:53 -04:00
JulioV 86509207ac Turn off warnings for tidyverse and dplyr 2020-10-23 10:41:00 -04:00
Meng Li 8c0f6a000d Fix chunk_episodes() bugs: set segment_start_timestamp as int 2020-10-19 19:36:26 -04:00
JulioV 24bf62a7ab Update file names 2020-10-19 15:07:12 -04:00
JulioV 3996e0ab17 Fix bug when episodes are empty 2020-10-09 17:00:20 -04:00
Meng Li 236b1cd809 Update AR module for segments; Refactor input format 2020-10-07 18:11:06 -04:00
Meng Li bccc9a0697 Move deduplicate_episodes() function into chunk_episodes() function; rename "time_diff" with duration 2020-09-29 18:05:25 -04:00
JulioV 10b0386c8f Merge branch 'day_segments' of https://github.com/carissalow/rapids into day_segments 2020-09-29 17:24:41 -04:00
Meng Li f1717e59e7 Update screen&battery episodes features with different segment format 2020-09-29 17:13:34 -04:00
JulioV 499b92e240 Fix missing R library 2020-09-29 15:35:44 -04:00
JulioV 0dafdd1340 Redo resample episodes in R, new battery episodes 2020-09-29 15:18:48 -04:00
JulioV a6b99259f7 Fix bug when filtering by day segment and there are no rows belonging to that segment 2020-09-28 15:53:38 -04:00
JulioV 9e15f46fc3 Update day segment format 2020-09-28 11:38:47 -04:00
Meng Li f806cb44ac Fix the bug of screen duration features for different segments 2020-09-18 20:25:29 -04:00
JulioV 681a77f23c Clean utils.py 2020-09-01 12:02:31 -04:00
JulioV eda58d9d2c Migrate wifi to new file structure 2020-08-31 18:51:06 -04:00
JulioV 011b9736d5 Refactor the function to fetch provider features 2020-08-28 17:40:23 -04:00
JulioV b0f1477d7e Migrate location providers to new file structure and segments 2020-08-28 13:53:00 -04:00