2b52f686b3
Define daily segments.
2021-12-08 18:20:22 +01:00
f0d29d0d1a
Incorporate DB query for usernames into snakemake workflow.
2021-12-01 18:14:27 +01:00
da5ff0f36e
Correct small errors in settings.
2021-11-29 18:04:06 +01:00
39bd244511
[WIP] Prepare yaml files.
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These will be used to create participants files.
2021-11-24 19:11:19 +01:00
5bad3eb8b5
Data cleaning ( #166 )
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* 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
3d34036eae
Add firststeptime and laststeptime features to FITBIT_STEPS_INTRADAY RAPIDS provider ( #168 )
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* Add firststeptime and laststeptime features to FITBIT_STEPS_INTRADAY RAPIDS provider
* Update test config files
2021-11-18 18:35:27 -05:00
4829b155d5
Make config changes for minimal workflow.
2021-11-17 18:53:44 +01:00
7f4683e0fe
Feature/screen default maxlength ( #164 )
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Updated the default IGNORE_EPISODES_LONGER_THAN to be 6 hours for screen RAPIDS provider
2021-10-14 09:26:06 -04:00
a3fb718aea
Refactor PHONE_LOCATIONS DORYAB provider to compute features based on location episodes
2021-09-23 17:40:06 -04:00
a8a178486b
Refactor PHONE_CALLS RAPIDS provider to compute features based on call episodes or events
2021-09-15 10:28:37 -04:00
e1cfcd46e4
Update example workflow for app episode features
2021-07-01 18:08:33 -04:00
065a926a87
Change own to custom categories name
2021-07-01 16:20:16 -04:00
e74c745f86
Add own categories to app foreground features
2021-07-01 16:20:16 -04:00
4b8698a4c6
adding app_episode with the changes as mentioned in the comments
2021-06-10 14:17:56 -04:00
0d6f51be8b
Refactor location features from Doryab provider & add a new strategy to infer home location & fix bugs
2021-05-26 17:36:52 -04:00
edf71e055d
Add the EXCLUDE_SLEEP module for steps intraday features
2021-05-21 15:23:21 -04:00
5e451f99b0
Added phone keyboard features including docs/tests ( #134 )
2021-05-21 11:45:27 -04:00
809845143f
Test & fix bugs of sleep intraday features
2021-04-27 14:40:14 -04:00
66d9a9d640
Update params & docs of sleep features
2021-04-27 14:33:19 -04:00
1fa9481933
Rlease v1.1.0
2021-04-20 15:14:29 -04:00
9c56422529
Add calories intraday features
2021-04-20 12:00:38 -04:00
636b64c61a
Revert "Added more keyboard features."
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This reverts commit 94c72e3172
2021-04-05 11:25:00 -04:00
94c72e3172
Added more keyboard features.
2021-04-01 20:54:13 -04:00
e177aa6386
Update create participant files section
2021-03-25 11:39:31 -04:00
a5eb535126
Update visualizations docs & add time flag for heatmap of overall data yield
2021-03-23 21:40:55 -04:00
c7e834d654
Update default value for DBSCAN_EPS
2021-03-19 12:04:12 -04:00
4528ab3641
Replace SRC LANGUAGE and FOLDER with SCRIPT
2021-03-14 22:14:13 -04:00
42cee67664
Add aware_influxdb in beta
2021-03-14 13:33:43 -04:00
3ee8199574
Update docs
2021-03-14 11:42:29 -04:00
fae0c2ac05
Swap TABLE for CONTAINER
2021-03-12 18:14:49 -05:00
8e9a3bf4c5
Update location accuracy default
2021-03-12 17:18:08 -05:00
6e898beca5
Add aware_csv
2021-03-11 19:32:11 -05:00
1b8453bec4
Remove unused params from config.yaml
2021-03-11 14:57:34 -05:00
13174b0c2a
Fix a bug when fitbit data is empty
2021-03-11 14:51:16 -05:00
2ee45995f2
Update config docs and create participant files script
2021-03-11 14:40:33 -05:00
a79997e0ac
Add empatica_zip docs
2021-03-11 14:39:26 -05:00
d48194fc07
Add fitbitparsed_csv
2021-03-11 14:39:26 -05:00
b97b70e3a1
Add fitbitjson_csv
2021-03-11 14:39:26 -05:00
470f4276af
Add fitbitparsed_mysql
2021-03-11 14:39:26 -05:00
1b0ee4bbf0
Add sleep intraday to fitbitjson_mysql
2021-03-11 14:39:20 -05:00
a420f5ef92
Add sleep summary to fitbitjson_mysql
2021-03-11 14:37:22 -05:00
cf0afeb08d
Update docs & links in config.yaml
2021-03-11 14:37:22 -05:00
35968e2fd0
Migrate phone log sensor to new data stream
2021-03-11 14:37:22 -05:00
1063b4ca65
Add steps summary to fitbitjson_mysql
2021-03-11 14:35:34 -05:00
41711fcdb7
Rename download_data add support for py containers
2021-03-11 14:35:34 -05:00
f65e3c8b1a
Migrate empatica sensors to new data stream
2021-03-11 14:35:34 -05:00
fb054b539f
Add support for multiple time zones
2021-03-11 14:35:34 -05:00
dc11cb593d
Add support for smartphone sources and schemas.
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Initial support for accelerometer
Update docs for automatically create participants
Update docs for initial multiple time zones
2021-03-11 14:35:33 -05:00
aac87311e8
Update socialjetlag feature of sleep intraday: replace bedtime with midpoint sleep
2021-03-04 15:49:25 -05:00
d74196cab4
Add sleep intraday features with PRICE provider
2021-02-26 17:47:01 -05:00
2d5e966530
Update fitbit sleep intraday docs & config file
2021-02-26 17:47:01 -05:00
8377c12efb
Add sleep intraday features with RAPIDS provider
2021-02-26 17:47:01 -05:00
3d6caea6c4
Added the timeathome feature using infer_home_location.py as interim file.
2021-02-24 16:57:25 -05:00
5abca8bb0f
Missing config validations
2021-02-21 19:57:21 -05:00
327b015206
Add validation for config keys
2021-02-21 19:55:55 -05:00
9668dfac7a
Update docs to support Empatica
2021-02-21 17:32:41 -05:00
2e46f56111
Empatica zips must be placed in pid folder and small fixes
2021-02-21 17:32:41 -05:00
4469cfd6bb
add stats features for bvp, eda, ibi, temp
2021-02-21 17:32:41 -05:00
c6dc7e675a
Add stats features for empatica heartrate
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Turn off all empatica compute features
2021-02-21 17:32:41 -05:00
3bb0230bac
Add statistic features for empatica accelerometer
2021-02-21 17:32:41 -05:00
5f5f19866f
implement extract_empatica_data script
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add support for all data types
Fix name comparison of zipped files
2021-02-21 17:32:41 -05:00
4b9857562b
Add support for zip input files
2021-02-21 17:32:41 -05:00
8c726f5d4f
Start empatica support
2021-02-21 17:32:41 -05:00
47bd695249
Deprecate Doryab circadian movement feature until it is fixed
2021-02-03 09:46:29 -05:00
b67f990816
Add new `FITBIT_DATA_YIELD` `RAPIDS` provider
2021-02-02 18:30:21 -05:00
1685b5cba6
Change default value for CLUSTER_ON
2021-02-02 12:04:48 -05:00
9b248c449d
Fixing and adding MAXIMUM_ROW_DURATION.
2021-02-02 11:38:13 -05:00
e7fc8f44f2
Removing Sampling Frequency and fixing ROG, location entropy and normalized location entropy.
2021-02-02 11:38:08 -05:00
d0fe4d4c28
Add ALL_RESAMPLED flag and accuracy limit
2021-01-14 14:34:25 -05:00
585bf7bc5d
Add code so new feature providers can be added for the new four sensors
2021-01-14 14:31:40 -05:00
8fd1d9dc29
Add four new sensors without providers
2021-01-14 14:31:40 -05:00
38fadbf202
Feature/doryab location clustering ( #111 )
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* Added OPTICS - lightweight clustering algorithm.
* Changed the error message for inconsistent parameters in CONFIG
* Removing hardcoded values and changing default EPS value in the clustering algorithm.
* Added Observation in Doryab Feature docs.
Co-authored-by: nikunjgoel95 <nikunjgoel2009@gmail.com>
2021-01-14 14:22:51 -05:00
b7ba3c6407
Feature/location doryab fix ( #109 )
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* Fixing the doryab location features for context of clustering.
* Fixed the wrong shifting while calculating the distance.
* Refractoring the haversine function
* Removed comments.
* Cleaning parts of the code.
* Updated the documentation for CLUSTER_ON parameter.
Co-authored-by: nikunjgoel95 <nikunjgoel2009@gmail.com>
2021-01-07 16:20:46 -05:00
51c7739bfc
Revert "Start support for phone_keyboard"
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This reverts commit dd95b4f941
2020-12-20 16:29:40 -05:00
d39b700b5f
Update git flow docs, set keyboard flag to false
2020-12-20 13:55:41 -05:00
dd95b4f941
Start support for phone_keyboard
2020-12-14 13:42:22 -05:00
5bd1bfe856
Add new bluetooth doryab features and deprecate rapids provider
2020-12-12 17:01:46 -05:00
266dd28d02
Add bluetooth doryab features
2020-12-11 12:03:22 -05:00
083e10dc38
Comment fixes in config.yaml
2020-12-04 16:49:29 -05:00
9a0e57301b
Update 4 plots for time_segments
2020-12-03 21:00:32 -05:00
614e759551
Refactor day segments to time segments
2020-12-02 18:41:03 -05:00
0bd43c139c
Update plot#1: histogram_phone_data_yield
2020-12-01 14:21:33 -05:00
5f51c94ac6
Separate device data configuration and update docs
2020-11-25 19:42:11 -05:00
ced3305ddb
Update R feature scripts to add sensor and provider names automatically
2020-11-25 14:49:42 -05:00
f02ca2624d
Add phone yield sensor
2020-11-24 19:12:16 -05:00
deba6b9e4f
Update sleep summary features for segments
2020-11-23 12:01:00 -05:00
a71efd6b85
Split FITBIT_STEPS into FITBIT_STEPS_SUMMARY and FITBIT_STEPS_INTRADAY
2020-11-11 21:16:48 -05:00
9fc36f67e2
Split FITBIT_HEARTRATE into FITBIT_HEARTRATE_SUMMARY and FITBIT_HEARTRATE_INTRADAY
2020-11-11 17:27:46 -05:00
432f11fbcb
Add bluetooth, calls, sms and wifi docs
2020-11-04 19:37:24 -05:00
2aa44fc504
Change SENSOR_DATA to DEVICE_DATA
2020-11-04 17:16:46 -05:00
1ea2730afd
Update minimal workflow example docs
2020-11-04 13:27:58 -05:00
39632c66f5
Update steps features for segments
2020-10-30 18:57:04 -04:00
7f7eac0769
Merge branch 'ds2' into day_segments
2020-10-28 17:53:00 -04:00
c5197b6c5f
Merge branch 'master' into ds2
2020-10-28 17:50:37 -04:00
93055dacee
Update HR main.py
2020-10-28 17:02:21 -04:00
f36a7052b3
Add config update file to create participants file
2020-10-28 14:11:41 -04:00
8f74d3f3b7
Minor updates to config and Snakefile
2020-10-28 14:03:02 -04:00
ed7585c2bf
Update heartrate features for segments
2020-10-27 17:55:57 -04:00
d5931c75d8
Refactor script to create participants files
2020-10-27 17:13:16 -04:00
b986599226
Add support to read fitbit data from csv files
2020-10-26 17:17:53 -04:00
f1ddfae04f
Fix missing params battery and AR
2020-10-26 15:51:22 -04:00
47adb8bc4b
Add tz support to fitbit
2020-10-22 14:38:40 -04:00
cff83a7ceb
Implement parse fitbit data
2020-10-22 13:08:52 -04:00
c266f6dd10
Update participant files structure and fitbit download rule
2020-10-20 19:12:01 -04:00
24bf62a7ab
Update file names
2020-10-19 15:07:12 -04:00
ac9cf92732
Add accelerometer features of PANDA provider
2020-10-13 17:54:53 -04:00
29dcd1f284
Add accelerometer features of RAPIDS provider
2020-10-13 11:42:36 -04:00
236b1cd809
Update AR module for segments; Refactor input format
2020-10-07 18:11:06 -04:00
f1717e59e7
Update screen&battery episodes features with different segment format
2020-09-29 17:13:34 -04:00
f806cb44ac
Fix the bug of screen duration features for different segments
2020-09-18 20:25:29 -04:00
4dc8d38c66
Optimise assign to day segment
2020-09-16 14:54:20 -04:00
3c45f6b152
Refactor assign to day segment
2020-09-14 14:21:36 -04:00
441cdf69c3
Fix Travis attempt 4
2020-09-03 14:36:42 -04:00
67d11e449f
Fix Travis attempt 3
2020-09-03 14:18:01 -04:00
4be8accc45
Attempt to fix Travis 2
2020-09-03 13:44:07 -04:00
0613bcb4b8
Attempt to fix Travis 1
2020-09-03 13:19:44 -04:00
5d3e6efc41
New Bluetooth Testing
2020-09-03 12:04:29 -04:00
98ebf9bd13
Migrate conversation to new file structure
2020-09-01 17:07:07 -04:00
8d87f6e497
Migrate app foreground to new file structure
2020-09-01 15:25:35 -04:00
e643881058
Migrate light to new file structure
2020-09-01 12:01:24 -04:00
eda58d9d2c
Migrate wifi to new file structure
2020-08-31 18:51:06 -04:00
77d9d8f025
Migrate bluetooth to new file structure
2020-08-31 17:08:26 -04:00
132311da77
Migrate messages to new file structure
2020-08-31 13:34:15 -04:00
e269062439
Migrate calls to new provider file structure
2020-08-28 17:50:49 -04:00
b0f1477d7e
Migrate location providers to new file structure and segments
2020-08-28 13:53:00 -04:00
31ec5b0da4
Finalise new day segment structure with calls as example
2020-08-26 12:09:53 -04:00
6a5470e338
Splitting Energy Feature in Conversation to Voice and Noise.
2020-08-23 13:20:19 -04:00
026d056378
Simplify window workflow
2020-08-20 14:51:22 -04:00
a0b5b5982b
Setup rules and files to support multiple
2020-08-20 14:45:09 -04:00
7a4218a3ce
Delete analysis section of config.yaml
2020-08-13 17:12:05 -04:00
3f48a47a14
Fix optional input files for phone sensed bins
2020-08-11 18:02:52 -04:00
df7a52cd6c
Added Sampling Frequency to Doryab Location Features.
2020-08-05 13:02:34 -04:00
c2b25a146d
Replace sensor name with table name in heatmap_days_by_sensors section
2020-08-03 15:19:45 -04:00
e13b89b125
Add restore_sql_file rule; notsummarised module; diff platforms for heatmap_days_by_sensors
2020-08-03 13:09:16 -04:00
93157db210
Data cleaning section: replace "day_type" with "day_idx"
2020-07-27 18:27:36 -04:00
af6678c70c
Update visualization section: add MIN_VALID_BINS_PER_HOUR
2020-07-26 20:11:25 -04:00
388f09a003
Add missing wifi table
2020-07-24 16:35:41 -04:00
b3aa4d82e1
Overall compliance heatmap: shows all dates for all participants (only supports last certain dates previously)
2020-07-24 12:58:48 -04:00
5f771618ae
Add screen episode filter parameters
2020-07-23 14:38:59 -04:00
faad8f5a8f
Added minutes of data in a day/epoch.
2020-07-23 14:23:32 -04:00
b0354393ae
Add "corr_method" param to heatmap_features_correlations.py
2020-07-22 20:00:14 -04:00
c135b6ef78
Add visualization for data exploration
2020-07-22 16:47:32 -04:00
124843f96e
Make phone_valid_sensed_days rule works for different min_valid_hours_per_day thresholds
2020-07-21 20:41:24 -04:00
0ada1292ed
Added maximum_gap_allowed parameter
2020-07-21 18:56:43 -04:00
e37b07098f
Fix defaults for Doryab's location features
2020-07-20 16:03:51 -04:00
c8d8906359
Attempt to fix travis 1.2
2020-07-20 10:32:04 -04:00
9deb6eae5f
Attempt to fix travis
2020-07-20 10:20:20 -04:00
024ae1a549
Added Doryab's location features to rapids.
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Co-authored-by: JulioV <juliovhz@gmail.com>
2020-07-16 14:26:43 -04:00
d2704296f3
Refactor valid sensed bins and days
2020-07-09 13:01:50 -04:00
b381672cae
Update config.yaml
2020-06-29 13:50:33 -04:00
junos
Meng Li
JulioV
kirtirajk
Nikunj Goel
Weiyu
Joe Kim
Juseong Kim
kaguillera