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Update minimal example and fix create participants bug

pull/103/head
JulioV 2020-11-17 17:27:48 -05:00
parent d1296213dc
commit 895b70719e
2 changed files with 13 additions and 3 deletions
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14
docs/workflow-examples/minimal.md
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@ -4,14 +4,22 @@ Minimal Working Example
This is a quick guide for creating and running a simple pipeline to extract missing, outgoing, and incoming call features for `daily` and `night` epochs of one participant monitored on the US East coast. This is a quick guide for creating and running a simple pipeline to extract missing, outgoing, and incoming call features for `daily` and `night` epochs of one participant monitored on the US East coast.
1. Install RAPIDS and make sure your `conda` environment is active (see [Installation](../../setup/installation)) 1. Install RAPIDS and make sure your `conda` environment is active (see [Installation](../../setup/installation))
2. For the [Initial Configuration](../../setup/configuration) steps do the following and use the example as a guide: 2. Make the changes listed below for the corresponding [Initial Configuration](../../setup/configuration) step (we provide an example of what the relevant sections in your `config.yml` will look like after you are done)
!!! info "Things to change on each configuration step" !!! info "Things to change on each configuration step"
1\. Setup your database connection credentials in `.env`. We assume your credentials group is called `MY_GROUP`. 1\. Setup your database connection credentials in `.env`. We assume your credentials group is called `MY_GROUP`.
2\. `America/New_York` should be the default timezone 2\. `America/New_York` should be the default timezone
3\. Create a participant file `p01.yaml` based on one of your participants and add `p01` to `[PIDS]` in `config.yaml` 3\. Create a participant file `p01.yaml` based on one of your participants and add `p01` to `[PIDS]` in `config.yaml`. The following would be the content of your `p01.yaml` participant file:
```yaml
PHONE:
DEVICE_IDS: [aaaaaaaa-1111-bbbb-2222-cccccccccccc] # your participant's AWARE device id
PLATFORMS: [android] # or ios
LABEL: MyTestP01 # any string
START_DATE: 2020-01-01 # this can also be empty
END_DATE: 2021-01-01 # this can also be empty
```
4\. `[DAY_SEGMENTS][TYPE]` should be the default `PERIODIC`. Change `[DAY_SEGMENTS][FILE]` with the path of a file containing the following lines: 4\. `[DAY_SEGMENTS][TYPE]` should be the default `PERIODIC`. Change `[DAY_SEGMENTS][FILE]` with the path of a file containing the following lines:
```csv ```csv
@ -57,7 +65,7 @@ This is a quick guide for creating and running a simple pipeline to extract miss
############## PHONE ########################################################### ############## PHONE ###########################################################
################################################################################ ################################################################################
.... # ... other irrelevant sections
# Communication call features config, TYPES and FEATURES keys need to match # Communication call features config, TYPES and FEATURES keys need to match
PHONE_CALLS: PHONE_CALLS:

2
src/data/create_participants_files.R
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@ -47,6 +47,8 @@ if(config$SOURCE$TYPE == "AWARE_DEVICE_TABLE"){
!!fitbit_device_id_column := if_else(!!rlang::sym(fitbit_device_id_column) %in% fitbit_ignored, NA_character_, !!rlang::sym(fitbit_device_id_column))) !!fitbit_device_id_column := if_else(!!rlang::sym(fitbit_device_id_column) %in% fitbit_ignored, NA_character_, !!rlang::sym(fitbit_device_id_column)))
} }
dir.create(file.path("./data/external/participant_files/"))
participants %>% participants %>%
pwalk(function(add_phone_section, add_fitbit_section, phone_device_id_column, fitbit_device_id_column, ...) { pwalk(function(add_phone_section, add_fitbit_section, phone_device_id_column, fitbit_device_id_column, ...) {
empty_phone <- c("PHONE:", " DEVICE_IDS:", " PLATFORMS:"," LABEL:", " START_DATE:", " END_DATE:") empty_phone <- c("PHONE:", " DEVICE_IDS:", " PLATFORMS:"," LABEL:", " START_DATE:", " END_DATE:")