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Change 'RemFragmentationIndex' to 'RemFragmentationInd' #36

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Change 'RemFragmentationIndex' to 'RemFragmentationInd' #36

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13b155d
Change 'RemFragmentationIndex' to 'RemFragmentationInd' to get around…
itismeghasyam Nov 14, 2024
28ae8af
Change params to match 2024-11-12 version
itismeghasyam Nov 23, 2024
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8 changes: 4 additions & 4 deletions config/config.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,7 @@ default:

staging:
ontologyFileID: syn52050046
parquetDirID: syn61250818
parquetDirID: syn64135308
concept_replacements: !expr c("mins" = "minutes",
"avghr" = "averageheartrate",
"spo2" = "spo2_",
Expand All @@ -15,7 +15,7 @@ staging:
concept_filter_col: CONCEPT_CD
synFolderID: syn52504335
s3bucket: recover-main-project
s3basekey: main/archive/2024-06-13/
s3basekey: main/archive/2024-11-12/
selectedVarsFileID: syn53503994
outputConceptsDir: ./temp-output-concepts
tempOutputConceptSynID: syn53822708
Expand All @@ -26,5 +26,5 @@ prod:

internal:
inherits: staging
parquetDirID: syn63135213
s3basekey: staging/2024-09-10
parquetDirID: syn64050498
s3basekey: staging/2024-11-12
6 changes: 3 additions & 3 deletions scripts/process-data/fitbitsleeplogs.R
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Expand Up @@ -275,11 +275,11 @@ rem_fragmentation_index <-
by = join_by("ParticipantIdentifier", "LogId")) %>%
filter(SleepLevelRem > 0) %>%
mutate(SleepLevelRem = as.numeric(SleepLevelRem),
remFragmentationIndex = remTransitions/(SleepLevelRem/60)) %>%
select(ParticipantIdentifier, LogId, remFragmentationIndex)
remFragmentationInd = remTransitions/(SleepLevelRem/60)) %>%
select(ParticipantIdentifier, LogId, remFragmentationInd)

# Merge the original df with the numawakenings, remOnsetLatency, and
# remFragmentationIndex dfs to create a united df
# remFragmentationInd dfs to create a united df
df_joined <-
left_join(x = df, y = numawakenings_logid_filtered, by = join_by("ParticipantIdentifier", "LogId")) %>%
left_join(y = rem_onset_latency, by = join_by("ParticipantIdentifier", "LogId")) %>%
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