Merge branch 'master' of https://github.com/JulioV/moshi-aware
commit
eb1a307dc4
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@ -102,5 +102,4 @@ data/interim/*
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!/data/interim/.gitkeep
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data/processed/*
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!/data/processed/.gitkeep
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reports/
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10
Snakefile
10
Snakefile
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@ -13,6 +13,16 @@ rule all:
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day_segment = config["COM_SMS"]["DAY_SEGMENTS"],
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metric = config["COM_SMS"]["METRICS"]),
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expand("reports/figures/{pid}/{sensor}_heatmap_rows.html", pid=config["PIDS"], sensor=config["SENSORS"]),
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expand("data/processed/{pid}/com_call_{call_type}_{segment}_{metric}.csv",
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pid=config["PIDS"],
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call_type = config["COM_CALL"]["CALL_TYPE_MISSED"],
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segment = config["COM_CALL"]["DAY_SEGMENTS"],
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metric = config["COM_CALL"]["METRICS_MISSED"]),
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expand("data/processed/{pid}/com_call_{call_type}_{segment}_{metric}.csv",
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pid=config["PIDS"],
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call_type = config["COM_CALL"]["CALL_TYPE_TAKEN"],
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segment = config["COM_CALL"]["DAY_SEGMENTS"],
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metric = config["COM_CALL"]["METRICS_TAKEN"]),
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# --- Packrat Rules --- #
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## Taken from https://github.com/lachlandeer/snakemake-econ-r
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@ -23,3 +23,12 @@ COM_SMS:
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SMS_TYPES : [received, sent]
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DAY_SEGMENTS: *day_segments
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METRICS: [count, distinctcontacts]
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# Communication call features config
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# Separate configurations for missed and taken calls
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COM_CALL:
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CALL_TYPE_MISSED : [missed]
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CALL_TYPE_TAKEN : [incoming, outgoing]
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DAY_SEGMENTS: *day_segments
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METRICS_MISSED: [count, distinctcontacts]
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METRICS_TAKEN: [count, distinctcontacts, meanduration, sumduration, hubermduration, varqnduration, entropyduration]
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@ -13,6 +13,11 @@ Source: CRAN
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Version: 1.0.0
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Hash: 6abedd7919c4457604c0aa44529a6683
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Package: DEoptimR
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Source: CRAN
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Version: 1.0-8
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Hash: adc74e88e85eabe6c7d73db6a86fe6cf
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Package: R6
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Source: CRAN
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Version: 2.4.0
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@ -125,6 +130,11 @@ Version: 0.3.0
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Hash: 30b58109e4d7c6184a9c2e32f9ae38c6
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Requires: rlang
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Package: entropy
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Source: CRAN
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Version: 1.2.1
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Hash: ccff926ff232f7c19b4c84bab3d3d6d3
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Package: evaluate
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Source: CRAN
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Version: 0.14
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@ -362,6 +372,12 @@ Hash: 1f3014c40b12e8af0abf39fd78080237
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Requires: base64enc, evaluate, htmltools, jsonlite, knitr, mime,
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stringr, tinytex, xfun, yaml
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Package: robustbase
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Source: CRAN
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Version: 0.93-5
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Hash: 7b6672bf2b47c35d02a5b273393e49f5
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Requires: DEoptimR
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Package: rstudioapi
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Source: CRAN
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Version: 0.10
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@ -9,3 +9,15 @@ rule communication_sms_metrics:
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"data/processed/{pid}/com_sms_{sms_type}_{day_segment}_{metric}.csv"
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script:
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"../src/features/communication_sms_metrics.R"
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rule communication_call_metrics:
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input:
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"data/raw/{pid}/calls_with_datetime.csv"
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params:
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call_type = "{call_type}",
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day_segment = "{day_segment}",
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metric = "{metric}"
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output:
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"data/processed/{pid}/com_call_{call_type}_{day_segment}_{metric}.csv"
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script:
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"../src/features/communication_call_metrics.R"
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@ -0,0 +1,30 @@
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source("packrat/init.R")
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library(dplyr)
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library(entropy)
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library(robustbase)
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calls <- read.csv(snakemake@input[[1]])
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day_segment <- snakemake@params[["day_segment"]]
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metric <- snakemake@params[["metric"]]
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type <- snakemake@params[["call_type"]]
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output_file <- snakemake@output[[1]]
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metrics <- calls %>% filter(call_type == ifelse(type == "incoming", "1", ifelse(type == "outgoing", "2", "3")))
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if(day_segment == "daily"){
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metrics <- metrics %>% group_by(local_date)
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} else {
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metrics <- metrics %>% filter(day_segment == local_day_segment) %>% group_by(local_date)
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}
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metrics <- switch(metric,
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"count" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := n()),
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"distinctcontacts" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := n_distinct(trace)),
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"meanduration" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := mean(call_duration)),
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"sumduration" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := sum(call_duration)),
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"hubermduration" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := huberM(call_duration)$mu),
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"varqnduration" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := Qn(call_duration)),
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"entropyduration" = metrics %>% summarise(!!paste("com", "call", type, day_segment, metric, sep = "_") := entropy.MillerMadow(call_duration)))
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write.csv(na.omit(metrics), output_file, row.names = F)
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