From e60776a499ab93b6e2be70eb0e43338469f1c241 Mon Sep 17 00:00:00 2001
From: noerw <noerw@gmx.de>
Date: Sun, 13 Aug 2017 16:11:02 +0200
Subject: [PATCH] add monitor docker container

---
 tools/monitor/Dockerfile      | 28 ++++++++++++++++++++++++++++
 tools/monitor/README.md       | 25 +++++++++++++++++++++++++
 tools/monitor/analyze.R       |  6 ++++++
 tools/monitor/crontab         |  1 +
 tools/monitor/docker-entry.sh |  5 +++++
 tools/monitor/osem-monitor.R  | 12 ++++++++++++
 6 files changed, 77 insertions(+)
 create mode 100644 tools/monitor/Dockerfile
 create mode 100644 tools/monitor/README.md
 create mode 100644 tools/monitor/analyze.R
 create mode 100644 tools/monitor/crontab
 create mode 100644 tools/monitor/docker-entry.sh
 create mode 100644 tools/monitor/osem-monitor.R

diff --git a/tools/monitor/Dockerfile b/tools/monitor/Dockerfile
new file mode 100644
index 0000000..11b0610
--- /dev/null
+++ b/tools/monitor/Dockerfile
@@ -0,0 +1,28 @@
+FROM r-base
+
+RUN apt-get update && \
+    apt-get install -y libssl-dev libcurl3-dev cron
+
+# install dependencies
+RUN Rscript -e 'install.packages("httr")'
+RUN Rscript -e 'install.packages("dplyr")'
+RUN Rscript -e 'install.packages("magrittr")'
+#RUN Rscript -e 'install.packages("readr")'
+
+# install opensensemap package
+RUN Rscript -e 'install.packages("devtools")'
+RUN Rscript -e 'devtools::install_github("noerw/opensensmapR")'
+
+COPY docker-entry.sh /docker-entry.sh
+RUN chmod 0755 /docker-entry.sh
+
+# install crontab
+COPY crontab /crontab
+RUN /usr/bin/crontab /crontab
+
+
+# install script
+COPY osem-monitor.R /script/osem-monitor.R
+WORKDIR /script/data
+
+CMD ["/docker-entry.sh"]
diff --git a/tools/monitor/README.md b/tools/monitor/README.md
new file mode 100644
index 0000000..f8f3303
--- /dev/null
+++ b/tools/monitor/README.md
@@ -0,0 +1,25 @@
+# osem-monitor
+
+Get the state of sensors and measurement counts for later analysis every 10 minutes.
+The dataframe will reside in `./data/.RData`.
+
+Further analysis can be done with the script `analyze.R`.
+
+## docker image
+```bash
+# build 
+docker build --tag osem-monitor .
+
+# run
+docker run -v $(pwd)/data:/script/data osem-monitor
+```
+
+## run manually
+
+```bash
+# install dependencies once
+Rscript -e 'install.packages(c("dplyr", "magrittr", "devtools"))'
+Rscript -e 'devtools::install_github("noerw/opensensmapR")'
+
+Rscript --save --restore osem-monitor.R
+```
diff --git a/tools/monitor/analyze.R b/tools/monitor/analyze.R
new file mode 100644
index 0000000..2f1d65f
--- /dev/null
+++ b/tools/monitor/analyze.R
@@ -0,0 +1,6 @@
+# create a working copy, so we cant accidentally loose all data
+ts = osem_counts_ts
+
+# compute our own measurements per minute, to check against the provided computation
+ts$measurement_diff = c(diff(ts$measurements), 0)
+ts$measurement_minute = ts$measurement_diff / c(as.numeric(diff(ts$time), unit = 'mins'), 0)
diff --git a/tools/monitor/crontab b/tools/monitor/crontab
new file mode 100644
index 0000000..dd7ed62
--- /dev/null
+++ b/tools/monitor/crontab
@@ -0,0 +1 @@
+*/10 * * * * cd /script/data && /usr/bin/Rscript --save --restore ../osem-monitor.R > rscript.log
diff --git a/tools/monitor/docker-entry.sh b/tools/monitor/docker-entry.sh
new file mode 100644
index 0000000..c11598a
--- /dev/null
+++ b/tools/monitor/docker-entry.sh
@@ -0,0 +1,5 @@
+#!/bin/sh
+
+# start cron
+cron -f -l 0
+
diff --git a/tools/monitor/osem-monitor.R b/tools/monitor/osem-monitor.R
new file mode 100644
index 0000000..513d6b8
--- /dev/null
+++ b/tools/monitor/osem-monitor.R
@@ -0,0 +1,12 @@
+library(dplyr)
+library(magrittr)
+library(opensensemap)
+
+if (is.null(as.list(environment())$osem_counts_ts))
+  osem_counts_ts = data.frame()
+
+osem_counts_ts = osem_counts() %>%
+  list(time = Sys.time()) %>%
+  as.data.frame() %>%
+  dplyr::bind_rows(osem_counts_ts)
+