{"id":1722,"date":"2012-10-22T14:50:30","date_gmt":"2012-10-22T19:50:30","guid":{"rendered":"http:\/\/rud.is\/b\/?p=1722"},"modified":"2017-04-02T22:51:15","modified_gmt":"2017-04-03T03:51:15","slug":"get-an-r-data-frame-from-a-mongodb-query","status":"publish","type":"post","link":"https:\/\/rud.is\/b\/2012\/10\/22\/get-an-r-data-frame-from-a-mongodb-query\/","title":{"rendered":"Get an R Data Frame from a MongoDB Query"},"content":{"rendered":"<p>There&#8217;s a <span class=\"removed_link\" title=\"http:\/\/cnub.ddns.net\/WikiDefault.aspx?Page=rmongodb&amp;AspxAutoDetectCookieSupport=1#FAQ\">good FAQ<\/span> on how to do the MongoDB query -> R data frame but I wanted to post a more complete example that included the database connection and query setup since I suspect there are folks new to Mongo who would appreciate the end-to-end view. The code is fully annotated with comments, and I&#8217;ll caveat that this was for pulling data from my solar radiation sensor (it provides some context for the query and values).<\/p>\n<pre lang=\"rsplus\">library(rmongodb)\r\nlibrary(chron) # NOTE: you don't need this for Mongo; it's for the sensor readings plot\r\n\r\n# connect to mongodb server on host and connect to db\r\nmongo = mongo.create(host=\"MONGODB_HOST\",db=\"DATABASE_NAME\")\r\n\r\nif (mongo.is.connected(mongo)) {\r\n  \r\n  # this sets up the query (there are other \"buffer.append\u2026\" functions\r\n  today = format(Sys.time(), \"%Y-%m-%d\")\r\n  buf = mongo.bson.buffer.create()\r\n  mongo.bson.buffer.append.string(buf,\"date\",today)\r\n  query = mongo.bson.from.buffer(buf)\r\n\r\n  # run the query and get total results & the starting db cursor  \r\n  todays.readings.count = mongo.count(mongo,\"solar.readings\",query)\r\n  todays.readings.cursor = mongo.find(mongo,\"solar.readings\",query)\r\n  \r\n  # setup some vectors to hold our results  \r\n  time = vector(\"character\",todays.readings.count)\r\n  lux = vector(\"numeric\",todays.readings.count)\r\n  full = vector(\"numeric\",todays.readings.count)\r\n  IR = vector(\"numeric\",todays.readings.count)\r\n  \r\n  i = 1\r\n\r\n  # iterate over the results with the cursor    \r\n  while (mongo.cursor.next(todays.readings.cursor)) {\r\n    \r\n    # get the values of the current record\r\n    cval = mongo.cursor.value(todays.readings.cursor)\r\n    \r\n    # split it out into our vectors    \r\n    time[i] = mongo.bson.value(cval,\"time\")\r\n    full[i] = mongo.bson.value(cval,\"Full\")\r\n    lux[i] = mongo.bson.value(cval,\"Lux\")\r\n    IR[i] = mongo.bson.value(cval,\"IR\")\r\n    \r\n    i = i + 1\r\n    \r\n  }\r\n  \r\n  # packages all our values up into a data frame  \r\n  df = as.data.frame(list(time=time,full=full,lux=lux,IR=IR))\r\n\r\n  # (for my wx data, I need 'time' as an actual time value)  \r\n  df$Time = times(df$time)\r\n  df$time = NULL\r\n\r\n  par(mfrow=c(3,1))\r\n  plot(df$full~df$Time,type=\"l\",col=\"blue\",lwd=\"1\",xlab=\"\",ylab=\"Full Spectrum\",main=paste(today,\" Solar Radiation Readings\"))\r\n  plot(df$lux~df$Time,type=\"l\",col=\"blue\",lwd=\"1\",xlab=\"\",ylab=\"Lux (calculated)\")\r\n  plot(df$IR~df$Time,type=\"l\",col=\"blue\",lwd=\"1\",xlab=\"Time\",ylab=\"IR\")\r\n  par(mfrow=c(1,1))\r\n  \r\n}<\/pre>\n","protected":false},"excerpt":{"rendered":"<p>There&#8217;s a good FAQ on how to do the MongoDB query -> R data frame but I wanted to post a more complete example that included the database connection and query setup since I suspect there are folks new to Mongo who would appreciate the end-to-end view. The code is fully annotated with comments, and [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":true,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"activitypub_content_warning":"","activitypub_content_visibility":"","activitypub_max_image_attachments":3,"activitypub_interaction_policy_quote":"anyone","activitypub_status":"","footnotes":""},"categories":[63,671,91],"tags":[],"class_list":["post-1722","post","type-post","status-publish","format-standard","hentry","category-development","category-mongodb-2","category-r"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.3 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Get an R Data Frame from a MongoDB Query - rud.is<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/rud.is\/b\/2012\/10\/22\/get-an-r-data-frame-from-a-mongodb-query\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Get an R Data Frame from a MongoDB Query - rud.is\" \/>\n<meta property=\"og:description\" content=\"There&#8217;s a good FAQ on how to do the MongoDB query -&gt; R data frame but I wanted to post a more complete example that included the database connection and query setup since I suspect there are folks new to Mongo who would appreciate the end-to-end view. 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