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https://github.com/bspeice/betterwithdata_cleaning_4
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MEPS scraping example
Add a full example of how to scrape the MEPS site
This commit is contained in:
bspeice
parent
06653d8951
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@ -118,23 +118,142 @@
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"outputs": [
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"outputs": [
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{
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{
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"ename": "ERROR",
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"ename": "ERROR",
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"evalue": "Error in eval(expr, envir, enclos): object 'pufs' not found\n",
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"evalue": "Error in eval(expr, envir, enclos): object 'w' not found\n",
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"output_type": "error",
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"output_type": "error",
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"traceback": [
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"traceback": [
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"Error in eval(expr, envir, enclos): object 'pufs' not found\n"
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"Error in eval(expr, envir, enclos): object 'w' not found\n"
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]
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},
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{
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"name": "stderr",
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"output_type": "stream",
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"text": [
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"Loading required package: xml2\n",
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"\n",
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"Attaching package: 'XML'\n",
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"\n",
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"The following object is masked from 'package:rvest':\n",
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"\n",
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" xml\n",
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"\n",
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"Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'Warning message:\n",
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"In is.na(data): is.na() applied to non-(list or vector) of type 'NULL'"
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]
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},
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{
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"ename": "ERROR",
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"evalue": "Error in lookup.xport(file): file not in SAS transfer format\n",
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"output_type": "error",
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"traceback": [
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"Error in lookup.xport(file): file not in SAS transfer format\n"
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]
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]
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}
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}
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],
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],
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"source": [
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"source": [
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"# Example usage: Download data by PUF\n",
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"#\n",
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"# Emergency Visit PUF's\n",
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"# Emergency Visit PUF's\n",
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"# pufs <- c('HC-160E','HC-152E','HC-144E','HC-135E','HC-126E','HC-118E','HC-110E','HC-102E','HC-094E','HC-085E','HC-077E','HC-067E','HC-059E','HC-051E','HC-033E','HC-026E','HC-016E','HC-010E')\n",
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"# pufs <- c('HC-160E','HC-152E','HC-144E','HC-135E','HC-126E','HC-118E','HC-110E','HC-102E','HC-094E','HC-085E','HC-077E','HC-067E','HC-059E','HC-051E','HC-033E','HC-026E','HC-016E','HC-010E')\n",
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"\n",
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"\n",
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"# Outpatient Visits\n",
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"# Outpatient Visits\n",
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"# pufs <- c('HC-160F','HC-152F','HC-144F','HC-135F','HC-126F','HC-118F','HC-110F','HC-102F','HC-094F','HC-085F','HC-077F','HC-067F','HC-059F','HC-051F','HC-033F','HC-026F','HC-016F','HC-010F')\n",
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"# pufs <- c('HC-160F','HC-152F','HC-144F','HC-135F','HC-126F','HC-118F','HC-110F','HC-102F','HC-094F','HC-085F','HC-077F','HC-067F','HC-059F','HC-051F','HC-033F','HC-026F','HC-016F','HC-010F')\n",
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"\n",
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"\n",
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"puf_downloads = c()\n",
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"# puf_downloads = c()\n",
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"for (puf in pufs) {\n",
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"# for (puf in pufs) {\n",
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" download_puf(normalize_puf(puf))\n",
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"# download_puf(normalize_puf(puf))\n",
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"# }\n",
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"\n",
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"########\n",
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"\n",
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"# Example usage: Scrape the MEPS web page for all PUF ids\n",
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"# Feel free to modify the URL being used - Any of the links on [this page](http://meps.ahrq.gov/mepsweb/data_stats/download_data_files.jsp)\n",
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"# are fair game.\n",
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"\n",
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"#install.packages(\"rvest\")\n",
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"library(rvest)\n",
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"html <-\n",
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" read_html(\n",
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" \"http://meps.ahrq.gov/mepsweb/data_stats/download_data_files_results.jsp?cboDataYear=All&cboDataTypeY=2%2CHousehold+Event+File&buttonYearandDataType=Search&cboPufNumber=All&SearchTitle=Emergency+Room+Visits\"\n",
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" )\n",
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"\n",
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"library(XML)\n",
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"\n",
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"# to scrap all the file name from web and form html links\n",
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"doc <- htmlParse(html, asText = TRUE)\n",
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"plain.text <- xpathSApply(doc, \"//a\", xmlValue)\n",
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"data <- c()\n",
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"for (i in 1:length(plain.text))\n",
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"{\n",
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" if (substr(plain.text[i], 1,3) == \"HC-\")\n",
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" {\n",
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" data[i] <- tolower(plain.text[i])\n",
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" }\n",
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" originalData <- data[!is.na(data)]\n",
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" \n",
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"}\n",
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"\n",
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"mydata <- c()\n",
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"for (i in 1:length(originalData))\n",
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"{\n",
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" mydata[i] <- gsub(\"c-0\", \"\", originalData[i])\n",
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" mydata[i] <- gsub(\"c-\", \"\", mydata[i])\n",
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" \n",
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"}\n",
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"\n",
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"# to scrap all .ssp data file \n",
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"for (i in 1:length(mydata))\n",
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"{\n",
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" download_puf(mydata[i])\n",
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"}"
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"}"
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]
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]
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}
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}
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