Converted to knitr vignette.

DESCRIPTION

@@ -63,6 +63,8 @@ Imports:
     RCurl
 Suggests:
     xtable,
-    EGRET
+    EGRET,
+    knitr
 LazyLoad: yes
 LazyData: yes
+VignetteBuilder: knitr

vignettes/dataRetrieval-concordance.tex

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-3 7 0 1 3 4 0 1 2 2 1 1 8 7 0 1 4 1 0 1 2 21 0 1 2 7 1 1 3 2 0 2 1 7 0 %
-1 2 1 1 1 2 7 0 1 2 9 1 1 4 2 0 2 1 1 2 3 0 1 2 4 1 1 3 1 0 3 1 1 3 5 0 %
-1 3 4 1 1 2 1 0 1 4 3 0 1 1 1 4 3 0 3 1 3 0 1 2 3 1 1 -5 1 9 14 1 1 3 1 %
-0 1 1 1 2 1 0 1 3 5 0 2 2 10 0 1 2 3 1 1 2 1 0 1 4 3 0 1 1 4 0 1 3 3 1 %
-1 -6 1 10 12 1 1 4 2 0 2 1 1 3 1 0 1 3 1 0 1 1 7 0 1 2 1 1 1 6 5 0 1 1 %
-3 0 1 2 2 1 1 -4 1 8 11 1 1 3 2 0 1 1 12 0 1 2 8 1 1 3 2 0 5 1 3 0 1 2 %
-13 1 1 2 1 0 1 1 3 0 1 2 8 1 1 2 1 0 2 1 1 3 5 0 1 2 2 1 1 11 18 0 1 2 %
-9 1 1 3 5 0 1 2 2 1 1 12 24 0 1 2 11 1 1 14 12 0 1 2 9 1 1 2 17 0 1 3 %
-28 1 1 2 1 0 2 1 3 0 1 2 16 1 1 2 1 0 2 1 3 0 1 2 7 1 1 2 1 0 3 1 1 2 2 %
-1 11 0 1 1 19 0 1 2 6 1 1 3 2 0 1 1 3 0 1 2 3 1 1 -5 1 9 21 1 1 2 4 0 1 %
-2 1 1 1 2 13 0 1 2 6 1 1 2 1 0 1 1 3 0 1 2 3 1 1 2 4 0 1 2 7 1 1 2 1 0 %
-1 1 3 0 1 2 1 1 1 2 4 0 1 2 10 1 1 5 47 0 1 2 9 1 1 6 45 0 1 2 2 1 1 6 %
-27 0 1 2 8 1 1 2 1 0 4 1 1 9 10 0 1 2 3 1 1 3 5 0 1 2 53 1}
+1 49 1 55 0 1 6 11 1 1 5 41 1 10 0 16 1 9 0 21 1 5 0 %
+6 1 8 0 14 1 14 0 24 1 11 0 17 1 20 0 15 1 10 0 5 1 8 %
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+0 7 1 5 0 16 1 51 0 15 1 49 0 7 1 32 0 26 1 25 0 8 1 %
+5 0 56 1}

vignettes/dataRetrieval.toc

@@ -4,28 +4,27 @@
 \contentsline {subsection}{\numberline {2.1}Introduction}{3}{subsection.2.1}
 \contentsline {subsection}{\numberline {2.2}Site Information}{4}{subsection.2.2}
 \contentsline {subsubsection}{\numberline {2.2.1}getSiteFileData}{4}{subsubsection.2.2.1}
-\contentsline {subsubsection}{\numberline {2.2.2}getDataAvailability}{5}{subsubsection.2.2.2}
+\contentsline {subsubsection}{\numberline {2.2.2}getDataAvailability}{4}{subsubsection.2.2.2}
 \contentsline {subsection}{\numberline {2.3}Parameter Information}{6}{subsection.2.3}
 \contentsline {subsection}{\numberline {2.4}Daily Values}{7}{subsection.2.4}
-\contentsline {subsection}{\numberline {2.5}Unit Values}{8}{subsection.2.5}
-\contentsline {subsection}{\numberline {2.6}Water Quality Values}{10}{subsection.2.6}
-\contentsline {subsection}{\numberline {2.7}STORET Water Quality Retrievals}{11}{subsection.2.7}
-\contentsline {subsection}{\numberline {2.8}URL Construction}{12}{subsection.2.8}
-\contentsline {section}{\numberline {3}Data Retrievals Structured For Use In The EGRET Package}{12}{section.3}
-\contentsline {subsection}{\numberline {3.1}INFO Data}{13}{subsection.3.1}
-\contentsline {subsection}{\numberline {3.2}Daily Data}{13}{subsection.3.2}
-\contentsline {subsection}{\numberline {3.3}Sample Data}{14}{subsection.3.3}
-\contentsline {subsection}{\numberline {3.4}Censored Values: Summation Explanation}{15}{subsection.3.4}
-\contentsline {subsection}{\numberline {3.5}User-Generated Data Files}{16}{subsection.3.5}
-\contentsline {subsubsection}{\numberline {3.5.1}getDailyDataFromFile}{16}{subsubsection.3.5.1}
-\contentsline {subsubsection}{\numberline {3.5.2}getSampleDataFromFile}{17}{subsubsection.3.5.2}
-\contentsline {subsection}{\numberline {3.6}Merge Report}{18}{subsection.3.6}
-\contentsline {subsection}{\numberline {3.7}EGRET Plots}{19}{subsection.3.7}
-\contentsline {section}{\numberline {A}Getting Started in R}{21}{appendix.A}
-\contentsline {subsection}{\numberline {A.1}New to R?}{21}{subsection.A.1}
-\contentsline {subsection}{\numberline {A.2}R User: Installing dataRetrieval}{21}{subsection.A.2}
-\contentsline {subsection}{\numberline {A.3}R Developers: Installing dataRetrieval from gitHub}{22}{subsection.A.3}
+\contentsline {subsection}{\numberline {2.5}Unit Values}{10}{subsection.2.5}
+\contentsline {subsection}{\numberline {2.6}Water Quality Values}{12}{subsection.2.6}
+\contentsline {subsection}{\numberline {2.7}STORET Water Quality Retrievals}{14}{subsection.2.7}
+\contentsline {subsection}{\numberline {2.8}URL Construction}{14}{subsection.2.8}
+\contentsline {section}{\numberline {3}Data Retrievals Structured For Use In The EGRET Package}{15}{section.3}
+\contentsline {subsection}{\numberline {3.1}INFO Data}{15}{subsection.3.1}
+\contentsline {subsection}{\numberline {3.2}Daily Data}{15}{subsection.3.2}
+\contentsline {subsection}{\numberline {3.3}Sample Data}{16}{subsection.3.3}
+\contentsline {subsection}{\numberline {3.4}Censored Values: Summation Explanation}{17}{subsection.3.4}
+\contentsline {subsection}{\numberline {3.5}User-Generated Data Files}{18}{subsection.3.5}
+\contentsline {subsubsection}{\numberline {3.5.1}getDailyDataFromFile}{18}{subsubsection.3.5.1}
+\contentsline {subsubsection}{\numberline {3.5.2}getSampleDataFromFile}{19}{subsubsection.3.5.2}
+\contentsline {subsection}{\numberline {3.6}Merge Report}{20}{subsection.3.6}
+\contentsline {subsection}{\numberline {3.7}EGRET Plots}{21}{subsection.3.7}
+\contentsline {section}{\numberline {A}Getting Started in R}{23}{appendix.A}
+\contentsline {subsection}{\numberline {A.1}New to R?}{23}{subsection.A.1}
+\contentsline {subsection}{\numberline {A.2}R User: Installing dataRetrieval}{23}{subsection.A.2}
 \contentsline {section}{\numberline {B}Columns Names}{24}{appendix.B}
 \contentsline {subsection}{\numberline {B.1}INFO dataframe}{24}{subsection.B.1}
-\contentsline {subsection}{\numberline {B.2}Water Quality Portal}{25}{subsection.B.2}
-\contentsline {section}{\numberline {C}Creating tables in Microsoft from R}{27}{appendix.C}
+\contentsline {subsection}{\numberline {B.2}Water Quality Portal}{26}{subsection.B.2}
+\contentsline {section}{\numberline {C}Creating tables in Microsoft from R}{29}{appendix.C}