[R] Function that is giving me a headache- any help appreciated (automatic read )

[stephen sefick]

note: whole function is below- I am sure I am doing something silly.

when I use it like USGS(input="precipitation") it is choking on the


precip.1 <- subset(DF, precipitation!="NA")
b <- ddply(precip.1$precipitation, .(precip.1$gauge_name), cumsum)
DF.precip <- precip.1
DF.precip$precipitation <- b$.data

part, but runs fine outside of the function:

days=7
input="precipitation"
require(chron)
require(gsubfn)
require(ggplot2)
require(plyr)
#021973269 is the Waynesboro Gauge on the Savannah River Proper (SRS)
#02102908 is the Flat Creek Gauge (ftbrfcms)
#02133500 is the Drowning Creek (ftbrbmcm)
#02341800 is the Upatoi Creek Near Columbus (ftbn)
#02342500 is the Uchee Creek Near Fort Mitchell (ftbn)
#02203000 is the Canoochee River Near Claxton (ftst)
#02196690 is the Horse Creek Gauge at Clearwater, S.C.

a <- "http://waterdata.usgs.gov/nwis/uv?format=rdb&period="
b <- "&site_no=021973269,02102908,02133500,02341800,02342500,02203000,02196690"
z <- paste(a, days, b, sep="")
L <- readLines(z)

#look for the data with USGS in front of it (this take advantage of
#the agency column)
L.USGS <- grep("^USGS", L, value = TRUE)
DF <- read.table(textConnection(L.USGS), fill = TRUE)
colnames(DF) <- c("agency", "gauge", "date", "time", "time_zone",
"gauge_height",
"discharge", "precipitation")
pat <- "^# +USGS +([0-9]+) +(.*)"
L.DD <- grep(pat, L, value = TRUE)
library(gsubfn)
DD <- strapply(L.DD, pat, c, simplify = rbind)
DDdf <- data.frame(gauge = as.numeric(DD[,1]), gauge_name = DD[,2])
both <- merge(DF, DDdf, by = "gauge", all.x = TRUE)

dts <- as.character(both[,"date"])
tms <- as.character(both[,"time"])
date_time <- as.chron(paste(dts, tms), "%Y-%m-%d %H:%M")
DF <- data.frame(Date=as.POSIXct(date_time), both)
#change precip to numeric
DF[,"precipitation"] <- as.numeric(as.character(DF[,"precipitation"]))

precip.1 <- subset(DF, precipitation!="NA")
b <- ddply(precip.1$precipitation, .(precip.1$gauge_name), cumsum)
DF.precip <- precip.1
DF.precip$precipitation <- b$.data

#discharge
if(input=="data"){

return(DF)

}else{

qplot(Date, discharge, data=DF,
geom="line", ylab="Date")+facet_wrap(~gauge_name,
scales="free_y")+coord_trans(y="log10")}

if(input=="precipitation"){
#precipitation
qplot(Date, precipitation, data=DF.precip,
geom="line")+facet_wrap(~gauge_name, scales="free_y")

}else{

qplot(Date, discharge, data=DF,
geom="line", ylab="Date")+facet_wrap(~gauge_name,
scales="free_y")+coord_trans(y="log10")}

below is the whole function:

USGS <- function(input="discharge", days=7){
require(chron)
require(gsubfn)
require(ggplot2)
require(plyr)
#021973269 is the Waynesboro Gauge on the Savannah River Proper (SRS)
#02102908 is the Flat Creek Gauge (ftbrfcms)
#02133500 is the Drowning Creek (ftbrbmcm)
#02341800 is the Upatoi Creek Near Columbus (ftbn)
#02342500 is the Uchee Creek Near Fort Mitchell (ftbn)
#02203000 is the Canoochee River Near Claxton (ftst)
#02196690 is the Horse Creek Gauge at Clearwater, S.C.

a <- "http://waterdata.usgs.gov/nwis/uv?format=rdb&period="
b <- "&site_no=021973269,02102908,02133500,02341800,02342500,02203000,02196690"
z <- paste(a, days, b, sep="")
L <- readLines(z)

#look for the data with USGS in front of it (this take advantage of
#the agency column)
L.USGS <- grep("^USGS", L, value = TRUE)
DF <- read.table(textConnection(L.USGS), fill = TRUE)
colnames(DF) <- c("agency", "gauge", "date", "time", "time_zone",
"gauge_height",
"discharge", "precipitation")
pat <- "^# +USGS +([0-9]+) +(.*)"
L.DD <- grep(pat, L, value = TRUE)
library(gsubfn)
DD <- strapply(L.DD, pat, c, simplify = rbind)
DDdf <- data.frame(gauge = as.numeric(DD[,1]), gauge_name = DD[,2])
both <- merge(DF, DDdf, by = "gauge", all.x = TRUE)

dts <- as.character(both[,"date"])
tms <- as.character(both[,"time"])
date_time <- as.chron(paste(dts, tms), "%Y-%m-%d %H:%M")
DF <- data.frame(Date=as.POSIXct(date_time), both)
#change precip to numeric
DF[,"precipitation"] <- as.numeric(as.character(DF[,"precipitation"]))

precip.1 <- subset(DF, precipitation!="NA")
b <- ddply(precip.1$precipitation, .(precip.1$gauge_name), cumsum)
DF.precip <- precip.1
DF.precip$precipitation <- b$.data

#discharge
if(input=="data"){

return(DF)

}else{

qplot(Date, discharge, data=DF,
geom="line", ylab="Date")+facet_wrap(~gauge_name,
scales="free_y")+coord_trans(y="log10")}

if(input=="precipitation"){
#precipitation
qplot(Date, precipitation, data=DF.precip,
geom="line")+facet_wrap(~gauge_name, scales="free_y")

}else{

qplot(Date, discharge, data=DF,
geom="line", ylab="Date")+facet_wrap(~gauge_name,
scales="free_y")+coord_trans(y="log10")}

}


-- 
Stephen Sefick

Let's not spend our time and resources thinking about things that are
so little or so large that all they really do for us is puff us up and
make us feel like gods.  We are mammals, and have not exhausted the
annoying little problems of being mammals.

								-K. Mullis