Pradip,
For some reason mutate is not setting the is.NA value for the new column. Note
the output below using your data structures.
> ## It looks at first as if the second element of both columns are NA.
> data2$mrjdate[2]
[1] NA
> data2$oiddate[2]
[1] NA
> ## for convenience
> mrj <- data2$mrjdate[2]
> oid <- data2$oiddate[2]
> mode(mrj)
[1] "numeric"
> mode(oid)
[1] "numeric"
> str(mrj)
Date[1:1], format: NA
> str(oid)
Date[1:1], format: NA
> class(mrj)
[1] "Date"
> class(oid)
[1] "Date"
> ## But note:
> identical(mrj, oid)
[1] FALSE
> all.equal(mrj, oid)
[1] "'is.NA' value mismatch: 0 in current 1 in target"
## functioning code
data2$mrjdate[2]
data2$oiddate[2]
mrj <- data2$mrjdate[2]
oid <- data2$oiddate[2]
mode(mrj)
mode(oid)
str(mrj)
str(oid)
class(mrj)
class(oid)
# But note:
identical(mrj, oid)
all.equal(mrj, oid)
## This ugly solution does not have the problem.
> data3 <- data1
> data3$oiddate <- as.Date(sapply(seq_along(data3$id), function(row) {
+ if (all(is.na(unlist(data1[row, -1])))) {
+ max_d <- NA
+ } else {
+ max_d <- max(unlist(data1[row, -1]), na.rm = TRUE)
+ }
+ max_d}),
+ origin = "1970-01-01")
>
> range(data3$mrjdate[complete.cases(data3$mrjdate)])
[1] "2004-11-04" "2009-10-24"
> range(data3$cocdate[complete.cases(data3$cocdate)])
[1] "2005-08-10" "2011-10-05"
> range(data3$inhdate[complete.cases(data3$inhdate)])
[1] "2005-07-07" "2011-10-13"
> range(data3$haldate[complete.cases(data3$haldate)])
[1] "2007-11-07" "2011-11-04"
> range(data3$oiddate[complete.cases(data3$oiddate)])
[1] "2006-09-01" "2011-11-04"
>
Working code below.
data3 <- data1
data3$oiddate <- as.Date(sapply(seq_along(data3$id), function(row) {
if (all(is.na(unlist(data1[row, -1])))) {
max_d <- NA
} else {
max_d <- max(unlist(data1[row, -1]), na.rm = TRUE)
}
max_d}),
origin = "1970-01-01")
range(data3$mrjdate[complete.cases(data3$mrjdate)])
range(data3$cocdate[complete.cases(data3$cocdate)])
range(data3$inhdate[complete.cases(data3$inhdate)])
range(data3$haldate[complete.cases(data3$haldate)])
range(data3$oiddate[complete.cases(data3$oiddate)])
On Nov 10, 2014, at 10:10 AM, Muhuri, Pradip (SAMHSA/CBHSQ) wrote:
> Hello,
>
> The range() with complete.cases() removes NA's for the date variables that
> are read from a data frame. However, the issue is that the same function
> does not remove NA's for the other date variable that is created using the
> dplyr/mutate(). The console and the reproducible example are given below.
> Any advice how to resolve this issue would be appreciated.
>
> Thanks,
>
> Pradip Muhuri
>
>
> ################# cut and pasted from the R console ####################
>
> id mrjdate cocdate inhdate haldate oiddate
> 1 1 2004-11-04 2008-07-18 2005-07-07 2007-11-07 2008-07-18
> 2 2 <NA> <NA> <NA> <NA> <NA>
> 3 3 2009-10-24 <NA> 2011-10-13 <NA> 2011-10-13
> 4 4 2007-10-10 <NA> <NA> <NA> 2007-10-10
> 5 5 2006-09-01 2005-08-10 <NA> <NA> 2006-09-01
> 6 6 2007-09-04 2011-10-05 <NA> <NA> 2011-10-05
> 7 7 2005-10-25 <NA> <NA> 2011-11-04 2011-11-04
>>
>> # range of dates
>>
>> range(data2$mrjdate[complete.cases(data2$mrjdate)])
> [1] "2004-11-04" "2009-10-24"
>> range(data2$cocdate[complete.cases(data2$cocdate)])
> [1] "2005-08-10" "2011-10-05"
>> range(data2$inhdate[complete.cases(data2$inhdate)])
> [1] "2005-07-07" "2011-10-13"
>> range(data2$haldate[complete.cases(data2$haldate)])
> [1] "2007-11-07" "2011-11-04"
>> range(data2$oiddate[complete.cases(data2$oiddate)])
> [1] NA "2011-11-04"
>
>
> ################ reproducible code #############################
>
> library(dplyr)
> library(lubridate)
> library(zoo)
> # data object - description of the
>
> temp <- "id mrjdate cocdate inhdate haldate
> 1 2004-11-04 2008-07-18 2005-07-07 2007-11-07
> 2 NA NA NA NA
> 3 2009-10-24 NA 2011-10-13 NA
> 4 2007-10-10 NA NA NA
> 5 2006-09-01 2005-08-10 NA NA
> 6 2007-09-04 2011-10-05 NA NA
> 7 2005-10-25 NA NA 2011-11-04"
>
> # read the data object
>
> data1 <- read.table(textConnection(temp),
> colClasses=c("character", "Date", "Date", "Date", "Date"),
> header=TRUE, as.is=TRUE
> )
>
>
> # create a new column
>
> data2 <- data1 %>%
> rowwise() %>%
> mutate(oiddate=as.Date(max(mrjdate,cocdate, inhdate, haldate,
> na.rm=TRUE),
> origin='1970-01-01'))
>
> # print records
>
> print (data2)
>
> # range of dates
>
> range(data2$mrjdate[complete.cases(data2$mrjdate)])
> range(data2$cocdate[complete.cases(data2$cocdate)])
> range(data2$inhdate[complete.cases(data2$inhdate)])
> range(data2$haldate[complete.cases(data2$haldate)])
> range(data2$oiddate[complete.cases(data2$oiddate)])
>
>
>
>
>
> Pradip K. Muhuri, PhD
> SAMHSA/CBHSQ
> 1 Choke Cherry Road, Room 2-1071
> Rockville, MD 20857
> Tel: 240-276-1070
> Fax: 240-276-1260
>
>
>
> [[alternative HTML version deleted]]
>
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