[datatable-help] R Studio Interactions with data.table

[Shir Levkowitz]

I have gotten a crash right off the bat in console R (3.0.2, data.table 1.9.2) on Linux,

*** caught segfault ***
address (nil), cause 'unknown'

Traceback:
1: `[.data.table`(dt, , `:=`(forward_date, c(rep(NA, 5), date)),     by = "strip")
2: dt[, `:=`(forward_date, c(rep(NA, 5), date)), by = "strip"]

Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection: 2
Save workspace image? [y/n/c]: n
Warning message:
In `[.data.table`(dt, , `:=`(forward_date, c(rep(NA, 5), date)),  :
 RHS 1 is length 15 (greater than the size (10) of group 1). The last 5 element(s) will be discarded.

It seems like this bug may be related, though three years old: https://r-forge.r-project.org/tracker/?group_id=240&atid=975&func=detail&aid=1664

Shir


On Apr 22, 2014, at 2:18 PM, Kevin Ushey <kevinushey at gmail.com> wrote:

> FWIW, I can reproduce this segfault within the console as well,
> including with the latest SVN version of data.table 1.9.3.
> 
> Running under R -d lldb, I don't get a segfault off the bat; I get:
> 
>> dt[,forward_date:=c(rep(NA,5),date),by='strip']
> 
> Warning message:
> 
> In `[.data.table`(dt, , `:=`(forward_date, c(rep(NA, 5), date)),  :
>  RHS 1 is length 15 (greater than the size (10) of group 1). The last
> 5 element(s) will be discarded.
> 
> I also see the error, if I play around in the console a bit after launching R:
> 
>> dt[,forward_date:=c(rep(NA,5),date),by='strip']
> 
> Process 55776 stopped
> 
> * thread #1: tid = 0x13b169, 0x000000010002bf60
> libR.dylib`Rf_copyMostAttrib(inp=0x0000000101bb0f50,
> ans=0x0000000101bb0ea8) + 192 at attrib.c:274, queue =
> 'com.apple.main-thread', stop reason = EXC_BAD_ACCESS (code=1,
> address=0x417e)
> 
>    frame #0: 0x000000010002bf60
> libR.dylib`Rf_copyMostAttrib(inp=0x0000000101bb0f50,
> ans=0x0000000101bb0ea8) + 192 at attrib.c:274
>   271     PROTECT(ans);
>   272     PROTECT(inp);
>   273     for (s = ATTRIB(inp); s != R_NilValue; s = CDR(s)) {
> -> 274 if ((TAG(s) != R_NamesSymbol) &&
>   275     (TAG(s) != R_DimSymbol) &&
>   276     (TAG(s) != R_DimNamesSymbol)) {
>   277     installAttrib(ans, TAG(s), CAR(s));
> 
> Hopefully this gives a starting point in debugging...
> 
> Kevin
> 
> On Tue, Apr 22, 2014 at 11:07 AM, Zachary Long <long at dc-energy.com> wrote:
>> Hello,
>> 
>> I was wondering if an error like this had been addressed before. I am using
>> data table 1.9.2.
>> 
>> It appears that the error has to do with the interaction with R-Studio. When
>> I run
>> 
>> library(data.table)
>> dt<-data.table(strip="Nov08",date=c("2006-08-01","2006-08-02","2006-08-03","2006-08-04","2006-08-07",
>> 
>> "2006-08-08","2006-08-09","2006-08-10","2006-08-11","2006-08-14"))
>> dt[,forward_date:=c(rep(NA,5),date),by='strip']
>> 
>> 
>> The result I expect is below, along with a warning message.
>> 
>> strip       date forward_date
>> 1: Nov08 2006-08-01           NA
>> 2: Nov08 2006-08-02           NA
>> 3: Nov08 2006-08-03           NA
>> 4: Nov08 2006-08-04           NA
>> 5: Nov08 2006-08-07           NA
>> 6: Nov08 2006-08-08   2006-08-01
>> 7: Nov08 2006-08-09   2006-08-02
>> 8: Nov08 2006-08-10   2006-08-03
>> 9: Nov08 2006-08-11   2006-08-04
>> 10: Nov08 2006-08-14   2006-08-07
>> 
>> 
>> However, I don't get this.
>> 
>> 1 of two things can happen.
>> 
>> 1. My R-Studio will completely crash without warning. All unsaved
>> information is lost.
>> 2. I can get "Error: Value of SET_STRING_ELT() must be a 'CHARSXP' not a
>> 'character'" "In addition:Lost warning messages"
>> 
>> Do you know what is the cause here? It seems related to memory allocation,
>> or something under the hood relating to the interaction of R-Studio and data
>> table.
>> 
>> Zach
>> 
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