[Rd] Cannot Compute Box's M (Three Days Trying...)

Morkus morkus at protonmail.com
Sat Oct 28 12:22:18 CEST 2017 

Hi Bill,

Thanks for catching that. However, the problem remains.

If I use R debugging code with the rResponseObject below, I get a maybe better error, but it still doesn't make sense.

This is the actual error R is throwing:

Error in `[.data.frame`(boxMVariable, , -5) : undefined columns selected

Does this error make sense?

Please reply. :)

Thanks in advance.

---------------

<R Debugging code, one line substituted from earlier posting>

REXP rResponseObject = rConnection.parseAndEval("try(eval(" + boxVariable+ "),silent=TRUE)");
if (rResponseObject.inherits("try-error"))
{
System.out.println("R Serve Eval Exception : " + rResponseObject.asString());
}

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> -------- Original Message --------
> Subject: Re: [Rd] Cannot Compute Box's M (Three Days Trying...)
> Local Time: October 27, 2017 4:00 PM
> UTC Time: October 27, 2017 8:00 PM
> From: wdunlap at tibco.com
> To: Morkus <morkus at protonmail.com>
> r-devel at r-project.org <r-devel at r-project.org>
>
> Does it work if you supply the closing parenthesis on the call to boxM?  The parser says the input is incomplete and a missing closing parenthesis would cause that error..
>
> // create a string command with that variable name.String boxVariable = "boxM(boxMVariable [,-5], boxMVariable[,5]";
>
> // try to execute the command...
> // FAILS with org.rosuda.REngine.Rserve.RserveException: eval failed, request status: R parser: input incomplete>>>> FAILS ! >>>>  REXP theBoxMResult = rConnection.eval(boxVariable);    <<<< FAILS <<<<<
>
> Bill Dunlap
> TIBCO Software
> wdunlap tibco.com
>
> On Fri, Oct 27, 2017 at 12:41 PM, Morkus via R-devel <r-devel at r-project.org> wrote:
>
>> It can't be this hard, right? I really need a shove in the right direction here. Been spinning wheels for three days. Cannot get past the errors.
>>
>> I'm doing something wrong, obviously, since I can easily compute the Box's M right there in RStudio
>>
>> But I don't see what is wrong below with the coding equivalent.
>>
>> The entire code snippet is below. The code fails below on the call to the boxM statistic call.
>>
>> PLEASE HELP!!!
>>
>> Thanks in advance,
>>
>> -------------------------
>>
>> rConnection.eval("library('biotools')");
>>
>> String inputIris = "5.1,3.5,1.4,0.2,setosa\n" +
>> "4.9,3,1.4,0.2,setosa\n" +
>> "4.7,3.2,1.3,0.2,setosa\n" +
>> "4.6,3.1,1.5,0.2,setosa\n" +
>> "5,3.6,1.4,0.2,setosa\n" +
>> "5.4,3.9,1.7,0.4,setosa\n" +
>> "4.6,3.4,1.4,0.3,setosa\n" +
>> "5,3.4,1.5,0.2,setosa\n" +
>> "4.4,2.9,1.4,0.2,setosa\n" +
>> "4.9,3.1,1.5,0.1,setosa\n" +
>> "5.4,3.7,1.5,0.2,setosa\n" +
>> "4.8,3.4,1.6,0.2,setosa\n" +
>> "4.8,3,1.4,0.1,setosa\n" +
>> "4.3,3,1.1,0.1,setosa\n" +
>> "5.8,4,1.2,0.2,setosa\n" +
>> "5.7,4.4,1.5,0.4,setosa\n" +
>> "5.4,3.9,1.3,0.4,setosa\n" +
>> "5.1,3.5,1.4,0.3,setosa\n" +
>> "5.7,3.8,1.7,0.3,setosa\n" +
>> "5.1,3.8,1.5,0.3,setosa\n" +
>> "5.4,3.4,1.7,0.2,setosa\n" +
>> "5.1,3.7,1.5,0.4,setosa\n" +
>> "4.6,3.6,1,0.2,setosa\n" +
>> "5.1,3.3,1.7,0.5,setosa\n" +
>> "4.8,3.4,1.9,0.2,setosa\n" +
>> "5,3,1.6,0.2,setosa\n" +
>> "5,3.4,1.6,0.4,setosa\n" +
>> "5.2,3.5,1.5,0.2,setosa\n" +
>> "5.2,3.4,1.4,0.2,setosa\n" +
>> "4.7,3.2,1.6,0.2,setosa\n" +
>> "4.8,3.1,1.6,0.2,setosa\n" +
>> "5.4,3.4,1.5,0.4,setosa\n" +
>> "5.2,4.1,1.5,0.1,setosa\n" +
>> "5.5,4.2,1.4,0.2,setosa\n" +
>> "4.9,3.1,1.5,0.2,setosa\n" +
>> "5,3.2,1.2,0.2,setosa\n" +
>> "5.5,3.5,1.3,0.2,setosa\n" +
>> "4.9,3.6,1.4,0.1,setosa\n" +
>> "4.4,3,1.3,0.2,setosa\n" +
>> "5.1,3.4,1.5,0.2,setosa\n" +
>> "5,3.5,1.3,0.3,setosa\n" +
>> "4.5,2.3,1.3,0.3,setosa\n" +
>> "4.4,3.2,1.3,0.2,setosa\n" +
>> "5,3.5,1.6,0.6,setosa\n" +
>> "5.1,3.8,1.9,0.4,setosa\n" +
>> "4.8,3,1.4,0.3,setosa\n" +
>> "5.1,3.8,1.6,0.2,setosa\n" +
>> "4.6,3.2,1.4,0.2,setosa\n" +
>> "5.3,3.7,1.5,0.2,setosa\n" +
>> "5,3.3,1.4,0.2,setosa\n" +
>> "7,3.2,4.7,1.4,versicolor\n" +
>> "6.4,3.2,4.5,1.5,versicolor\n" +
>> "6.9,3.1,4.9,1.5,versicolor\n" +
>> "5.5,2.3,4,1.3,versicolor\n" +
>> "6.5,2.8,4.6,1.5,versicolor\n" +
>> "5.7,2.8,4.5,1.3,versicolor\n" +
>> "6.3,3.3,4.7,1.6,versicolor\n" +
>> "4.9,2.4,3.3,1,versicolor\n" +
>> "6.6,2.9,4.6,1.3,versicolor\n" +
>> "5.2,2.7,3.9,1.4,versicolor\n" +
>> "5,2,3.5,1,versicolor\n" +
>> "5.9,3,4.2,1.5,versicolor\n" +
>> "6,2.2,4,1,versicolor\n" +
>> "6.1,2.9,4.7,1.4,versicolor\n" +
>> "5.6,2.9,3.6,1.3,versicolor\n" +
>> "6.7,3.1,4.4,1.4,versicolor\n" +
>> "5.6,3,4.5,1.5,versicolor\n" +
>> "5.8,2.7,4.1,1,versicolor\n" +
>> "6.2,2.2,4.5,1.5,versicolor\n" +
>> "5.6,2.5,3.9,1.1,versicolor\n" +
>> "5.9,3.2,4.8,1.8,versicolor\n" +
>> "6.1,2.8,4,1.3,versicolor\n" +
>> "6.3,2.5,4.9,1.5,versicolor\n" +
>> "6.1,2.8,4.7,1.2,versicolor\n" +
>> "6.4,2.9,4.3,1.3,versicolor\n" +
>> "6.6,3,4.4,1.4,versicolor\n" +
>> "6.8,2.8,4.8,1.4,versicolor\n" +
>> "6.7,3,5,1.7,versicolor\n" +
>> "6,2.9,4.5,1.5,versicolor\n" +
>> "5.7,2.6,3.5,1,versicolor\n" +
>> "5.5,2.4,3.8,1.1,versicolor\n" +
>> "5.5,2.4,3.7,1,versicolor\n" +
>> "5.8,2.7,3.9,1.2,versicolor\n" +
>> "6,2.7,5.1,1.6,versicolor\n" +
>> "5.4,3,4.5,1.5,versicolor\n" +
>> "6,3.4,4.5,1.6,versicolor\n" +
>> "6.7,3.1,4.7,1.5,versicolor\n" +
>> "6.3,2.3,4.4,1.3,versicolor\n" +
>> "5.6,3,4.1,1.3,versicolor\n" +
>> "5.5,2.5,4,1.3,versicolor\n" +
>> "5.5,2.6,4.4,1.2,versicolor\n" +
>> "6.1,3,4.6,1.4,versicolor\n" +
>> "5.8,2.6,4,1.2,versicolor\n" +
>> "5,2.3,3.3,1,versicolor\n" +
>> "5.6,2.7,4.2,1.3,versicolor\n" +
>> "5.7,3,4.2,1.2,versicolor\n" +
>> "5.7,2.9,4.2,1.3,versicolor\n" +
>> "6.2,2.9,4.3,1.3,versicolor\n" +
>> "5.1,2.5,3,1.1,versicolor\n" +
>> "5.7,2.8,4.1,1.3,versicolor\n" +
>> "6.3,3.3,6,2.5,virginica\n" +
>> "5.8,2.7,5.1,1.9,virginica\n" +
>> "7.1,3,5.9,2.1,virginica\n" +
>> "6.3,2.9,5.6,1.8,virginica\n" +
>> "6.5,3,5.8,2.2,virginica\n" +
>> "7.6,3,6.6,2.1,virginica\n" +
>> "4.9,2.5,4.5,1.7,virginica\n" +
>> "7.3,2.9,6.3,1.8,virginica\n" +
>> "6.7,2.5,5.8,1.8,virginica\n" +
>> "7.2,3.6,6.1,2.5,virginica\n" +
>> "6.5,3.2,5.1,2,virginica\n" +
>> "6.4,2.7,5.3,1.9,virginica\n" +
>> "6.8,3,5.5,2.1,virginica\n" +
>> "5.7,2.5,5,2,virginica\n" +
>> "5.8,2.8,5.1,2.4,virginica\n" +
>> "6.4,3.2,5.3,2.3,virginica\n" +
>> "6.5,3,5.5,1.8,virginica\n" +
>> "7.7,3.8,6.7,2.2,virginica\n" +
>> "7.7,2.6,6.9,2.3,virginica\n" +
>> "6,2.2,5,1.5,virginica\n" +
>> "6.9,3.2,5.7,2.3,virginica\n" +
>> "5.6,2.8,4.9,2,virginica\n" +
>> "7.7,2.8,6.7,2,virginica\n" +
>> "6.3,2.7,4.9,1.8,virginica\n" +
>> "6.7,3.3,5.7,2.1,virginica\n" +
>> "7.2,3.2,6,1.8,virginica\n" +
>> "6.2,2.8,4.8,1.8,virginica\n" +
>> "6.1,3,4.9,1.8,virginica\n" +
>> "6.4,2.8,5.6,2.1,virginica\n" +
>> "7.2,3,5.8,1.6,virginica\n" +
>> "7.4,2.8,6.1,1.9,virginica\n" +
>> "7.9,3.8,6.4,2,virginica\n" +
>> "6.4,2.8,5.6,2.2,virginica\n" +
>> "6.3,2.8,5.1,1.5,virginica\n" +
>> "6.1,2.6,5.6,1.4,virginica\n" +
>> "7.7,3,6.1,2.3,virginica\n" +
>> "6.3,3.4,5.6,2.4,virginica\n" +
>> "6.4,3.1,5.5,1.8,virginica\n" +
>> "6,3,4.8,1.8,virginica\n" +
>> "6.9,3.1,5.4,2.1,virginica\n" +
>> "6.7,3.1,5.6,2.4,virginica\n" +
>> "6.9,3.1,5.1,2.3,virginica\n" +
>> "5.8,2.7,5.1,1.9,virginica\n" +
>> "6.8,3.2,5.9,2.3,virginica\n" +
>> "6.7,3.3,5.7,2.5,virginica\n" +
>> "6.7,3,5.2,2.3,virginica\n" +
>> "6.3,2.5,5,1.9,virginica\n" +
>> "6.5,3,5.2,2,virginica\n" +
>> "6.2,3.4,5.4,2.3,virginica\n" +
>> "5.9,3,5.1,1.8,virginica\n";
>>
>> List tableRead = rConnection.eval(
>> "read.csv(textConnection(\"" + inputIris + "\"), header = FALSE)").asList();  // works!
>>
>> double[] d1 = ((REXPVector) ((RList) tableRead).get(0)).asDoubles();
>> double[] d2 = ((REXPVector) ((RList) tableRead).get(1)).asDoubles();
>> double[] d3 = ((REXPVector) ((RList) tableRead).get(2)).asDoubles();
>> double[] d4 = ((REXPVector) ((RList) tableRead).get(3)).asDoubles();
>> String[] d5 = ((REXPVector) ((RList) tableRead).get(4)).asStrings();
>>
>> // create data frame with data.REXP myDf = REXP.createDataFrame(new RList(
>> new REXP[]
>> {
>> new REXPDouble(d1),
>> new REXPDouble(d2),
>> new REXPDouble(d3),
>> new REXPDouble(d4),
>> new REXPString(d5)
>> }));
>>
>> // assign the data to a variable as was suggested.rConnection.assign("boxMVariable", myDf);
>>
>> // create a string command with that variable name.String boxVariable = "boxM(boxMVariable [,-5], boxMVariable[,5]";
>>
>> // try to execute the command...
>> // FAILS with org.rosuda.REngine.Rserve.RserveException: eval failed, request status: R parser: input incomplete>>>> FAILS ! >>>>  REXP theBoxMResult = rConnection.eval(boxVariable);    <<<< FAILS <<<<<
>>
>> sent from [ProtonMail](https://protonmail.com), Swiss-based encrypted email.
>>         [[alternative HTML version deleted]]
>>
>> ______________________________________________
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