[R] R Package "example" section of .Rd file question (think it's a non-ASCII issue, but not sure...)

[Yihui Xie]

Man, the original reply told you to use backticks `` rather than
double quotes "". They are very different in R; see ?Quotes

And GSE19829-GPL570_eset is really a bad name. I recommend you to rename it.

Regards,
Yihui
--
Yihui Xie <xieyihui at gmail.com>
Phone: 515-294-2465 Web: http://yihui.name
Department of Statistics, Iowa State University
2215 Snedecor Hall, Ames, IA



On Wed, Feb 15, 2012 at 4:09 PM, Ben Ganzfried <ben.ganzfried at gmail.com> wrote:
> Hi Martin,
>
> Thanks! You were right.  Quotes seemed to work, except I kept running into
> a problem on the following line:
>
> time <- "GSE19829-GPL570_eset$days_to_death" / 365
>
> The error is that R atomic vector operator invalid.  It's actually much
> easier if I could use quotes rather than re-name-- so is there any way to
> put quotes around the columns in "GSE19829-GPL570_eset" such that it does
> what i want it to?
>
> In the above "time" example, I just want to take the values in the column
> and divide by 365, but the quotes are messing it up. Any clarification
> would be really greatly appreciated!
>
> Thanks!
>
> Ben
>
>
>
> On Wed, Feb 15, 2012 at 4:20 PM, Martin Morgan <mtmorgan at fhcrc.org> wrote:
>
>> On 02/15/2012 12:18 PM, Ben Ganzfried wrote:
>>
>>> Hey,
>>>
>>> I keep getting the following warning:
>>>
>>>  data(GSE19829-GPL570_eset)
>>>>
>>> Warning in data(GSE19829 - GPL570_eset) :
>>>   data set ‘GSE19829 - GPL570_eset’ not found
>>>
>>>> ## maybe str(GSE19829-GPL570_eset) ; plot(GSE19829-GPL570_eset) ...
>>>>
>>>
>> Hi Ben --
>>
>> '-' is being parsed as a minus sign;  you could (I think) quote it
>>
>>  `GSE19829-GPL570_eset`
>>
>> or better come up with a legal name.
>>
>> Martin
>>
>>
>>>> if(require(affy)){
>>>>
>>> +   summary(GSE19829-GPL570_eset$**vital_status)
>>> +  }
>>> Error in summary(GSE19829 - GPL570_eset$vital_status) :
>>>   object 'GSE19829' not found
>>> Execution halted
>>>
>>> This error does not happen on other of my other .Rd files.  None of the
>>> other .Rd files have a "-" character in their title.  for example, the
>>> other files have the following:
>>>
>>>> data(GSE1234)
>>>>
>>> OR
>>>
>>>> data(GSE5678)
>>>>
>>>
>>> I think the issue is the "-" character, but I'm not sure.  Does anyone
>>> know
>>> if this is the case?  And if so, how do I fix it?  If not, any other
>>> suggestions?
>>>
>>> Much thanks!
>>>
>>> Ben
>>>
>>>        [[alternative HTML version deleted]]
>>>
>>>
>>>
>>>
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>>>
>>
>>
>> --
>> Computational Biology
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
>>
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>> Telephone: 206 667-2793
>>
>
>        [[alternative HTML version deleted]]
>
>
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>