[R] data.table and R package check

[ONKELINX, Thierry]

This is workaround by defining the 'global variables' as NULL. Use it with caution.

### Fooling R CMD check
transition_group_id <- NULL
### Fooling R CMD check

setkey(aligtable,transition_group_id,align_origfilename)

ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
Kliniekstraat 25
1070 Anderlecht
Belgium
+ 32 2 525 02 51
+ 32 54 43 61 85
Thierry.Onkelinx at inbo.be
www.inbo.be

To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org] Namens Witold E Wolski
Verzonden: vrijdag 14 maart 2014 13:16
Aan: r-help at r-project.org
Onderwerp: [R] data.table and R package check

Hi,

using data.table in package code i.e

setkey(aligtable,transition_group_id,align_origfilename)
aligtable = aligtable[CJ(unique(transition_group_id),
unique(align_origfilename))]

When I do run R package check I got warnings such as:

convert2msExperiment: no visible binding for global variable
  'transition_group_id'

.... and more and more and MORE

I can't suppress those warnings by putting transition_group_id into quotes because this would break this code:

aligtable = aligtable[CJ(unique(transition_group_id),
unique(align_origfilename))]


Any alternatives?

regards









--
Witold Eryk Wolski

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