[Rd] Confusing inheritance problem

From: Terry Therneau <therneau_at_mayo.edu>
Date: Fri, 15 Jul 2011 16:23:47 -0500


 I have library in development with a function that works when called from the top level, but fails under R CMD check. The paricular line of failure is

        rsum <- rowSums(kmat>0)
where kmat is a dsCMatrix object.

  I'm currently stumped and looking for some ideas.

  I've created a stripped down library "ktest" that has only 3 functions: pedigree.R to create a pedigree or pedigreeList object,

	   kinship.R with "kinship" methods for the two objects 
	   one small compute function called by the others
along with the minimal amount of other information such that a call to

   R --vanilla CMD check ktest
gives no errors until the fatal one.

 There are two test cases. A 3 line one that creates a dsCMatrix and call rowSums at the top level works fine, but the same call inside the kmat.pedigreeList function gives an error

        'x' must be an array of at least two dimensions Adding a print statement above the rowSums call shows that the argument is a 14 by 14 dsCMatrix.

 I'm happy to send the library to anyone else to try and duplicate.

    Terry Therneau

tmt% R --vanilla

> sessionInfo()

R version 2.13.0 (2011-04-13)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:

 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=C              
 [5] LC_MONETARY=C              LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods
base

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