Closed elhmn-uw closed 10 years ago
fixed issues.
~/works/igraph/nhlee/interfaces/R (develop)$ R CMD check igraph_0.7.999-318.tar.gz
* using log directory ‘/Users/gaborcsardi/works/igraph/nhlee/interfaces/R/igraph.Rcheck’
* using R version 3.1.0 (2014-04-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* checking for file ‘igraph/DESCRIPTION’ ... OK
* this is package ‘igraph’ version ‘0.7.999-318’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘igraph’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 6.8Mb
sub-directories of 1Mb or more:
libs 4.6Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... WARNING
'library' or 'require' call not declared from: ‘clue’
Namespace in Imports field not imported from: ‘clue’
All declared Imports should be used.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
gclust.app: no visible global function definition for ‘nmf’
gclust.app: no visible global function definition for ‘basis’
gclust.rsvt: no visible global function definition for ‘irlba’
gclust.rsvt: no visible global function definition for ‘nmf’
gclust.rsvt: no visible global function definition for ‘basis’
sgm: no visible global function definition for ‘solve_LSAP’
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'gclust.rsvt':
gclust.rsvt
Code: function(glist, r = 1, maxsvt = 10, nmfout = FALSE, maxit =
10000, nmfmethod = "lee")
Docs: function(glist, r = 1, , nmfout = FALSE, maxit = 10000,
nmfmethod = "lee")
Argument names in code not in docs:
maxsvt
Argument names in docs not in code:
Mismatches in argument names:
Position: 3 Code: maxsvt Docs:
Codoc mismatches from documentation object 'getAICc':
getAICc
Code: function(gfit)
Docs: function(x)
Argument names in code not in docs:
gfit
Argument names in docs not in code:
x
Mismatches in argument names:
Position: 1 Code: gfit Docs: x
* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'gclust.rsvt'
‘’
Documented arguments not in \usage in documentation object 'gclust.rsvt':
‘maxsvt’
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... WARNING
'library' or 'require' calls not declared from:
‘NMF’ ‘irlba’
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
WARNING: There were 4 warnings.
NOTE: There were 2 notes.
See
‘/Users/gaborcsardi/works/igraph/nhlee/interfaces/R/igraph.Rcheck/00check.log’
for details.