From: "avinash sahu" <avinash.sahu at gmail.com>
To: bioc-devel at r-project.org
Sent: Tuesday, January 20, 2015 8:49:06 AM
Subject: [Bioc-devel] release new package bioccheck failing
Hi All,
I am trying to release a package https://github.com/vinash85/GOAL in
bioconductor. But BiocCheck is failing, however it only failing in
linux
and not in MAC. And I cannot figure out reason. The package is uses
Rcpp.
Both build, CHECK is passing in linux and mac.
I am using latest R (3.1.2)
The failing message from linux by BiocCheck is:
* This is BiocCheck, version 1.2.1.
* BiocCheck is a work in progress. Output and severity of issues may
change.
* Installing package...
* This is a software package, checking vignette directories...
* REQUIRED: vignette sources in vignettes/ directory.
* Checking version number...
* RECOMMENDED: y of x.y.z version should be even in release
* Checking biocViews...
* CONSIDER: Adding some of these automatically suggested
biocViews:
Epigenetics
* Checking build system compatibility...
* Checking unit tests...
* CONSIDER: Adding unit tests. We strongly recommend them. See
http://www.bioconductor.org/developers/how-to/unitTesting-guidelines/.
* Checking native routine registration...
* RECOMMENDED: Register native routines! see
http://cran.r-project.org/doc/manuals/R-exts.html#Registering-native-routines
* Checking for deprecated package usage...
* Parsing R code in R directory, examples, vignettes...
* Checking for T...
* Checking for F...
* Checking for browser()...
* Checking for <<-...
* Checking for library/require of GOAL...
* Checking DESCRIPTION/NAMESPACE consistency...
* Checking function lengths........
* The longest function is 87 lines long
* The longest 5 functions are:
* generate.epieQTL.logistic() (R/simulate.eQTL.R, line 4): 87 lines
* fit.logit() (R/fit.logit.R, line 1): 27 lines
* mvrnormArma() (R/RcppExports.R, line 4): 3 lines
* find_correlation() (R/RcppExports.R, line 8): 3 lines
* filterSNP() (R/RcppExports.R, line 12): 3 lines
* Checking man pages...
** Checking exported objects have runnable examples...Error in if
(line ==
"## No test: " || insideDontTest || line == "## End(No test)") { :
missing value where TRUE/FALSE neededCalls: <Anonymous> ...
checkExportsAreDocumented -> doesManPageHaveRunnableExample ->
removeDontTestExecution halted*