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### Running command:
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###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:enhancerHomologSearch.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings enhancerHomologSearch_1.5.3.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/enhancerHomologSearch.Rcheck’
* using R version 4.3.0 alpha (2023-04-03 r84154)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘enhancerHomologSearch/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘enhancerHomologSearch’ version ‘1.5.3’
* package encoding: UTF-8
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘enhancerHomologSearch’ can be installed ... WARNING
Found the following significant warnings:
  Muscle/domuscle.cpp:74:47: warning: argument to ‘sizeof’ in ‘int snprintf(char*, size_t, const char*, ...)’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  Muscle/typetostr.cpp:35:24: warning: argument to ‘sizeof’ in ‘int snprintf(char*, size_t, const char*, ...)’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  Muscle/typetostr.cpp:52:24: warning: argument to ‘sizeof’ in ‘int snprintf(char*, size_t, const char*, ...)’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  Muscle/typetostr.cpp:35:39: warning: ‘%8g’ directive output may be truncated writing between 8 and 13 bytes into a region of size 8 [-Wformat-truncation=]
  Muscle/typetostr.cpp:52:39: warning: ‘%.3g’ directive output may be truncated writing between 1 and 10 bytes into a region of size 8 [-Wformat-truncation=]
See ‘/home/biocbuild/bbs-3.17-bioc/meat/enhancerHomologSearch.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* used C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* checking installed package size ... NOTE
  installed size is 15.6Mb
  sub-directories of 1Mb or more:
    libs  14.5Mb
* checking package directory ... OK
* checking ‘build’ 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 loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... NOTE
  Note: found 28 marked UTF-8 strings
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
conservedMotifs 91.143 24.184 115.355
searchTFBPS     66.987 20.147  87.138
saveAlignments   9.415  0.056   9.471
alignmentOne     5.266  0.108   5.374
getENCODEdata    3.662  0.217  11.580
queryEncode      0.189  0.004   5.595
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘enhancerHomologSearch.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/enhancerHomologSearch.Rcheck/00check.log’
for details.