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CHECK report for CNORode on nebbiolo1

This page was generated on 2021-01-19 11:53:15 -0500 (Tue, 19 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE CNORode PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 337/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CNORode 1.32.0
Enio Gjerga
Snapshot Date: 2021-01-18 14:42:24 -0500 (Mon, 18 Jan 2021)
URL: https://git.bioconductor.org/packages/CNORode
Branch: RELEASE_3_12
Last Commit: 8516b08
Last Changed Date: 2020-10-27 10:47:36 -0500 (Tue, 27 Oct 2020)
malbec1 Linux (Ubuntu 18.04.5 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ WARNINGS ]
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: CNORode
Version: 1.32.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:CNORode.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings CNORode_1.32.0.tar.gz
StartedAt: 2021-01-18 20:48:34 -0500 (Mon, 18 Jan 2021)
EndedAt: 2021-01-18 20:49:58 -0500 (Mon, 18 Jan 2021)
EllapsedTime: 83.9 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: CNORode.Rcheck
Warnings: 3

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:CNORode.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings CNORode_1.32.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/CNORode.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CNORode/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CNORode’ version ‘1.32.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .travis.yml
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘CNORode’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* 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: ‘doParallel’
'library' or 'require' calls in package code:
  ‘MEIGOR’ ‘doParallel’
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Package in Depends field not imported from: ‘genalg’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
NB: .First.lib is obsolete and will not be used in R >= 3.0.0

createLBodeContPars: no visible global function definition for ‘runif’
crossvalidateODE: no visible global function definition for ‘error’
crossvalidateODE: no visible global function definition for ‘%dopar%’
crossvalidateODE: no visible global function definition for ‘foreach’
minlpLBodeSSm: no visible global function definition for ‘essR’
minlpLBodeSSm: no visible global function definition for ‘runif’
parEstimationLBodeGA: no visible global function definition for
  ‘plot.new’
parEstimationLBodeGA : monitor_func: no visible global function
  definition for ‘par’
parEstimationLBodeGA : monitor_func: no visible global function
  definition for ‘lines’
parEstimationLBodeGA: no visible global function definition for ‘rbga’
parEstimationLBodeSSm: no visible global function definition for ‘essR’
runCNORode: no visible global function definition for ‘pdf’
runCNORode: no visible global function definition for ‘dev.off’
Undefined global functions or variables:
  %dopar% dev.off error essR foreach lines par pdf plot.new rbga runif
Consider adding
  importFrom("grDevices", "dev.off", "pdf")
  importFrom("graphics", "lines", "par", "plot.new")
  importFrom("stats", "runif")
to your NAMESPACE file.
* 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 ... WARNING
Bad \usage lines found in documentation object 'crossvalidateODE':
  crossvalidateODE = function(CNOlist = cnolist, model = model, nfolds=10, foldid=NULL, type="datapoint", parallel = FALSE, 
                              ode_parameters = NULL, paramsSSm = NULL, method = "essm")

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 chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* 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 ... WARNING
Variables overriding user/site settings:
  CPPFLAGS: -Wformat=0
  CFLAGS: -Wno-format-security
* 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
File ‘/home/biocbuild/bbs-3.12-bioc/R/library/CNORode/libs/CNORode.so’:
  Found ‘__printf_chk’, possibly from ‘printf’ (C)
  Found ‘putchar’, possibly from ‘putchar’ (C)
  Found ‘puts’, possibly from ‘printf’ (C), ‘puts’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
parEstimationLBode 7.268  0.099   7.387
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 5 NOTEs
See
  ‘/home/biocbuild/bbs-3.12-bioc/meat/CNORode.Rcheck/00check.log’
for details.



Installation output

CNORode.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL CNORode
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘CNORode’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c FG_transfer_function.c -o FG_transfer_function.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodea.c -o cvodea.o
cvodea.c: In function ‘CVAhermiteStorePnt’:
cvodea.c:2445:11: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable]
 2445 |   int is, retval;
      |           ^~~~~~
cvodea.c: In function ‘CVArhsQ’:
cvodea.c:2941:7: warning: variable ‘flag’ set but not used [-Wunused-but-set-variable]
 2941 |   int flag, retval;
      |       ^~~~
cvodea.c: In function ‘CVAhermiteGetY’:
cvodea.c:2572:7: warning: ‘ySd0’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 2572 |       N_VLinearSum(ONE, YS[0][is], -delta, ySd0[is], YS[0][is]);
      |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cvodea.c:2591:5: warning: ‘yS0’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 2591 |     N_VLinearSum(ONE, yS0[is], factor1, ySd0[is], yS[is]);
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
cvodea.c: In function ‘CVodeB’:
cvodea.c:1263:13: warning: ‘flag’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1263 |   int sign, flag;
      |             ^~~~
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodea_io.c -o cvodea_io.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes.c -o cvodes.o
cvodes.c: In function ‘cvHin’:
cvodes.c:4318:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
 4318 |       if (count1 <= 2)
      |       ^~
cvodes.c:4320:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
 4320 |         if (retval == QRHSFUNC_RECVR) return(CV_REPTD_QRHSFUNC_ERR);
      |         ^~
cvodes.c: In function ‘cvQuadSensRhs1InternalDQ’:
cvodes.c:8834:20: warning: variable ‘rDeltap’ set but not used [-Wunused-but-set-variable]
 8834 |   realtype Deltap, rDeltap;
      |                    ^~~~~~~
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_band.c -o cvodes_band.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_bandpre.c -o cvodes_bandpre.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_bbdpre.c -o cvodes_bbdpre.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_dense.c -o cvodes_dense.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_diag.c -o cvodes_diag.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_direct.c -o cvodes_direct.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_io.c -o cvodes_io.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_spbcgs.c -o cvodes_spbcgs.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_spgmr.c -o cvodes_spgmr.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_spils.c -o cvodes_spils.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c cvodes_sptfqmr.c -o cvodes_sptfqmr.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c decimal2binary.c -o decimal2binary.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c findStates.c -o findStates.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c fnvector_serial.c -o fnvector_serial.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c getAdjacencyMatrix.c -o getAdjacencyMatrix.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c getNumBits.c -o getNumBits.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c getNumInputs.c -o getNumInputs.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c getStateIndex.c -o getStateIndex.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c getTruthTables.c -o getTruthTables.o
getTruthTables.c: In function ‘getTruthTables’:
getTruthTables.c:17:14: warning: unused variable ‘n’ [-Wunused-variable]
   17 |  int i,j,k,m,n,counter1,input,miniterm;
      |              ^
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c get_count_bits.c -o get_count_bits.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c get_input_index.c -o get_input_index.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c get_support_truth_tables.c -o get_support_truth_tables.o
get_support_truth_tables.c: In function ‘get_support_truth_tables’:
get_support_truth_tables.c:16:10: warning: unused variable ‘k’ [-Wunused-variable]
   16 |  int i,j,k;
      |          ^
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c get_truth_tables_index.c -o get_truth_tables_index.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c hill_function.c -o hill_function.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c linear_transfer_function.c -o linear_transfer_function.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c normHill.c -o normHill.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c normHill_mod.c -o normHill_mod.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c nvector_serial.c -o nvector_serial.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c printAdjMat.c -o printAdjMat.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c printInterMat.c -o printInterMat.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c printNminiTerms.c -o printNminiTerms.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c printTruthTables.c -o printTruthTables.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c rhsODE.c -o rhsODE.o
rhsODE.c:85: warning: "Ith" redefined
   85 | #define Ith(v,i) ( v[i] )
      | 
rhsODE.c:10: note: this is the location of the previous definition
   10 | #define Ith(v,i) ( NV_DATA_S(v)[i] )
      | 
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sim_logic_ode.c -o sim_logic_ode.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c simulateODE.c -o simulateODE.o
simulateODE.c: In function ‘simulateODE’:
simulateODE.c:169:11: warning: implicit declaration of function ‘CVDense’ [-Wimplicit-function-declaration]
  169 |    flag = CVDense(cvode_mem, neq);
      |           ^~~~~~~
simulateODE.c:35:14: warning: variable ‘counter’ set but not used [-Wunused-but-set-variable]
   35 |  int i,j,neq,counter,flag;
      |              ^~~~~~~
simulateODE.c:255:4: warning: ‘tout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  255 |    rhsODEF(tout,y0,ydot0, data);
      |    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_band.c -o sundials_band.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_dense.c -o sundials_dense.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_direct.c -o sundials_direct.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_iterative.c -o sundials_iterative.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_math.c -o sundials_math.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_nvector.c -o sundials_nvector.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_spbcgs.c -o sundials_spbcgs.o
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_spgmr.c -o sundials_spgmr.o
sundials_spgmr.c: In function ‘SpgmrFree’:
sundials_spgmr.c:439:29: warning: variable ‘yg’ set but not used [-Wunused-but-set-variable]
  439 |   realtype **Hes, *givens, *yg;
      |                             ^~
sundials_spgmr.c:439:20: warning: variable ‘givens’ set but not used [-Wunused-but-set-variable]
  439 |   realtype **Hes, *givens, *yg;
      |                    ^~~~~~
gcc -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include  -I./include  -fpic  -g -O2  -Wall -c sundials_sptfqmr.c -o sundials_sptfqmr.o
gcc -shared -L/home/biocbuild/bbs-3.12-bioc/R/lib -L/usr/local/lib -o CNORode.so FG_transfer_function.o cvodea.o cvodea_io.o cvodes.o cvodes_band.o cvodes_bandpre.o cvodes_bbdpre.o cvodes_dense.o cvodes_diag.o cvodes_direct.o cvodes_io.o cvodes_spbcgs.o cvodes_spgmr.o cvodes_spils.o cvodes_sptfqmr.o decimal2binary.o findStates.o fnvector_serial.o getAdjacencyMatrix.o getNumBits.o getNumInputs.o getStateIndex.o getTruthTables.o get_count_bits.o get_input_index.o get_support_truth_tables.o get_truth_tables_index.o hill_function.o linear_transfer_function.o normHill.o normHill_mod.o nvector_serial.o printAdjMat.o printInterMat.o printNminiTerms.o printTruthTables.o rhsODE.o sim_logic_ode.o simulateODE.o sundials_band.o sundials_dense.o sundials_direct.o sundials_iterative.o sundials_math.o sundials_nvector.o sundials_spbcgs.o sundials_spgmr.o sundials_sptfqmr.o -L/home/biocbuild/bbs-3.12-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.12-bioc/R/library/00LOCK-CNORode/00new/CNORode/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (CNORode)

Tests output


Example timings

CNORode.Rcheck/CNORode-Ex.timings

nameusersystemelapsed
createLBodeContPars0.0090.0000.009
crossvalidateODE0.0020.0000.002
getLBodeContObjFunction0.0110.0040.015
getLBodeDataSim0.0050.0040.009
getLBodeMINLPObjFunction0.0130.0000.013
getLBodeModelSim0.0220.0040.026
minlpLBodeSSm000
parEstimationLBode7.2680.0997.387
parEstimationLBodeGA2.9930.0323.033
parEstimationLBodeSSm000
plotLBodeFitness0.8280.0440.893
plotLBodeModelSim0.5170.0600.577
runCNORode0.0000.0010.000
simdata2cnolist0.0160.0020.019
simulate0.0140.0000.013