Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:41 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 385/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
CNORode 1.49.0 (landing page) Attila Gabor
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the CNORode package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CNORode.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: CNORode |
Version: 1.49.0 |
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:CNORode.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings CNORode_1.49.0.tar.gz |
StartedAt: 2024-12-23 23:21:20 -0500 (Mon, 23 Dec 2024) |
EndedAt: 2024-12-23 23:23:00 -0500 (Mon, 23 Dec 2024) |
EllapsedTime: 99.4 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: CNORode.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:CNORode.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings CNORode_1.49.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/CNORode.Rcheck' * using R Under development (unstable) (2024-10-26 r87273 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'CNORode/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'CNORode' version '1.49.0' * 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 whether package 'CNORode' can be installed ... OK * used C compiler: 'gcc.exe (GCC) 13.3.0' * checking installed package size ... OK * 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 code 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 '::' or ':::' import not declared from: 'MEIGOR' 'loadNamespace' or 'requireNamespace' call not declared from: 'MEIGOR' * 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' 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' runCNORode: no visible global function definition for 'pdf' runCNORode: no visible global function definition for 'dev.off' Undefined global functions or variables: dev.off error essR lines par pdf plot.new 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 ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: CNORode-package.Rd: CellNOptR defaultParametersGA.Rd: CellNOptR defaultParametersSSm.Rd: CellNOptR getLBodeContObjFunction.Rd: CellNOptR getLBodeDataSim.Rd: CellNOptR getLBodeMINLPObjFunction.Rd: CellNOptR getLBodeModelSim.Rd: CellNOptR getLBodeSimFunction.Rd: CellNOptR incidence2Adjacency.Rd: CellNOptR minlpLBodeSSm.Rd: CellNOptR parEstimationLBode.Rd: CellNOptR, rbga parEstimationLBodeGA.Rd: CellNOptR, rbga parEstimationLBodeSSm.Rd: CellNOptR plotLBodeFitness.Rd: CellNOptR plotLBodeModelSim.Rd: CellNOptR runCNORode.Rd: preprocessing simdata2cnolist.Rd: CellNOptR simulate.Rd: CellNOptR Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 ... 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 ... 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 for x64 is not available File 'E:/biocbuild/bbs-3.21-bioc/R/library/CNORode/libs/x64/CNORode.dll': Found '_exit', possibly from '_exit' (C) Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Found 'putchar', possibly from 'putchar' (C) Found 'puts', possibly from 'printf' (C), 'puts' (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 nor [v]sprintf. 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 8.9 0.19 9.09 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 WARNING, 4 NOTEs See 'E:/biocbuild/bbs-3.21-bioc/meat/CNORode.Rcheck/00check.log' for details.
CNORode.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL CNORode ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library' * installing *source* package 'CNORode' ... ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.3.0' gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FG_transfer_function.c -o FG_transfer_function.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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:2569:7: warning: 'yS0' may be used uninitialized [-Wmaybe-uninitialized] 2569 | N_VLinearSum(ONE, yS1[is], -ONE, yS0[is], YS[0][is]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cvodea.c:2507:13: note: 'yS0' was declared here 2507 | N_Vector *yS0, *ySd0, *yS1, *ySd1; | ^~~ cvodea.c:2570:7: warning: 'ySd0' may be used uninitialized [-Wmaybe-uninitialized] 2570 | N_VLinearSum(ONE, ySd1[is], ONE, ySd0[is], YS[1][is]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cvodea.c:2507:19: note: 'ySd0' was declared here 2507 | N_Vector *yS0, *ySd0, *yS1, *ySd1; | ^~~~ gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodea_io.c -o cvodea_io.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_band.c -o cvodes_band.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_bandpre.c -o cvodes_bandpre.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_bbdpre.c -o cvodes_bbdpre.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_dense.c -o cvodes_dense.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_diag.c -o cvodes_diag.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_direct.c -o cvodes_direct.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_io.c -o cvodes_io.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_spbcgs.c -o cvodes_spbcgs.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_spgmr.c -o cvodes_spgmr.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_spils.c -o cvodes_spils.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cvodes_sptfqmr.c -o cvodes_sptfqmr.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c decimal2binary.c -o decimal2binary.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findStates.c -o findStates.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fnvector_serial.c -o fnvector_serial.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getAdjacencyMatrix.c -o getAdjacencyMatrix.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getNumBits.c -o getNumBits.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getNumInputs.c -o getNumInputs.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getStateIndex.c -o getStateIndex.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c getTruthTables.c -o getTruthTables.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_count_bits.c -o get_count_bits.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_input_index.c -o get_input_index.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_support_truth_tables.c -o get_support_truth_tables.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c get_truth_tables_index.c -o get_truth_tables_index.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hill_function.c -o hill_function.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c linear_transfer_function.c -o linear_transfer_function.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c normHill.c -o normHill.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c normHill_mod.c -o normHill_mod.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c nvector_serial.c -o nvector_serial.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c printAdjMat.c -o printAdjMat.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c printInterMat.c -o printInterMat.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c printNminiTerms.c -o printNminiTerms.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c printTruthTables.c -o printTruthTables.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rhsODE.c -o rhsODE.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sim_logic_ode.c -o sim_logic_ode.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c simulateODE.c -o simulateODE.o simulateODE.c: In function 'simulateODE': simulateODE.c:37:21: warning: variable 'counter' set but not used [-Wunused-but-set-variable] 37 | int i,j,neq,counter,flag; | ^~~~~~~ simulateODE.c:250:5: warning: 'tout' may be used uninitialized [-Wmaybe-uninitialized] 250 | rhsODEF(tout,yf,ydotf, data); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ simulateODE.c:38:18: note: 'tout' was declared here 38 | realtype tout, ti, tf; | ^~~~ gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_band.c -o sundials_band.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_dense.c -o sundials_dense.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_direct.c -o sundials_direct.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_iterative.c -o sundials_iterative.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_math.c -o sundials_math.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_nvector.c -o sundials_nvector.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_spbcgs.c -o sundials_spbcgs.o gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -I./include -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sundials_sptfqmr.c -o sundials_sptfqmr.o gcc -shared -s -static-libgcc -o CNORode.dll tmp.def 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 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-CNORode/00new/CNORode/libs/x64 ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (CNORode)
CNORode.Rcheck/CNORode-Ex.timings
name | user | system | elapsed | |
createLBodeContPars | 0.01 | 0.00 | 0.01 | |
getLBodeContObjFunction | 0.04 | 0.00 | 0.03 | |
getLBodeDataSim | 0.02 | 0.00 | 0.02 | |
getLBodeMINLPObjFunction | 0.01 | 0.00 | 0.01 | |
getLBodeModelSim | 0.02 | 0.00 | 0.02 | |
minlpLBodeSSm | 0 | 0 | 0 | |
parEstimationLBode | 8.90 | 0.19 | 9.09 | |
parEstimationLBodeGA | 3.49 | 0.13 | 3.63 | |
parEstimationLBodeSSm | 0 | 0 | 0 | |
plotLBodeFitness | 0.75 | 0.03 | 0.78 | |
plotLBodeModelSim | 0.40 | 0.01 | 0.42 | |
runCNORode | 0 | 0 | 0 | |
simdata2cnolist | 0.04 | 0.00 | 0.03 | |
simulate | 0.01 | 0.00 | 0.02 | |