Attila Gabor
| Snapshot Date: 2024-11-24 13:40 -0500 (Sun, 24 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/CNORode |
| git_branch: devel |
| git_last_commit: 851f051 |
| git_last_commit_date: 2024-10-29 09:43:02 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-11-25 11:38 -0500 (Mon, 25 Nov 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" | 4748 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4459 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4349 |
| 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 385/2272 | 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 | | ||||||||
|
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: rm -rf CNORode.buildbin-libdir && mkdir CNORode.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=CNORode.buildbin-libdir CNORode_1.49.0.tar.gz |
| StartedAt: 2024-11-25 06:47:30 -0500 (Mon, 25 Nov 2024) |
| EndedAt: 2024-11-25 06:48:06 -0500 (Mon, 25 Nov 2024) |
| EllapsedTime: 36.3 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: CNORode_1.49.0.zip |
| PackageFileSize: 303.6 KiB |
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### Running command:
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### rm -rf CNORode.buildbin-libdir && mkdir CNORode.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=CNORode.buildbin-libdir CNORode_1.49.0.tar.gz
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* 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/meat/CNORode.buildbin-libdir/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
* MD5 sums
packaged installation of 'CNORode' as CNORode_1.49.0.zip
* DONE (CNORode)