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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R 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 385/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CNORode 1.49.0  (landing page)
Attila Gabor
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 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)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  

INSTALL results for CNORode on kunpeng2

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: CNORode
Version: 1.49.0
Command: /home/biocbuild/R/R/bin/R CMD INSTALL CNORode
StartedAt: 2024-12-23 20:04:32 -0000 (Mon, 23 Dec 2024)
EndedAt: 2024-12-23 20:04:54 -0000 (Mon, 23 Dec 2024)
EllapsedTime: 22.0 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL CNORode
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’
* installing *source* package ‘CNORode’ ...
** using staged installation
** libs
using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c FG_transfer_function.c -o FG_transfer_function.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -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;
      |                   ^~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodea_io.c -o cvodea_io.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -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;
      |                    ^~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_band.c -o cvodes_band.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_bandpre.c -o cvodes_bandpre.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_bbdpre.c -o cvodes_bbdpre.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_dense.c -o cvodes_dense.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_diag.c -o cvodes_diag.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_direct.c -o cvodes_direct.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_io.c -o cvodes_io.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_spbcgs.c -o cvodes_spbcgs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_spgmr.c -o cvodes_spgmr.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_spils.c -o cvodes_spils.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c cvodes_sptfqmr.c -o cvodes_sptfqmr.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c decimal2binary.c -o decimal2binary.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c findStates.c -o findStates.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c fnvector_serial.c -o fnvector_serial.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c getAdjacencyMatrix.c -o getAdjacencyMatrix.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c getNumBits.c -o getNumBits.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c getNumInputs.c -o getNumInputs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c getStateIndex.c -o getStateIndex.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c getTruthTables.c -o getTruthTables.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c get_count_bits.c -o get_count_bits.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c get_input_index.c -o get_input_index.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c get_support_truth_tables.c -o get_support_truth_tables.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c get_truth_tables_index.c -o get_truth_tables_index.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c hill_function.c -o hill_function.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c linear_transfer_function.c -o linear_transfer_function.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c normHill.c -o normHill.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c normHill_mod.c -o normHill_mod.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c nvector_serial.c -o nvector_serial.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c printAdjMat.c -o printAdjMat.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c printInterMat.c -o printInterMat.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c printNminiTerms.c -o printNminiTerms.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c printTruthTables.c -o printTruthTables.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c rhsODE.c -o rhsODE.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sim_logic_ode.c -o sim_logic_ode.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -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;
      |                  ^~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_band.c -o sundials_band.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_dense.c -o sundials_dense.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_direct.c -o sundials_direct.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_iterative.c -o sundials_iterative.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_math.c -o sundials_math.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_nvector.c -o sundials_nvector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_spbcgs.c -o sundials_spbcgs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -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;
      |                    ^~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG   -I/usr/local/include   -I./include  -fPIC  -g -O2  -Wall -Werror=format-security -c sundials_sptfqmr.c -o sundials_sptfqmr.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -shared -L/home/biocbuild/R/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/R/R/lib -lR
installing to /home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-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)