Mock Version: 1.2.20 ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/R-pbdNCDF4.spec'], logger=user='mockbuild'chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-3929/root'gid=135uid=1001printOutput=Falsetimeout=0shell=Falseenv={'HOSTNAME': 'mock', 'LANG': 'en_US.UTF-8', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'TERM': 'vt100', 'PS1': ' \\s-\\v\\$ '}) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/R-pbdNCDF4.spec'] with env {'HOSTNAME': 'mock', 'LANG': 'en_US.UTF-8', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'TERM': 'vt100', 'PS1': ' \\s-\\v\\$ '} and shell False warning: Could not canonicalize hostname: copr-builder-286264735.novalocal Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/R-pbdNCDF4-0.1.4-3.el7.centos.src.rpm Child return code was: 0 ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/R-pbdNCDF4.spec'], logger=user='mockbuild'chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-3929/root'private_network=Truegid=135uid=1001printOutput=Falsetimeout=0shell=Falseenv={'HOSTNAME': 'mock', 'LANG': 'en_US.UTF-8', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'TERM': 'vt100', 'PS1': ' \\s-\\v\\$ '}) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/R-pbdNCDF4.spec'] with env {'HOSTNAME': 'mock', 'LANG': 'en_US.UTF-8', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'HOME': '/builddir', 'SHELL': '/bin/bash', 'TERM': 'vt100', 'PS1': ' \\s-\\v\\$ '} and shell False Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.iE6Tvi + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf pbdNCDF4 + /usr/bin/mkdir -p pbdNCDF4 + cd pbdNCDF4 + /usr/bin/gzip -dc /builddir/build/SOURCES/pbdNCDF4_0.1-4.tar.gz + /usr/bin/tar -xf - + STATUS=0 + '[' 0 -ne 0 ']' + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #1 (pdbncdf4-mpi.patch): + echo 'Patch #1 (pdbncdf4-mpi.patch):' + /usr/bin/patch -p1 --fuzz=0 + /usr/bin/cat /builddir/build/SOURCES/pdbncdf4-mpi.patch patching file pbdNCDF4/src/pncdf4.c + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.POnTVJ + umask 022 + cd /builddir/build/BUILD + cd pbdNCDF4 + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.Npsfmb + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 ++ dirname /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 + cd pbdNCDF4 + mkdir -p /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64/usr/lib64/R/library + . /etc/profile.d/modules.sh ++++ /bin/ps -p 7754 -ocomm= +++ /bin/basename sh ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ MODULESHOME=/usr/share/Modules +++ export MODULESHOME +++ '[' '' = '' ']' +++ LOADEDMODULES= +++ export LOADEDMODULES +++ '[' /usr/share/Modules/modulefiles:/etc/modulefiles = '' ']' + module load mpi/openmpi-x86_64 ++ /usr/bin/modulecmd sh load mpi/openmpi-x86_64 + eval LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ';export' 'LD_LIBRARY_PATH;LOADEDMODULES=mpi/openmpi-x86_64' ';export' 'LOADEDMODULES;MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/man:/usr/local/share/man' ';export' 'MANPATH;MPI_BIN=/usr/lib64/openmpi/bin' ';export' 'MPI_BIN;MPI_COMPILER=openmpi-x86_64' ';export' 'MPI_COMPILER;MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi-x86_64' ';export' 'MPI_FORTRAN_MOD_DIR;MPI_HOME=/usr/lib64/openmpi' ';export' 'MPI_HOME;MPI_INCLUDE=/usr/include/openmpi-x86_64' ';export' 'MPI_INCLUDE;MPI_LIB=/usr/lib64/openmpi/lib' ';export' 'MPI_LIB;MPI_MAN=/usr/share/man/openmpi-x86_64' ';export' 'MPI_MAN;MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi' ';export' 'MPI_PYTHON_SITEARCH;MPI_SUFFIX=_openmpi' ';export' 'MPI_SUFFIX;MPI_SYSCONFIG=/etc/openmpi-x86_64' ';export' 'MPI_SYSCONFIG;PATH=/usr/lib64/openmpi/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin:/builddir/.local/bin:/builddir/bin' ';export' 'PATH;PYTHONPATH=/usr/lib64/python2.7/site-packages/openmpi' ';export' 'PYTHONPATH;_LMFILES_=/etc/modulefiles/mpi/openmpi-x86_64' ';export' '_LMFILES_;' ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ LOADEDMODULES=mpi/openmpi-x86_64 ++ export LOADEDMODULES ++ MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/man:/usr/local/share/man ++ export MANPATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ MPI_COMPILER=openmpi-x86_64 ++ export MPI_COMPILER ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi-x86_64 ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_INCLUDE=/usr/include/openmpi-x86_64 ++ export MPI_INCLUDE ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ MPI_MAN=/usr/share/man/openmpi-x86_64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi ++ export MPI_PYTHON_SITEARCH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-x86_64 ++ export MPI_SYSCONFIG ++ PATH=/usr/lib64/openmpi/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin:/builddir/.local/bin:/builddir/bin ++ export PATH ++ PYTHONPATH=/usr/lib64/python2.7/site-packages/openmpi ++ export PYTHONPATH ++ _LMFILES_=/etc/modulefiles/mpi/openmpi-x86_64 ++ export _LMFILES_ + export 'CFLAGS= -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + CFLAGS=' -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + OMPI_MCA_orte_allocation_required=0 + /usr/bin/R CMD INSTALL --no-test-load --configure-args=--enable-parallel -l /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64/usr/lib64/R/library pbdNCDF4 * installing *source* package 'pbdNCDF4' ... file 'src/pncdf4.c' has the wrong MD5 checksum checking for nc-config... yes Package netcdf was not found in the pkg-config search path. Perhaps you should add the directory containing `netcdf.pc' to the PKG_CONFIG_PATH environment variable No package 'netcdf' found Netcdf library version: netCDF 4.3.3.1 Netcdf library has version 4 interface present: yes Netcdf library was compiled with C compiler: mpicc configure: creating ./config.status config.status: creating src/Makevars configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/zzz.R ****************** Results of ncdf4 package configure ******************* SPMD_CPPFLAGS = -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI SPMD_LDFLAGS = -L/usr/lib64/openmpi/lib -lmpi -lutil -lpthread NETCDF_HEADER = /usr/include/netcdf_par.h NETCDF_INCLUDE = 0 NETCDF_PAR = TRUE NETCDF_PAR_OBJS = pncdf4.o netCDF v4 CPP flags = -I/usr/include -I/usr/include/hdf netCDF v4 LD flags = netCDF v4 runtime path = ************************************************************************* ** libs echo "SPMD_CPPFLAGS = -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI" > Makeconf echo "SPMD_LDFLAGS = -L/usr/lib64/openmpi/lib -lmpi -lutil -lpthread" >> Makeconf echo "NETCDF_HEADER = /usr/include/netcdf_par.h" >> Makeconf echo "NETCDF_INCLUDE = 0" >> Makeconf echo "NETCDF_PAR = TRUE" >> Makeconf echo "NETCDF_PAR_OBJS = pncdf4.o" >> Makeconf echo "NETCDF_CPPFLAGS = -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0" >> Makeconf echo "NETCDF_LDFLAGS = " >> Makeconf echo "NETCDF_RPATH = " >> Makeconf echo "HAVE_NETCDF = TRUE" >> Makeconf echo "PKG_CPPFLAGS = -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI" >> Makeconf echo "PKG_LIBS = -L/usr/lib64/openmpi/lib -lmpi -lutil -lpthread" >> Makeconf gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c ncdf2.c -o ncdf2.o gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c ncdf3.c -o ncdf3.o ncdf3.c: In function 'R_nc4_get_vara_numvarid': ncdf3.c:249:42: warning: variable 'sx_ncdf_var' set but not used [-Wunused-but-set-variable] SEXP rv_data = R_NilValue /* -Wall */, sx_ncdf_var, sx_dim; ^ ncdf3.c: In function 'R_nc4_get_vara_string': ncdf3.c:497:15: warning: variable 'nchar' set but not used [-Wunused-but-set-variable] int i, ierr, nchar, varid, ncid, ndims, count_int[MAX_NC_DIMS], start_int[MAX_NC_DIMS], len_count, len_start; ^ gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c ncdf.c -o ncdf.o ncdf.c: In function 'R_nc4_put_att_text': ncdf.c:626:10: warning: variable 'ttc' set but not used [-Wunused-but-set-variable] nc_type ttc; ^ gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c src_ncdf4.c -o src_ncdf4.o gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/include -I/usr/include/hdf -DNETCDF_INCLUDE=0 -I/usr/include/openmpi-x86_64 -DMPI2 -DOPENMPI -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -c pncdf4.c -o pncdf4.o pncdf4.c: In function 'R_nc4_open_par': pncdf4.c:21:6: warning: variable 'nc_mode' set but not used [-Wunused-but-set-variable] int nc_mode; ^ gcc -m64 -std=gnu99 -shared -L/usr/lib64/R/lib -Wl,-z,relro -o pbdNCDF4.so ncdf2.o ncdf3.o ncdf.o src_ncdf4.o pncdf4.o -L/usr/lib64/openmpi/lib -lmpi -lutil -lpthread -L/usr/lib64/R/lib -lR installing via 'install.libs.R' to /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64/usr/lib64/R/library/pbdNCDF4 ** R ** demo ** inst ** preparing package for lazy loading ** help *** installing help indices converting help for package 'pbdNCDF4' finding HTML links ... done 00_pbdNCDF4-package html 01_nc_create_par html 01_nc_open_par html 01_nc_var_par_access html 02_ncdump html ancdf4 html ancvar_put html nc_close html nc_create html nc_enddef html nc_open html nc_redef html nc_sync html nc_version html ncatt_get html ncatt_put html ncdf4-internal html ncdim_def html ncvar_add html ncvar_change_missval html ncvar_def html ncvar_get html ncvar_rename html print.ncdf4 html ** building package indices ** installing vignettes 'pbdNCDF4-guide.Rnw' * DONE (pbdNCDF4) + test -d pbdNCDF4/src + cd pbdNCDF4/src + rm -f ncdf.o ncdf2.o ncdf3.o pncdf4.o src_ncdf4.o pbdNCDF4.so + rm -f /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64/usr/lib64/R/library/R.css + /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 /builddir/build/BUILD/pbdNCDF4 extracting debug info from /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64/usr/lib64/R/library/pbdNCDF4/libs/pbdNCDF4.so dwz: Too few files for multifile optimization /usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.f3QyJI 133 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-compress + /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/lib/rpm/redhat/brp-java-repack-jars + umask 022 + cd /builddir/build/BUILD + cd pbdNCDF4 + . /etc/profile.d/modules.sh ++++ /bin/ps -p 8345 -ocomm= +++ /bin/basename sh ++ shell=sh ++ '[' -f /usr/share/Modules/init/sh ']' ++ . /usr/share/Modules/init/sh +++ MODULESHOME=/usr/share/Modules +++ export MODULESHOME +++ '[' '' = '' ']' +++ LOADEDMODULES= +++ export LOADEDMODULES +++ '[' /usr/share/Modules/modulefiles:/etc/modulefiles = '' ']' + module load mpi/openmpi-x86_64 ++ /usr/bin/modulecmd sh load mpi/openmpi-x86_64 + eval LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ';export' 'LD_LIBRARY_PATH;LOADEDMODULES=mpi/openmpi-x86_64' ';export' 'LOADEDMODULES;MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/man:/usr/local/share/man' ';export' 'MANPATH;MPI_BIN=/usr/lib64/openmpi/bin' ';export' 'MPI_BIN;MPI_COMPILER=openmpi-x86_64' ';export' 'MPI_COMPILER;MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi-x86_64' ';export' 'MPI_FORTRAN_MOD_DIR;MPI_HOME=/usr/lib64/openmpi' ';export' 'MPI_HOME;MPI_INCLUDE=/usr/include/openmpi-x86_64' ';export' 'MPI_INCLUDE;MPI_LIB=/usr/lib64/openmpi/lib' ';export' 'MPI_LIB;MPI_MAN=/usr/share/man/openmpi-x86_64' ';export' 'MPI_MAN;MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi' ';export' 'MPI_PYTHON_SITEARCH;MPI_SUFFIX=_openmpi' ';export' 'MPI_SUFFIX;MPI_SYSCONFIG=/etc/openmpi-x86_64' ';export' 'MPI_SYSCONFIG;PATH=/usr/lib64/openmpi/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin:/builddir/.local/bin:/builddir/bin' ';export' 'PATH;PYTHONPATH=/usr/lib64/python2.7/site-packages/openmpi' ';export' 'PYTHONPATH;_LMFILES_=/etc/modulefiles/mpi/openmpi-x86_64' ';export' '_LMFILES_;' ++ LD_LIBRARY_PATH=/usr/lib64/openmpi/lib ++ export LD_LIBRARY_PATH ++ LOADEDMODULES=mpi/openmpi-x86_64 ++ export LOADEDMODULES ++ MANPATH=/usr/share/man/openmpi-x86_64:/usr/share/man:/usr/local/share/man ++ export MANPATH ++ MPI_BIN=/usr/lib64/openmpi/bin ++ export MPI_BIN ++ MPI_COMPILER=openmpi-x86_64 ++ export MPI_COMPILER ++ MPI_FORTRAN_MOD_DIR=/usr/lib64/gfortran/modules/openmpi-x86_64 ++ export MPI_FORTRAN_MOD_DIR ++ MPI_HOME=/usr/lib64/openmpi ++ export MPI_HOME ++ MPI_INCLUDE=/usr/include/openmpi-x86_64 ++ export MPI_INCLUDE ++ MPI_LIB=/usr/lib64/openmpi/lib ++ export MPI_LIB ++ MPI_MAN=/usr/share/man/openmpi-x86_64 ++ export MPI_MAN ++ MPI_PYTHON_SITEARCH=/usr/lib64/python2.7/site-packages/openmpi ++ export MPI_PYTHON_SITEARCH ++ MPI_SUFFIX=_openmpi ++ export MPI_SUFFIX ++ MPI_SYSCONFIG=/etc/openmpi-x86_64 ++ export MPI_SYSCONFIG ++ PATH=/usr/lib64/openmpi/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin:/builddir/.local/bin:/builddir/bin ++ export PATH ++ PYTHONPATH=/usr/lib64/python2.7/site-packages/openmpi ++ export PYTHONPATH ++ _LMFILES_=/etc/modulefiles/mpi/openmpi-x86_64 ++ export _LMFILES_ + export 'CFLAGS= -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + CFLAGS=' -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + OMPI_MCA_orte_allocation_required=0 + /usr/bin/R CMD check --no-install pbdNCDF4 * using log directory '/builddir/build/BUILD/pbdNCDF4/pbdNCDF4.Rcheck' * using R version 3.3.1 (2016-06-21) * using platform: x86_64-redhat-linux-gnu (64-bit) * using session charset: ASCII * using option '--no-install' * checking for file 'pbdNCDF4/DESCRIPTION' ... OK * this is package 'pbdNCDF4' version '0.1-4' * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking package 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 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 line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... NOTE Package has both 'src/Makevars.in' and 'src/Makevars'. Installation with --no-configure' is unlikely to work. If you intended 'src/Makevars' to be used on Windows, rename it to 'src/Makevars.win' otherwise remove it. If 'configure' created 'src/Makevars', you need a 'cleanup' script. * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking files in 'vignettes' ... OK * checking examples ... SKIPPED * 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: 1 NOTE See '/builddir/build/BUILD/pbdNCDF4/pbdNCDF4.Rcheck/00check.log' for details. + exit 0 Processing files: R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 Provides: R-pbdNCDF4 = 0.1.4-3.el7.centos R-pbdNCDF4(x86-64) = 0.1.4-3.el7.centos Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libmpi.so.12()(64bit) libpthread.so.0()(64bit) libutil.so.1()(64bit) rtld(GNU_HASH) Processing files: R-pbdNCDF4-debuginfo-0.1.4-3.el7.centos.x86_64 Provides: R-pbdNCDF4-debuginfo = 0.1.4-3.el7.centos R-pbdNCDF4-debuginfo(x86-64) = 0.1.4-3.el7.centos Requires(rpmlib): rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 rpmlib(CompressedFileNames) <= 3.0.4-1 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 Wrote: /builddir/build/RPMS/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64.rpm Wrote: /builddir/build/RPMS/R-pbdNCDF4-debuginfo-0.1.4-3.el7.centos.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.5neQoe + umask 022 + cd /builddir/build/BUILD + cd pbdNCDF4 + /usr/bin/rm -rf /builddir/build/BUILDROOT/R-pbdNCDF4-0.1.4-3.el7.centos.x86_64 + exit 0 Child return code was: 0