=> Bootstrap dependency digest>=20211023: found digest-20220214
===> Skipping vulnerability checks.
WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found.
WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'.
===> Installing for plumed-2.8.0
=> Generating pre-install file lists
/usr/pkg/bin/gmake -C src install
gmake[1]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src'
/usr/pkg/bin/gmake -C lib install
gmake[2]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
cd ../config ; /usr/pkg/bin/gmake
gmake[3]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake PLUMED_FORCE=yes ConfigInstall.inc Config.inc version.h config.txt
gmake[4]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
Updating ConfigInstall.inc
cmp -s ConfigInstall.inc~ ConfigInstall.inc || cp ConfigInstall.inc~ ConfigInstall.inc
rm ConfigInstall.inc~
Updating Config.inc
cmp -s Config.inc~ Config.inc || cp Config.inc~ Config.inc
rm Config.inc~
Updating version.h
gmake[4]: 'config.txt' is up to date.
gmake[4]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake Config.o ConfigInstall.o compile_options.sh
gmake[4]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
gmake[4]: 'Config.o' is up to date.
gmake[4]: 'ConfigInstall.o' is up to date.
gmake[4]: 'compile_options.sh' is up to date.
gmake[4]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
gmake[3]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
# /usr/pkg/bin/gmake uninstall
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/bin"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/pkgconfig"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/include/plumed"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/obj"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/config"
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/colvar"
/usr/pkg/bin/gmake install-build
gmake[3]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
mkdir -p install/
/usr/pkg/bin/gmake PLUMED_INSTALL=Install all
gmake[4]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake dirslinks
gmake[5]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
*** Updating links to used modules in all directories ***
/usr/pkg/bin/gmake ../analysis.links ../asmjit.links ../bias.links ../blas.links ../cltools.links ../colvar.links ../config.links ../core.links ../function.links ../generic.links ../gridtools.links ../isdb.links ../lapack.links ../lepton.links ../main.links ../mapping.links ../molfile.links ../multicolvar.links ../reference.links ../secondarystructure.links ../setup.links ../tools.links ../vatom.links ../vesselbase.links ../wrapper.links ../xdrfile.links
gmake[6]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake -C ../analysis links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/analysis'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/analysis
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/analysis'
/usr/pkg/bin/gmake -C ../asmjit links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/asmjit'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/asmjit
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/asmjit'
/usr/pkg/bin/gmake -C ../bias links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/bias'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/bias
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/bias'
/usr/pkg/bin/gmake -C ../blas links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/blas'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/blas
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/blas'
/usr/pkg/bin/gmake -C ../cltools links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/cltools'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/cltools
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/cltools'
/usr/pkg/bin/gmake -C ../colvar links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/colvar'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/colvar
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/colvar'
/usr/pkg/bin/gmake -C ../config links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
Nothing to do in /tmp/math/plumed/work/plumed-2.8.0/src/config
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake -C ../core links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/core'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/core
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/core'
/usr/pkg/bin/gmake -C ../function links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/function'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/function
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/function'
/usr/pkg/bin/gmake -C ../generic links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/generic'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/generic
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/generic'
/usr/pkg/bin/gmake -C ../gridtools links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/gridtools'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/gridtools
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/gridtools'
/usr/pkg/bin/gmake -C ../isdb links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/isdb'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/isdb
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/isdb'
/usr/pkg/bin/gmake -C ../lapack links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lapack'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/lapack
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lapack'
/usr/pkg/bin/gmake -C ../lepton links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lepton'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/lepton
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lepton'
/usr/pkg/bin/gmake -C ../main links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/main'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/main
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/main'
/usr/pkg/bin/gmake -C ../mapping links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/mapping'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/mapping
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/mapping'
/usr/pkg/bin/gmake -C ../molfile links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/molfile'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/molfile
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/molfile'
/usr/pkg/bin/gmake -C ../multicolvar links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/multicolvar'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/multicolvar
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/multicolvar'
/usr/pkg/bin/gmake -C ../reference links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/reference'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/reference
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/reference'
/usr/pkg/bin/gmake -C ../secondarystructure links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/secondarystructure'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/secondarystructure
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/secondarystructure'
/usr/pkg/bin/gmake -C ../setup links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/setup'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/setup
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/setup'
/usr/pkg/bin/gmake -C ../tools links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/tools'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/tools
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/tools'
/usr/pkg/bin/gmake -C ../vatom links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/vatom'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/vatom
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/vatom'
/usr/pkg/bin/gmake -C ../vesselbase links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/vesselbase'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/vesselbase
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/vesselbase'
/usr/pkg/bin/gmake -C ../wrapper links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/wrapper'
Nothing to do in /tmp/math/plumed/work/plumed-2.8.0/src/wrapper
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/wrapper'
/usr/pkg/bin/gmake -C ../xdrfile links
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/xdrfile'
Verify modules and create links in /tmp/math/plumed/work/plumed-2.8.0/src/xdrfile
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/xdrfile'
gmake[6]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[5]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake dirs
gmake[5]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
*** Compiling all directories ***
/usr/pkg/bin/gmake ../analysis ../asmjit ../bias ../blas ../cltools ../colvar ../config ../core ../function ../generic ../gridtools ../isdb ../lapack ../lepton ../main ../mapping ../molfile ../multicolvar ../reference ../secondarystructure ../setup ../tools ../vatom ../vesselbase ../wrapper ../xdrfile
gmake[6]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake -C ../analysis obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/analysis'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/analysis'
/usr/pkg/bin/gmake -C ../asmjit obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/asmjit'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/asmjit'
/usr/pkg/bin/gmake -C ../bias obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/bias'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/bias'
/usr/pkg/bin/gmake -C ../blas obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/blas'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/blas'
/usr/pkg/bin/gmake -C ../cltools obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/cltools'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/cltools'
/usr/pkg/bin/gmake -C ../colvar obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/colvar'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/colvar'
/usr/pkg/bin/gmake -C ../config obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake PLUMED_FORCE=yes ConfigInstall.inc Config.inc version.h config.txt
gmake[8]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
Updating ConfigInstall.inc
cmp -s ConfigInstall.inc~ ConfigInstall.inc || cp ConfigInstall.inc~ ConfigInstall.inc
rm ConfigInstall.inc~
Updating Config.inc
cmp -s Config.inc~ Config.inc || cp Config.inc~ Config.inc
rm Config.inc~
Updating version.h
gmake[8]: 'config.txt' is up to date.
gmake[8]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake Config.o ConfigInstall.o compile_options.sh
gmake[8]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
gmake[8]: 'Config.o' is up to date.
gmake[8]: 'ConfigInstall.o' is up to date.
gmake[8]: 'compile_options.sh' is up to date.
gmake[8]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/config'
/usr/pkg/bin/gmake -C ../core obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/core'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/core'
/usr/pkg/bin/gmake -C ../function obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/function'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/function'
/usr/pkg/bin/gmake -C ../generic obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/generic'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/generic'
/usr/pkg/bin/gmake -C ../gridtools obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/gridtools'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/gridtools'
/usr/pkg/bin/gmake -C ../isdb obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/isdb'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/isdb'
/usr/pkg/bin/gmake -C ../lapack obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lapack'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lapack'
/usr/pkg/bin/gmake -C ../lepton obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lepton'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lepton'
/usr/pkg/bin/gmake -C ../main obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/main'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/main'
/usr/pkg/bin/gmake -C ../mapping obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/mapping'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/mapping'
/usr/pkg/bin/gmake -C ../molfile obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/molfile'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/molfile'
/usr/pkg/bin/gmake -C ../multicolvar obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/multicolvar'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/multicolvar'
/usr/pkg/bin/gmake -C ../reference obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/reference'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/reference'
/usr/pkg/bin/gmake -C ../secondarystructure obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/secondarystructure'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/secondarystructure'
/usr/pkg/bin/gmake -C ../setup obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/setup'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/setup'
/usr/pkg/bin/gmake -C ../tools obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/tools'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/tools'
/usr/pkg/bin/gmake -C ../vatom obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/vatom'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/vatom'
/usr/pkg/bin/gmake -C ../vesselbase obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/vesselbase'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/vesselbase'
/usr/pkg/bin/gmake -C ../wrapper obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/wrapper'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/wrapper'
/usr/pkg/bin/gmake -C ../xdrfile obj
gmake[7]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/xdrfile'
gmake[7]: Nothing to be done for 'obj'.
gmake[7]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/xdrfile'
gmake[6]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[5]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake lib-static
gmake[5]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
Building Plumed.inc
Building Plumed.inc, static version
Building Plumed.cmake
Building Plumed.cmake, static version
chmod a+x install/plumed-config
chmod a+x install/plumed-mklib
chmod a+x install/plumed-newcv
chmod a+x install/plumed-partial_tempering
chmod a+x install/plumed-patch
chmod a+x install/plumed-selector
chmod a+x install/plumed-vim2html
gmake[5]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[4]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake PLUMED_INSTALL=Install install/kernel.o
gmake[4]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[4]: 'install/kernel.o' is up to date.
gmake[4]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake PLUMED_INSTALL=Install install/libplumed.a
gmake[4]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[4]: 'install/libplumed.a' is up to date.
gmake[4]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[3]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
/usr/pkg/bin/gmake install-html
gmake[3]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
if test -d ../../user-doc/html ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed" && cd ../../ && tar cf - user-doc/html | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed/" ; fi
if test -d ../../developer-doc/html ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed" && cd ../../ && tar cf - developer-doc/html | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed/" ; fi
if test -d ../../developer-doc/coverage ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed" && cd ../../ && tar cf - developer-doc/coverage | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed/" ; fi
if test -f ../../user-doc/manual.pdf ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed/user-doc" && cp ../../user-doc/manual.pdf "/tmp/math/plumed/work/.destdir/usr/pkg/share/doc/plumed/user-doc/" ; fi
gmake[3]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
cd ../../ ; tar cf - patches scripts | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/"
cp ../colvar/Template.cpp "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/colvar/"
grep -v "^link_uninstalled=" ../config/compile_options.sh > "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/config/compile_options.sh"
cp ../config/config.txt "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/config/config.txt"
cp install/libplumed.a "/tmp/math/plumed/work/.destdir/usr/pkg/lib/"
/usr/pkg/bin/gmake install-headers
gmake[3]: Entering directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
bash ../maketools/install.headers "/tmp/math/plumed/work/.destdir/usr/pkg/include/plumed/" analysis asmjit bias blas cltools colvar config core function generic gridtools isdb lapack lepton main mapping molfile multicolvar reference secondarystructure setup tools vatom vesselbase wrapper xdrfile
gmake[3]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
cp install/"plumed" "/tmp/math/plumed/work/.destdir/usr/pkg/bin/"
cp install/plumed-patch "/tmp/math/plumed/work/.destdir/usr/pkg/bin/plumed-patch"
cp install/plumed-config "/tmp/math/plumed/work/.destdir/usr/pkg/bin/plumed-config"
cp install/Plumed.cmake* "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/"
cp install/Plumed.inc* "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/"
for file in config mklib newcv partial_tempering patch selector vim2html ; do cp install/plumed-$file "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/plumed-$file" ; done
cp install/modulefile "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/modulefile"
cp install/pkgconfig "/tmp/math/plumed/work/.destdir/usr/pkg/lib/pkgconfig/plumed.pc"
cp install/pkgconfigWrapper "/tmp/math/plumed/work/.destdir/usr/pkg/lib/pkgconfig/plumedWrapper.pc"
cp install/pkgconfigInternals "/tmp/math/plumed/work/.destdir/usr/pkg/lib/pkgconfig/plumedInternals.pc"
if test -d ../../vim/syntax ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed" && cd ../../ && tar cf - vim/syntax | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/" ; fi
if test -d ../../vim/help ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed" && cd ../../ && tar cf - vim/help | tar xf - -C "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/" ; fi
if test -f ../../vim/scripts.vim ; then mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/vim" && cp ../../vim/scripts.vim  "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/vim/" ; fi
mkdir -p "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/fortran"
cp ../../fortran/plumed.f90 "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/fortran/"
cp ../../fortran/plumed_f08.f90 "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/fortran/"
chmod -R go+rX,go-w "/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed"
chmod -R go+rX,go-w "/tmp/math/plumed/work/.destdir/usr/pkg/include/plumed"
chmod -R go+rX,go-w "/tmp/math/plumed/work/.destdir/usr/pkg/bin/plumed"
chmod -R go+rX,go-w "/tmp/math/plumed/work/.destdir/usr/pkg/bin/plumed-patch"

*** PLUMED has been installed ***

WARNING: Staged install with DESTDIR = /tmp/math/plumed/work/.destdir
Install prefix : /usr/pkg
Full name      : plumed

Setup your environment
- Ensure this is in your execution path         : /usr/pkg/bin
- Ensure this is in your include path           : /usr/pkg/include

To create a tcl module that sets all the variables above, use this one as a starting point:
/usr/pkg/lib/plumed/modulefile

To uninstall, remove the following files and directories:
/usr/pkg/lib/plumed
/usr/pkg/share/doc/plumed
/usr/pkg/include/plumed
/usr/pkg/bin/plumed
/usr/pkg/bin/plumed-patch
/usr/pkg/bin/plumed-config
/usr/pkg/lib/pkgconfig/plumed.pc
A vim plugin can be found here: /usr/pkg/lib/plumed/vim/
Copy it to /tmp/math/plumed/work/.home/.vim/ directory
Alternatively:
- Set this environment variable         : PLUMED_VIMPATH=/usr/pkg/lib/plumed/vim
- Add the command 'let &runtimepath.=','.$PLUMED_VIMPATH' to your .vimrc file
From vim, you can use :set syntax=plumed to enable it
gmake[2]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src/lib'
gmake[1]: Leaving directory '/tmp/math/plumed/work/plumed-2.8.0/src'
=> Automatic manual page handling
=> Generating post-install file lists
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumed.so'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumedKernel.so'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumedWrapper.a'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/plumed-runtime'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.cmake.runtime'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.cmake.shared'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.inc.runtime'
pkg_create: can't stat `/tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.inc.shared'
=> Checking file-check results for plumed-2.8.0
ERROR: ************************************************************
ERROR: The following files are in the PLIST but not in /tmp/math/plumed/work/.destdir/usr/pkg:
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumed.so
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumedKernel.so
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/libplumedWrapper.a
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/plumed-runtime
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.cmake.runtime
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.cmake.shared
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.inc.runtime
ERROR:         /tmp/math/plumed/work/.destdir/usr/pkg/lib/plumed/src/lib/Plumed.inc.shared
*** Error code 1

Stop.
make[1]: stopped in /amd/pkgsrc/CHROOT/P/pkgsrc/math/plumed
*** Error code 1

Stop.
make: stopped in /amd/pkgsrc/CHROOT/P/pkgsrc/math/plumed