+ case "${usergroup_phase}" in + local run_cmd + run_cmd=run_su + shift + run_su /usr/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/plumed-2.8.0nb2/work.log + su pbulk -c '"$@"' make /usr/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/plumed-2.8.0nb2/work.log => Bootstrap dependency digest>=20211023: found digest-20220214 ===> Building for plumed-2.8.0nb2 /bin/make lib make[1]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0' /bin/make -C src make[2]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src' /bin/make -C lib make[3]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' /bin/make dirslinks make[4]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' *** Updating links to used modules in all directories *** /bin/make ../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 make[5]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' /bin/make -C ../analysis links /bin/make -C ../asmjit links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/analysis' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/analysis make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/asmjit' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/asmjit make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/asmjit' /bin/make -C ../bias links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/bias' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/bias make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/bias' /bin/make -C ../blas links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/blas' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/blas make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/blas' /bin/make -C ../cltools links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/cltools' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/cltools make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/analysis' /bin/make -C ../colvar links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/colvar' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/colvar make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/cltools' /bin/make -C ../config links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' Nothing to do in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' /bin/make -C ../core links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/core' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/core make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/colvar' /bin/make -C ../function links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/function' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/function make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/core' /bin/make -C ../generic links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/generic' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/generic make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/function' /bin/make -C ../gridtools links make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/generic' /bin/make -C ../isdb links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/gridtools' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/gridtools make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/isdb' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/isdb make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/gridtools' /bin/make -C ../lapack links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lapack' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lapack make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lapack' /bin/make -C ../lepton links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lepton' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lepton make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lepton' make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/isdb' /bin/make -C ../main links /bin/make -C ../mapping links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/main' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/main make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/mapping' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/mapping make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/main' /bin/make -C ../molfile links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/molfile' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/molfile make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/molfile' /bin/make -C ../multicolvar links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/multicolvar' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/multicolvar make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/mapping' /bin/make -C ../reference links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/reference' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/reference make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/multicolvar' /bin/make -C ../secondarystructure links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/secondarystructure' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/secondarystructure make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/reference' /bin/make -C ../setup links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/setup' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/setup make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/secondarystructure' /bin/make -C ../tools links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/tools' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/tools make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/setup' /bin/make -C ../vatom links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vatom' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vatom make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vatom' /bin/make -C ../vesselbase links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vesselbase' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vesselbase make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/tools' /bin/make -C ../wrapper links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/wrapper' Nothing to do in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/wrapper make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/wrapper' /bin/make -C ../xdrfile links make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/xdrfile' Verify modules and create links in /home/pbulk/build/math/plumed/work/plumed-2.8.0/src/xdrfile make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/xdrfile' make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/vesselbase' make[5]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' make[4]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' /bin/make dirs make[4]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' *** Compiling all directories *** /bin/make ../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 make[5]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' /bin/make -C ../analysis obj /bin/make -C ../asmjit obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/analysis' make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/asmjit' compiling AnalysisBase.cpp compiling arch.cpp compiling assembler.cpp compiling codebuilder.cpp compiling Average.cpp compiling codecompiler.cpp compiling codeemitter.cpp compiling codeholder.cpp compiling constpool.cpp compiling cpuinfo.cpp compiling AverageVessel.cpp compiling func.cpp compiling Committor.cpp compiling DataCollectionObject.cpp compiling EuclideanDissimilarityMatrix.cpp compiling FarthestPointSampling.cpp compiling Histogram.cpp compiling globals.cpp compiling inst.cpp compiling logging.cpp compiling operand.cpp compiling osutils.cpp compiling regalloc.cpp compiling runtime.cpp compiling LandmarkSelectionBase.cpp compiling string.cpp compiling utils.cpp compiling vmem.cpp vmem.cpp:284:13: warning: 'bool PLMD::asmjit::vMemMgrCheckTree(PLMD::asmjit::VMemMgr*)' defined but not used [-Wunused-function] 284 | static bool vMemMgrCheckTree(VMemMgr* self) noexcept { | ^~~~~~~~~~~~~~~~ compiling x86assembler.cpp compiling LandmarkStaged.cpp compiling OutputColvarFile.cpp compiling OutputPDBFile.cpp compiling PrintDissimilarityMatrix.cpp compiling ReadAnalysisFrames.cpp compiling x86builder.cpp compiling ReadDissimilarityMatrix.cpp compiling ReselectLandmarks.cpp compiling SelectRandomFrames.cpp compiling SelectWithStride.cpp compiling x86compiler.cpp compiling WhamHistogram.cpp compiling WhamWeights.cpp make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/analysis' /bin/make -C ../bias obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/bias' compiling ABMD.cpp compiling Bias.cpp compiling BiasValue.cpp compiling ExtendedLagrangian.cpp compiling External.cpp compiling x86inst.cpp compiling x86instimpl.cpp compiling x86internal.cpp compiling LWalls.cpp compiling MaxEnt.cpp compiling MetaD.cpp MetaD.cpp: In constructor 'PLMD::bias::MetaD::MetaD(const PLMD::ActionOptions&)': MetaD.cpp:1232:25: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 1232 | if(result!=0&&result!=mpi_nw_) error("in this WALKERS_MPI run some replica have restarted from GRID while other do not!"); | ~~~~~~^~~~~~~~~ MetaD.cpp:1297:25: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 1297 | if(result!=0&&result!=mpi_nw_) error("in this WALKERS_MPI run some replica have restarted from FILE while other do not!"); | ~~~~~~^~~~~~~~~ compiling x86logging.cpp compiling x86operand.cpp compiling x86operand_regs.cpp compiling x86regalloc.cpp compiling MovingRestraint.cpp compiling PBMetaD.cpp compiling zone.cpp zone.cpp:223:13: warning: 'bool PLMD::asmjit::ZoneHeap_hasDynamicBlock(PLMD::asmjit::ZoneHeap*, PLMD::asmjit::ZoneHeap::DynamicBlock*)' defined but not used [-Wunused-function] 223 | static bool ZoneHeap_hasDynamicBlock(ZoneHeap* self, ZoneHeap::DynamicBlock* block) noexcept { | ^~~~~~~~~~~~~~~~~~~~~~~~ make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/asmjit' /bin/make -C ../blas obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/blas' compiling blas.cpp make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/blas' /bin/make -C ../cltools obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/cltools' compiling CLTool.cpp { ../maketools/make-scripts-options.sh ; cat completion.sh ; }| ../maketools/xxd > completion.xxd compiling Driver.cpp In file included from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38: xdrfile/../../xdrfile/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/../../xdrfile/xdrfile_trr.h:37, from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38: xdrfile/../../xdrfile/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/xdrfile_xtc.h:1, from Driver.cpp:39: xdrfile/../../xdrfile/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | compiling DriverDouble.cpp In file included from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38, from DriverDouble.cpp:23: xdrfile/../../xdrfile/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/../../xdrfile/xdrfile_trr.h:37, from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38, from DriverDouble.cpp:23: xdrfile/../../xdrfile/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/xdrfile_xtc.h:1, from Driver.cpp:39, from DriverDouble.cpp:23: xdrfile/../../xdrfile/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | compiling Restraint.cpp compiling ReweightBase.cpp compiling DriverFloat.cpp In file included from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38, from DriverFloat.cpp:23: xdrfile/../../xdrfile/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/../../xdrfile/xdrfile_trr.h:37, from xdrfile/xdrfile_trr.h:1, from Driver.cpp:38, from DriverFloat.cpp:23: xdrfile/../../xdrfile/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | In file included from xdrfile/xdrfile_xtc.h:1, from Driver.cpp:39, from DriverFloat.cpp:23: xdrfile/../../xdrfile/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- | compiling ReweightBias.cpp compiling ReweightMetad.cpp compiling ReweightTemperaturePressure.cpp compiling GenExample.cpp compiling ReweightWham.cpp compiling UWalls.cpp compiling GenTemplate.cpp make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/bias' /bin/make -C ../colvar obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/colvar' compiling Angle.cpp compiling Info.cpp compiling Cell.cpp compiling Manual.cpp compiling Colvar.cpp compiling PdbRenumber.cpp compiling Constant.cpp compiling SimpleMD.cpp compiling ContactMap.cpp compiling SumHills.cpp compiling Coordination.cpp compiling kT.cpp compiling CoordinationBase.cpp compiling pesmd.cpp compiling DHEnergy.cpp compiling Completion.cpp make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/cltools' compiling DRMSD.cpp /bin/make -C ../config obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' /bin/make PLUMED_FORCE=yes ConfigInstall.inc Config.inc version.h config.txt make[7]: Entering directory '/home/pbulk/build/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 Updating config.txt file make[7]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' /bin/make Config.o ConfigInstall.o compile_options.sh make[7]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' cat ../../Makefile.conf | ../maketools/xxd > Makefile.conf.xxd Building compile_options.sh, a sourceable bash script with some compilation options compiling Config.cpp compiling ConfigInstall.cpp make[7]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/config' compiling Dimer.cpp /bin/make -C ../core obj make[6]: Entering directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/core' compiling Action.cpp Dimer.cpp: In constructor 'PLMD::colvar::Dimer::Dimer(const PLMD::ActionOptions&)': Dimer.cpp:212:28: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 212 | for(unsigned int i=0; i::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 309 | if(dsigmas.size()!=nranks && dsigmas.size()!=1) | ~~~~~~~~~~~~~~^~~~~~~~ compiling ActionAnyorder.cpp compiling Dipole.cpp compiling ActionAtomistic.cpp compiling Distance.cpp ActionAtomistic.cpp: In member function 'void PLMD::ActionAtomistic::requestAtoms(const std::vector&, bool)': ActionAtomistic.cpp:71:26: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare] 71 | if(indexes[i].index()>=n) { std::string num; Tools::convert( indexes[i].serial(),num ); error("atom " + num + " out of range"); } | ~~~~~~~~~~~~~~~~~~^~~ ActionAtomistic.cpp: In member function 'void PLMD::ActionAtomistic::calculateAtomicNumericalDerivatives(PLMD::ActionWithValue*, const unsigned int&)': ActionAtomistic.cpp:109:17: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] 109 | for(int i=0; igetOutputQuantity(j); | ~^~~~~ ActionAtomistic.cpp:134:17: warning: comparison of integer expressions of different signedness: 'int' and 'const size_t' {aka 'const long unsigned int'} [-Wsign-compare] 134 | for(int j=0; j >&, std::vector&)': ActionAtomistic.cpp:179:28: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare] 179 | for(unsigned i=0; ihasDerivatives() ) for(int i=0; iaddDerivative(i,(value[i*nval+j]-a->getOutputQuantity(j))/sqrt(epsilon)); | ~^~~~~ compiling ExtraCV.cpp compiling ActionWithValue.cpp compiling Fake.cpp compiling ActionWithVirtualAtom.cpp compiling GHBFIX.cpp compiling Atoms.cpp GHBFIX.cpp: In constructor 'PLMD::colvar::GHBFIX::GHBFIX(const PLMD::ActionOptions&)': GHBFIX.cpp:165:20: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector::size_type' {aka 'long unsigned int'} [-Wsign-compare] 165 | for(auto i=0; i::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 390 | if( gatindex.size()==natoms ) { | ~~~~~~~~~~~~~~~^~~~~~~~ Atoms.cpp:393:22: warning: comparison of integer expressions of different signedness: '__gnu_cxx::__alloc_traits, int>::value_type' {aka 'int'} and 'unsigned int' [-Wsign-compare] 393 | if( gatindex[i]!=i ) { shuffledAtoms=1; break; } Atoms.cpp: In member function 'void PLMD::Atoms::setAtomsContiguous(int)': Atoms.cpp:415:21: warning: comparison of integer expressions of different signedness: 'std::vector::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare] 415 | if(gatindex.size() CLToolMainMap.inc ../maketools/makecmd enum < CLToolMain.cpp > CLToolMainEnum.inc compiling CLToolRegister.cpp compiling PCARMSD.cpp compiling Colvar.cpp Colvar.cpp: In member function 'virtual void PLMD::Colvar::apply()': Colvar.cpp:62:9: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] 62 | if(ncp>4*comm.Get_size()) { | ~~~^~~~~~~~~~~~~~~~~~ Colvar.cpp:102:11: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'int' [-Wsign-compare] 102 | if(ncp>4*comm.Get_size()) { | ~~~^~~~~~~~~~~~~~~~~~ compiling DataFetchingObject.cpp DataFetchingObject.cpp: In static member function 'static void PLMD::DataFetchingObject::get_rank(const PLMD::ActionSet&, const string&, const string&, const PLMD::TypesafePtr&)': DataFetchingObject.cpp:78:10: warning: unused variable 'val' [-Wunused-variable] 78 | Value* val = myv->copyOutput( key ); | ^~~ DataFetchingObject.cpp: In static member function 'static void PLMD::DataFetchingObject::get_shape(const PLMD::ActionSet&, const string&, const string&, const PLMD::TypesafePtr&)': DataFetchingObject.cpp:99:10: warning: unused variable 'val' [-Wunused-variable] 99 | Value* val = myv->copyOutput( key ); | ^~~ compiling PathMSD.cpp compiling ExchangePatterns.cpp compiling PathMSDBase.cpp compiling FlexibleBin.cpp ../maketools/makecmd map < GREX.cpp > GREXMap.inc ../maketools/makecmd enum < GREX.cpp > GREXEnum.inc compiling GenericMolInfo.cpp compiling Position.cpp compiling MDAtoms.cpp compiling ProjectionOnAxis.cpp compiling PropertyMap.cpp ../maketools/makecmd map < PlumedMain.cpp > PlumedMainMap.inc ../maketools/makecmd enum < PlumedMain.cpp > PlumedMainEnum.inc compiling PlumedMainInitializer.cpp compiling TargetDist.cpp compiling Puckering.cpp compiling Value.cpp compiling RMSD.cpp compiling WithCmd.cpp compiling CLToolMain.cpp compiling Template.cpp compiling GREX.cpp compiling Torsion.cpp compiling Volume.cpp : fatal error: closing dependency file Volume.d: No space left on device compilation terminated. make[6]: *** [../maketools/make.rules:16: Volume.o] Error 1 make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/colvar' make[5]: *** [Makefile:426: ../colvar] Error 2 make[5]: *** Waiting for unfinished jobs.... compiling PlumedMain.cpp : fatal error: closing dependency file PlumedMain.d: No space left on device compilation terminated. make[6]: *** [../maketools/make.rules:16: PlumedMain.o] Error 1 make[6]: *** Waiting for unfinished jobs.... make[6]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/core' make[5]: *** [Makefile:426: ../core] Error 2 make[5]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' make[4]: *** [Makefile:128: dirs] Error 2 make[4]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' make[3]: *** [Makefile:111: all] Error 2 make[3]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src/lib' make[2]: *** [Makefile:8: lib] Error 2 make[2]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0/src' make[1]: *** [Makefile:32: lib] Error 2 make[1]: Leaving directory '/home/pbulk/build/math/plumed/work/plumed-2.8.0' make: *** [Makefile:21: all] Error 2 *** Error code 2 Stop. bmake[1]: stopped making "all" in /data/jenkins/workspace/pkgsrc-el9-trunk-x86_64/math/plumed *** Error code 1 Stop. bmake: stopped making "all" in /data/jenkins/workspace/pkgsrc-el9-trunk-x86_64/math/plumed