Assuming 64 bit architecture. Using BLAS/LAPACK/ARPACK/NetCDF libraries in /usr/local/amber14 SANDER API will be used if found in '/usr/local/amber14'. Using GNU compilers Installing cpptraj binary to /home/guqin/Desktop/cpptraj-master/bin Testing C compiler: OK Testing C++ compiler: OK Testing Fortran compiler: OK Checking BZLIB OK Checking ZLIB OK Checking NetCDF OK Checking LAPACK/BLAS OK Checking ARPACK OK Checking availability of the SANDER API from AmberTools Using SANDER API from /usr/local/amber14 Warning: Compilation with the SANDER API failed. Error follows: -------------------- testp.cpp: In function ‘int main()’: testp.cpp:7: error: ‘struct sander_input’ has no member named ‘fswitch’ testp.cpp:7: error: ‘struct sander_input’ has no member named ‘restraint_wt’ testp.cpp:12: error: ‘struct sander_input’ has no member named ‘ntr’ testp.cpp:12: error: ‘struct sander_input’ has no member named ‘ibelly’ testp.cpp:14: error: ‘struct sander_input’ has no member named ‘restraintmask’ testp.cpp:14: error: ‘struct sander_input’ has no member named ‘bellymask’ testp.cpp:14: error: ‘struct sander_input’ has no member named ‘refc’ -------------------- Warning: CPPTRAJ will be built without the SANDER API. Cleaning source directory. -------------------------------------------------------------------------------- An environment resource file for CPPTRAJ has been created: /home/guqin/Desktop/cpptraj-master/cpptraj.sh You may 'source' this file to set up your environment for CPPTRAJ. -------------------------------------------------------------------------------- CPPTRAJ configuration complete. bind.c: In function ‘rl_translate_keyseq’: bind.c:445: warning: suggest parentheses around assignment used as truth value bind.c: In function ‘rl_parse_and_bind’: bind.c:1188: warning: suggest parentheses around assignment used as truth value bind.c:1279: warning: suggest parentheses around assignment used as truth value bind.c: In function ‘rl_function_dumper’: bind.c:2051: warning: suggest parentheses around assignment used as truth value bind.c: In function ‘rl_generic_bind’: bind.c:342: warning: ‘k.type’ may be used uninitialized in this function gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o callback.o callback.c cd xdrfile && make all make[2]: Entering directory `/home/guqin/Desktop/cpptraj-master/src/xdrfile' gcc -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -c -o xdrfile.o xdrfile.c g++ -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -c -o AmbPDB.o AmbPDB.cpp gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o compat.o compat.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o complete.o complete.c complete.c: In function ‘fnwidth’: complete.c:604: warning: implicit declaration of function ‘wcwidth’ complete.c: In function ‘_rl_find_completion_word’: complete.c:886: warning: suggest parentheses around assignment used as truth value complete.c: In function ‘rl_completion_matches’: complete.c:1805: warning: suggest parentheses around assignment used as truth value complete.c: In function ‘rl_username_completion_function’: complete.c:1856: warning: suggest parentheses around assignment used as truth value xdrfile.c: In function ‘xdr_string’: xdrfile.c:2350: warning: ‘size’ may be used uninitialized in this function xdrfile.c: In function ‘xdrfile_compress_coord_float’: xdrfile.c:1014: warning: ‘prevcoord[2]’ may be used uninitialized in this function xdrfile.c:1014: warning: ‘prevcoord[1]’ may be used uninitialized in this function gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o display.o display.c display.c: In function ‘rl_redisplay’: display.c:714: warning: implicit declaration of function ‘wcwidth’ xdrfile.c: In function ‘xdrfile_compress_coord_double’: xdrfile.c:1507: warning: ‘prevcoord[2]’ may be used uninitialized in this function xdrfile.c:1507: warning: ‘prevcoord[1]’ may be used uninitialized in this function gcc -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -c -o xdr_seek.o xdr_seek.c xdrfile.c: In function ‘xdrfile_decompress_coord_float’: xdrfile.c:2175: warning: ‘lsize’ may be used uninitialized in this function xdrfile.c:787: note: ‘lsize’ was declared here xdrfile.c:2175: warning: ‘smallidx’ may be used uninitialized in this function xdrfile.c:785: note: ‘smallidx’ was declared here gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o funmap.o funmap.c gcc -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -c -o xdrfile_trr.o xdrfile_trr.c gcc -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -c -o xdrfile_xtc.o xdrfile_xtc.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o histexpand.o histexpand.c xdrfile_xtc.c: In function ‘xtc_coord’: xdrfile_xtc.c:66: warning: unused variable ‘j’ xdrfile_xtc.c:66: warning: unused variable ‘i’ histexpand.c: In function ‘get_history_event’: histexpand.c:206: warning: suggest parentheses around assignment used as truth value gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o histfile.o histfile.c xdrfile_trr.c: In function ‘read_trr_nframes’: xdrfile_trr.c:495: warning: ‘natoms’ may be used uninitialized in this function /bin/rm -f libxdrfile.a ar cqs libxdrfile.a xdrfile.o xdr_seek.o xdrfile_trr.o xdrfile_xtc.o display.c:462: warning: ‘n0’ may be used uninitialized in this function display.c:467: warning: ‘wc_width’ may be used uninitialized in this function make[2]: Leaving directory `/home/guqin/Desktop/cpptraj-master/src/xdrfile' gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o history.o history.c g++ -o ambpdb AmbPDB.o ActionFrameCounter.o ArgList.o Atom.o AtomMask.o BondSearch.o Box.o BufferedFrame.o BufferedLine.o ByteRoutines.o CharMask.o CIFfile.o CoordinateInfo.o CpptrajFile.o CpptrajStdio.o DistRoutines.o FileIO_Bzip2.o FileIO_Gzip.o FileIO_Std.o FileName.o FileTypes.o Frame.o InputTrajCommon.o MaskToken.o Matrix_3x3.o Mol2File.o NameType.o NC_Routines.o NetcdfFile.o OutputTrajCommon.o ParmFile.o Parm_Amber.o Parm_CIF.o Parm_CharmmPsf.o Parm_Gromacs.o Parm_Mol2.o Parm_PDB.o Parm_SDF.o Parm_Tinker.o PDBfile.o ProgressBar.o Range.o SDFfile.o StringRoutines.o TextFormat.o TinkerFile.o Timer.o Topology.o TrajectoryFile.o TrajFrameCounter.o Trajin_Single.o Trajout_Single.o Residue.o Traj_AmberCoord.o Traj_AmberRestart.o Traj_CIF.o Traj_Mol2File.o Traj_SDF.o Traj_AmberNetcdf.o Traj_Binpos.o Traj_Conflib.o Traj_SQM.o Traj_AmberRestartNC.o Traj_CharmmCor.o Traj_CharmmDcd.o Traj_CharmmRestart.o Traj_GmxTrX.o Traj_GmxXtc.o Traj_Gro.o Traj_PDBfile.o Traj_Tinker.o Traj_NcEnsemble.o Vec3.o -L/usr/local/amber14/lib -lnetcdf -lbz2 -lz xdrfile/libxdrfile.a gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o histsearch.o histsearch.c mv ambpdb /home/guqin/Desktop/cpptraj-master/bin gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o input.o input.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o isearch.o isearch.c input.c: In function ‘rl_read_key’: input.c:423: warning: suggest parentheses around assignment used as truth value gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o keymaps.o keymaps.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o kill.o kill.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o macro.o macro.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o mbutil.o mbutil.c mbutil.c: In function ‘_rl_find_next_mbchar_internal’: mbutil.c:118: warning: implicit declaration of function ‘wcwidth’ gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o misc.o misc.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o nls.o nls.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o parens.o parens.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o readline.o readline.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o rltty.o rltty.c readline.c:1078: warning: ‘reset_default_bindings’ defined but not used gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o savestring.o savestring.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o search.o search.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o shell.o shell.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o signals.o signals.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o termcap.o termcap.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o terminal.o terminal.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o text.o text.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o tilde.o tilde.c tilde.c: In function ‘tilde_expand’: tilde.c:199: warning: suggest parentheses around assignment used as truth value gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o tparam.o tparam.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o undo.o undo.c tparam.c: In function ‘memory_out’: tparam.c:51: warning: implicit declaration of function ‘write’ gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o util.o util.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o version.o version.c undo.c: In function ‘_rl_copy_undo_list’: undo.c:140: warning: ‘roving’ may be used uninitialized in this function version.c:2: warning: ‘version_string’ defined but not used gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o vi_mode.o vi_mode.c gcc -c -O3 -Wall -DHASBZ2 -DHASGZ -DBINTRAJ -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/local/amber14/include -Ixdrfile -DHAVE_CONFIG_H -I. -o xmalloc.o xmalloc.c rm -f libreadline.a ar cqs libreadline.a bind.o callback.o compat.o complete.o display.o funmap.o histexpand.o histfile.o history.o histsearch.o input.o isearch.o keymaps.o kill.o macro.o mbutil.o misc.o nls.o parens.o readline.o rltty.o savestring.o search.o shell.o signals.o termcap.o terminal.o text.o tilde.o tparam.o undo.o util.o version.o vi_mode.o xmalloc.o make[2]: Leaving directory `/home/guqin/Desktop/cpptraj-master/src/readline' g++ -o cpptraj ActionFrameCounter.o ActionList.o Action_Align.o Action_Angle.o Action_AreaPerMol.o Action_AtomMap.o Action_AtomicCorr.o Action_AtomicFluct.o Action_AutoImage.o Action_Average.o Action_Bounds.o Action_Box.o Action_Center.o Action_Channel.o Action_CheckChirality.o Action_CheckStructure.o Action_Closest.o Action_ClusterDihedral.o Action_Contacts.o Action_CreateCrd.o Action_CreateReservoir.o Action_DNAionTracker.o Action_DSSP.o Action_Density.o Action_Diffusion.o Action_Dihedral.o Action_Dipole.o Action_Distance.o Action_DistRmsd.o Action_Energy.o Action_FilterByData.o Action_FixAtomOrder.o Action_FixImagedBonds.o Action_GIST.o Action_Grid.o Action_GridFreeEnergy.o Action_HydrogenBond.o Action_Image.o Action_Jcoupling.o Action_LESsplit.o Action_LIE.o Action_MakeStructure.o Action_Mask.o Action_Matrix.o Action_MinImage.o Action_Molsurf.o Action_MultiDihedral.o Action_MultiVector.o Action_NAstruct.o Action_NativeContacts.o Action_NMRrst.o Action_OrderParameter.o Action_Outtraj.o Action_PairDist.o Action_Pairwise.o Action_Principal.o Action_Projection.o Action_Pucker.o Action_Radgyr.o Action_Radial.o Action_RandomizeIons.o Action_Remap.o Action_ReplicateCell.o Action_Rmsd.o Action_Rotate.o Action_RunningAvg.o Action_STFC_Diffusion.o Action_Scale.o Action_SetVelocity.o Action_Spam.o Action_Strip.o Action_Surf.o Action_SymmetricRmsd.o Action_Temperature.o Action_Translate.o Action_Unstrip.o Action_Unwrap.o Action_Vector.o Action_VelocityAutoCorr.o Action_Volmap.o Action_Volume.o Action_Watershell.o AnalysisList.o Analysis_AmdBias.o Analysis_AutoCorr.o Analysis_Average.o Analysis_Clustering.o Analysis_Corr.o Analysis_CrankShaft.o Analysis_CrdFluct.o Analysis_CrossCorr.o Analysis_CurveFit.o Analysis_Divergence.o Analysis_FFT.o Analysis_Hist.o Analysis_Integrate.o Analysis_IRED.o Analysis_KDE.o Analysis_Lifetime.o Analysis_LowestCurve.o Analysis_Matrix.o Analysis_MeltCurve.o Analysis_Modes.o Analysis_Multicurve.o Analysis_MultiHist.o Analysis_Overlap.o Analysis_PhiPsi.o Analysis_Regression.o Analysis_RemLog.o Analysis_Rms2d.o Analysis_RmsAvgCorr.o Analysis_Rotdif.o Analysis_RunningAvg.o Analysis_Spline.o Analysis_State.o Analysis_Statistics.o Analysis_TI.o Analysis_Timecorr.o Analysis_VectorMath.o Analysis_Wavelet.o ArgList.o Array1D.o AssociatedData.o Atom.o AtomMap.o AtomMask.o AxisType.o BondSearch.o Box.o BufferedFrame.o BufferedLine.o ByteRoutines.o CharMask.o CIFfile.o ClusterDist.o ClusterList.o ClusterMap.o ClusterMatrix.o ClusterNode.o ClusterSieve.o Cluster_DBSCAN.o Cluster_DPeaks.o Cluster_HierAgglo.o Cluster_Kmeans.o Cluster_ReadInfo.o Cmd.o CmdInput.o CmdList.o ComplexArray.o Constraints.o CoordinateInfo.o Corr.o CpptrajFile.o CpptrajState.o CpptrajStdio.o CurveFit.o DataFile.o DataFileList.o DataIO.o DataIO_CCP4.o DataIO_CharmmFastRep.o DataIO_CharmmRepLog.o DataIO_Cmatrix.o DataIO_Evecs.o DataIO_Gnuplot.o DataIO_Grace.o DataIO_OpenDx.o DataIO_Mdout.o DataIO_NC_Cmatrix.o DataIO_RemLog.o DataIO_Std.o DataIO_VecTraj.o DataIO_Xplor.o DataIO_XVG.o DataSet.o DataSetList.o DataSet_1D.o DataSet_3D.o DataSet_Cmatrix.o DataSet_Cmatrix_DISK.o DataSet_Cmatrix_MEM.o DataSet_Cmatrix_NOMEM.o DataSet_Coords.o DataSet_Coords_CRD.o DataSet_Coords_REF.o DataSet_Coords_TRJ.o DataSet_GridDbl.o DataSet_GridFlt.o DataSet_Mat3x3.o DataSet_MatrixDbl.o DataSet_MatrixFlt.o DataSet_Mesh.o DataSet_Modes.o DataSet_RemLog.o DataSet_Topology.o DataSet_Vector.o DataSet_double.o DataSet_float.o DataSet_integer.o DataSet_string.o Deprecated.o DihedralSearch.o DispatchObject.o DistRoutines.o Energy.o EnsembleIn.o EnsembleIn_Multi.o EnsembleIn_Single.o EnsembleNavigator.o EnsembleOut.o EnsembleOut_Multi.o EnsembleOut_Single.o EnsembleOutList.o Ewald.o Exec_Analyze.o Exec_Calc.o Exec_Change.o Exec_ClusterMap.o Exec_CombineCoords.o Exec_Commands.o Exec_CompareTop.o Exec_CrdAction.o Exec_CrdOut.o Exec_DataFile.o Exec_DataFilter.o Exec_DataSetCmd.o Exec_GenerateAmberRst.o Exec_Help.o Exec_LoadCrd.o Exec_LoadTraj.o Exec_ParmBox.o Exec_ParmSolvent.o Exec_ParmStrip.o Exec_ParmWrite.o Exec_PermuteDihedrals.o Exec_Precision.o Exec_PrintData.o Exec_ReadData.o Exec_ReadInput.o Exec_RotateDihedral.o Exec_RunAnalysis.o Exec_ScaleDihedralK.o Exec_SequenceAlign.o Exec_System.o Exec_Top.o Exec_Traj.o Exec_ViewRst.o FileIO_Bzip2.o FileIO_Gzip.o FileIO_Mpi.o FileIO_Std.o FileName.o FileTypes.o Frame.o GridAction.o HistBin.o Hungarian.o ImageRoutines.o InputTrajCommon.o KDE.o MapAtom.o MaskToken.o Matrix_3x3.o MetaData.o Mol2File.o NameType.o NC_Cmatrix.o NC_Routines.o NetcdfFile.o OutputTrajCommon.o PDBfile.o PairList.o Parallel.o ParallelNetcdf.o ParmFile.o Parm_Amber.o Parm_CharmmPsf.o Parm_CIF.o Parm_Gromacs.o Parm_Mol2.o Parm_PDB.o Parm_SDF.o Parm_Tinker.o ProgressBar.o ProgressTimer.o PubFFT.o Random.o Range.o RPNcalc.o ReferenceAction.o Residue.o SDFfile.o SimplexMin.o Spline.o StringRoutines.o StructureMapper.o SymmetricRmsdCalc.o TextFormat.o Timer.o TinkerFile.o TopInfo.o Topology.o TorsionRoutines.o Traj_AmberCoord.o Traj_AmberNetcdf.o Traj_AmberRestart.o Traj_AmberRestartNC.o Traj_Binpos.o Traj_CharmmCor.o Traj_CharmmDcd.o Traj_CharmmRestart.o Traj_CIF.o Traj_Conflib.o Traj_GmxTrX.o Traj_GmxXtc.o Traj_Gro.o Traj_Mol2File.o Traj_NcEnsemble.o Traj_PDBfile.o Traj_SDF.o Traj_SQM.o Traj_Tinker.o TrajectoryFile.o TrajectoryIO.o TrajFrameCounter.o TrajinList.o Trajin_Multi.o Trajin_Single.o TrajIOarray.o Trajout_Single.o TrajoutList.o Vec3.o ViewRst.o Action_Esander.o Command.o Cpptraj.o Energy_Sander.o ReadLine.o main.o molsurf.o readline/libreadline.a pub_fft.o -L/usr/local/amber14/lib -larpack -L/usr/local/amber14/lib -llapack -L/usr/local/amber14/lib -lblas -lgfortran -w -L/usr/local/amber14/lib -lnetcdf -lbz2 -lz xdrfile/libxdrfile.a mv cpptraj /home/guqin/Desktop/cpptraj-master/bin make[1]: Leaving directory `/home/guqin/Desktop/cpptraj-master/src'