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Created with Raphaël 2.2.05May432130Apr2827262423201918131110965432130Mar2928272624232221201916151413121198765432128Feb272524232221201918161513121110987652131Jan3028232221171615161514131211109865425Dec242120191815131211108765432130Novmore changes to fix rigid and fix poemsinclude USER-BOCS package in cmakeadapt isfinite() handling to upstreamplug memory leaks in USER-BOCSupdate USER-BOCS example to match LAMMPS style and include reference logsMerge branch 'master' into USER-BOCSchanges to integrate USER-BOCS into LAMMPS and to closer follow the LAMMPS programming/documentation styleupdate colvars dependenciesadd return value to non-void functionadd missing USER-MOFFF to Makefile and fix typobe more verbose in USER-PHONON install script when KSPACE is not installedmore cosmetic changes to silence pedantic warningsaddress a few cosmetic issues flagged by -Wpedanticavoiding variable length array in pair style comb3 by declaring MAXLIB constreplace variable length array in fix drude/transform with new/deletereplace variable length array in Molecule class with new/deletereplace variable length arrays in fix filer/corotate by Memory::create() / Memory::destroy()cast implicit string objects to char * for C++ standard compliancereplace variable length arrays in fix rx of USER-DPD with new/deletereplace variable length arrays in pair style tdpd with new/deletereplace variable length array in fix lb/momentum with fixed size arrayreplace variable length arrays in compute basal/atom with new/deletereplace variable length arrays in fix gcmc with new/deletefix newly introduced bugreplace variable length arrays in fix gle with new/deletereplace variable length array in msm with new/deletereplace variable length array in fix ipi with new/deletereplace variable length array with fixed sizereplace variable length array with new/delete in PNG support of dump imagereplace variable length arrays in USER-PHONON with new/deleteport bugfix for single/bond to single/angle and single/dihedralupdate logfiles and adjust some example inputs to be consistentcorrect minor issues, so LAMMPS compiles againfix bug in create_bonds, where ghost atoms were counted incorrectly2nd set of updatesfirst updatesMerge pull request #803 from jrgissing/fix_bond_reactmake filenames comply with LAMMPS conventions and add reference log filescorrect typo in converting c-library header includes to c++ stylestweak to header file names