Fixes

• fix accelerate/cos command
• fix adapt command
• fix adapt/fep command
• fix addforce command
• fix addtorque command
• fix append/atoms command
• fix atc command
• fix atom/swap command
• fix ave/atom command
• fix ave/chunk command
• fix ave/correlate command
• fix ave/correlate/long command
• fix ave/histo command
• fix ave/histo/weight command
• fix ave/time command
• fix aveforce command
• fix balance command
• fix bocs command
• fix bond/break command
• fix bond/create command
• fix bond/create/angle command
• fix bond/react command
• fix bond/swap command
• fix box/relax command
• fix brownian command
• fix brownian/sphere command
• fix brownian/sphere command
• fix charge/regulation command
• fix client/md command
• fix cmap command
• fix colvars command
• fix controller command
• fix deform command
• fix deposit command
• fix dpd/energy command
• fix edpd/source command
• fix tdpd/source command
• fix drag command
• fix drude command
• fix drude/transform/direct command
• fix drude/transform/inverse command
• fix dt/reset command
• fix efield command
• fix ehex command
• fix electron/stopping command
• fix electron/stopping/fit command
• fix enforce2d command
• fix eos/cv command
• fix eos/table command
• fix eos/table/rx command
• fix evaporate command
• fix external command
• fix ffl command
• fix filter/corotate command
• fix flow/gauss command
• fix freeze command
• fix gcmc command
• fix gld command
• fix gle command
• fix gravity command
• fix grem command
• fix halt command
• fix heat command
• fix hyper/global command
• fix hyper/local command
• fix imd command
• fix indent command
• fix ipi command
• fix langevin command
• fix langevin/drude command
• fix langevin/eff command
• fix langevin/spin command
• fix latte command
• fix lb/fluid command
• fix lb/momentum command
• fix lb/pc command
• fix lb/rigid/pc/sphere command
• fix lb/viscous command
• fix lineforce command
• fix manifoldforce command
• fix mdi/engine command
• fix meso/move command
• fix_modify command
• fix_modify AtC commands
• fix momentum command
• fix momentum/chunk command
• fix move command
• fix mscg command
• fix msst command
• fix mvv/dpd command
• fix mvv/edpd command
• fix mvv/tdpd command
• fix neb command
• fix neb/spin command
• fix nvt command
• fix npt command
• fix nph command
• fix nvt/eff command
• fix npt/eff command
• fix nph/eff command
• fix nvt/uef command
• fix npt/uef command
• fix nph/asphere command
• fix nph/body command
• fix nph/sphere command
• fix nphug command
• fix npt/asphere command
• fix npt/body command
• fix npt/cauchy command
• fix npt/sphere command
• fix numdiff command
• fix nve command
• fix nve/asphere command
• fix nve/asphere/noforce command
• fix nve/awpmd command
• fix nve/body command
• fix nve/dot command
• fix nve/dotc/langevin command
• fix nve/eff command
• fix nve/limit command
• fix nve/line command
• fix nve/manifold/rattle command
• fix nve/noforce command
• fix nve/sphere command
• fix nve/spin command
• fix nve/tri command
• fix nvk command
• fix nvt/asphere command
• fix nvt/body command
• fix nvt/manifold/rattle command
• fix nvt/sllod command
• fix nvt/sllod/eff command
• fix nvt/sphere command
• fix oneway command
• fix orient/fcc command
• fix orient/bcc command
• fix orient/eco command
• fix pafi command
• fix pair/tracker command
• fix phonon command
• fix pimd command
• fix planeforce command
• fix plumed command
• fix poems command
• fix polarize/bem/gmres command
• fix polarize/bem/icc command
• fix polarize/functional command
• fix pour command
• fix precession/spin command
• fix press/berendsen command
• fix print command
• fix propel/self command
• fix property/atom command
• fix python/invoke command
• fix python/move command
• fix qbmsst command
• fix qeq/point command
• fix qeq/shielded command
• fix qeq/slater command
• fix qeq/dynamic command
• fix qeq/fire command
• fix qeq/comb command
• fix qeq/reaxff command
• fix qmmm command
• fix qtb command
• fix reaxff/bonds command
• fix reaxff/species command
• fix recenter command
• fix restrain command
• fix rhok command
• fix rigid command
• fix rigid/nve command
• fix rigid/nvt command
• fix rigid/npt command
• fix rigid/nph command
• fix rigid/small command
• fix rigid/nve/small command
• fix rigid/nvt/small command
• fix rigid/npt/small command
• fix rigid/nph/small command
• fix rigid/meso command
• fix rx command
• fix saed/vtk command
• fix setforce command
• fix setforce/spin command
• fix shake command
• fix rattle command
• fix shardlow command
• fix smd command
• fix smd/adjust_dt command
• fix smd/integrate_tlsph command
• fix smd/integrate_ulsph command
• fix smd/move_tri_surf command
• fix smd/setvel command
• fix smd/wall_surface command
• fix sph command
• fix sph/stationary command
• fix spring command
• fix spring/chunk command
• fix spring/rg command
• fix spring/self command
• fix srd command
• fix store/force command
• fix store/state command
• fix temp/berendsen command
• fix temp/csvr command
• fix temp/csld command
• fix temp/rescale command
• fix temp/rescale/eff command
• fix tfmc command
• fix tgnvt/drude command
• fix tgnpt/drude command
• fix thermal/conductivity command
• fix ti/spring command
• fix tmd command
• fix ttm command
• fix ttm/mod command
• fix tune/kspace command
• fix vector command
• fix viscosity command
• fix viscous command
• fix wall/lj93 command
• fix wall/lj126 command
• fix wall/lj1043 command
• fix wall/colloid command
• fix wall/harmonic command
• fix wall/morse command
• fix wall/body/polygon command
• fix wall/body/polyhedron command
• fix wall/ees command
• fix wall/region/ees command
• fix wall/gran command
• fix wall/gran/region command
• fix wall/piston command
• fix wall/reflect command
• fix wall/reflect/stochastic command
• fix wall/region command
• fix wall/srd command
• fix widom command