Public Git Hosting - gromacs.git/commit

commit	d3ac3c5b6fdbebc4fd0b6f88e062d54eed8da5d1
author	Teemu Murtola <teemu.murtola@gmail.com>
	Mon, 31 Mar 2014 18:20:05 +0000 (31 21:20 +0300)
committer	Gerrit Code Review <gerrit@gerrit.gromacs.org>
	Tue, 1 Apr 2014 00:00:41 +0000 (1 02:00 +0200)
tree	ae825563755f4e169452a4a522962f1b0d444ad6	tree \| snapshot (tar.gz zip)
parent	6f4c4dedbeca05eb16553e36997749a0b81a2687	commit \| diff

Move smalloc.h to utility/

One common header away from legacyheaders/.
Mostly mechanical replacement for the include paths, but removed a few
instances where the header was included more than once. Also, reordered
the headers a bit, mainly in C++ files.

Part of #1415.

Change-Id: Ic438d501ebf5eccc285655a9e8f2f625eb12f1d1

352 files changed:

src/contrib/anaf.c		diff \| blob \| blame \| history
src/contrib/compnl.c		diff \| blob \| blame \| history
src/contrib/do_multiprot.c		diff \| blob \| blame \| history
src/contrib/do_shift.c		diff \| blob \| blame \| history
src/contrib/ehanal.c		diff \| blob \| blame \| history
src/contrib/ehdata.c		diff \| blob \| blame \| history
src/contrib/ehole.c		diff \| blob \| blame \| history
src/contrib/g_anavel.c		diff \| blob \| blame \| history
src/contrib/gmx_sdf.c		diff \| blob \| blame \| history
src/contrib/gmx_stats_test.c		diff \| blob \| blame \| history
src/contrib/hexamer.c		diff \| blob \| blame \| history
src/contrib/hrefify.c		diff \| blob \| blame \| history
src/contrib/mkice.c		diff \| blob \| blame \| history
src/contrib/pmetest.c		diff \| blob \| blame \| history
src/contrib/test.c		diff \| blob \| blame \| history
src/contrib/testfft.c		diff \| blob \| blame \| history
src/contrib/testlr.c		diff \| blob \| blame \| history
src/contrib/testxml.c		diff \| blob \| blame \| history
src/contrib/timefft.c		diff \| blob \| blame \| history
src/gromacs/analysisdata/modules/displacement.cpp		diff \| blob \| blame \| history
src/gromacs/commandline/cmdlineinit.cpp		diff \| blob \| blame \| history
src/gromacs/commandline/pargs.cpp		diff \| blob \| blame \| history
src/gromacs/essentialdynamics/edsam.c		diff \| blob \| blame \| history
src/gromacs/fft/fft5d.cpp		diff \| blob \| blame \| history
src/gromacs/fft/parallel_3dfft.c		diff \| blob \| blame \| history
src/gromacs/fileio/confio.c		diff \| blob \| blame \| history
src/gromacs/fileio/enxio.c		diff \| blob \| blame \| history
src/gromacs/fileio/filenm.c		diff \| blob \| blame \| history
src/gromacs/fileio/futil.cpp		diff \| blob \| blame \| history
src/gromacs/fileio/gmxfio.c		diff \| blob \| blame \| history
src/gromacs/fileio/gmxfio_asc.c		diff \| blob \| blame \| history
src/gromacs/fileio/gmxfio_bin.c		diff \| blob \| blame \| history
src/gromacs/fileio/gmxfio_rw.c		diff \| blob \| blame \| history
src/gromacs/fileio/gmxfio_xdr.c		diff \| blob \| blame \| history
src/gromacs/fileio/matio.cpp		diff \| blob \| blame \| history
src/gromacs/fileio/mdoutf.c		diff \| blob \| blame \| history
src/gromacs/fileio/pdbio.c		diff \| blob \| blame \| history
src/gromacs/fileio/strdb.c		diff \| blob \| blame \| history
src/gromacs/fileio/tngio_for_tools.cpp		diff \| blob \| blame \| history
src/gromacs/fileio/tpxio.c		diff \| blob \| blame \| history
src/gromacs/fileio/trajectory_writing.c		diff \| blob \| blame \| history
src/gromacs/fileio/trnio.c		diff \| blob \| blame \| history
src/gromacs/fileio/trxio.c		diff \| blob \| blame \| history
src/gromacs/fileio/vmdio.c		diff \| blob \| blame \| history
src/gromacs/fileio/writeps.c		diff \| blob \| blame \| history
src/gromacs/fileio/xdrd.c		diff \| blob \| blame \| history
src/gromacs/fileio/xtcio.c		diff \| blob \| blame \| history
src/gromacs/gmxana/anadih.c		diff \| blob \| blame \| history
src/gromacs/gmxana/autocorr.c		diff \| blob \| blame \| history
src/gromacs/gmxana/cmat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/correl.c		diff \| blob \| blame \| history
src/gromacs/gmxana/dens_filter.c		diff \| blob \| blame \| history
src/gromacs/gmxana/dlist.c		diff \| blob \| blame \| history
src/gromacs/gmxana/edittop.c		diff \| blob \| blame \| history
src/gromacs/gmxana/eigio.c		diff \| blob \| blame \| history
src/gromacs/gmxana/expfit.c		diff \| blob \| blame \| history
src/gromacs/gmxana/fitahx.c		diff \| blob \| blame \| history
src/gromacs/gmxana/geminate.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_anadock.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_anaeig.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_analyze.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_angle.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_bar.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_bundle.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_chi.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_cluster.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_clustsize.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_confrms.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_covar.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_current.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_density.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_densmap.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_densorder.cpp		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_dielectric.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_dipoles.cpp		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_disre.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_do_dssp.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_dos.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_dyecoupl.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_dyndom.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_editconf.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_eneconv.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_enemat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_energy.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_filter.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_genion.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_genpr.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_gyrate.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_h2order.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_hbond.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_helix.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_helixorient.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_hydorder.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_kinetics.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_lie.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_make_edi.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_make_ndx.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_mdmat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_mindist.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_mk_angndx.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_morph.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_msd.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_nmeig.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_nmens.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_nmtraj.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_order.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_pme_error.cpp		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_polystat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_potential.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_principal.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rama.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rdf.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rms.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rmsdist.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rmsf.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rotacf.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_rotmat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_saltbr.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_sans.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_saxs.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_sham.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_sigeps.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_sorient.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_spatial.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_spol.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_tcaf.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_traj.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_trjcat.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_trjconv.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_trjorder.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_tune_pme.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_vanhove.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_velacc.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_wham.cpp		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_wheel.c		diff \| blob \| blame \| history
src/gromacs/gmxana/gmx_xpm2ps.c		diff \| blob \| blame \| history
src/gromacs/gmxana/hxprops.c		diff \| blob \| blame \| history
src/gromacs/gmxana/nrama.c		diff \| blob \| blame \| history
src/gromacs/gmxana/nsfactor.c		diff \| blob \| blame \| history
src/gromacs/gmxana/powerspect.c		diff \| blob \| blame \| history
src/gromacs/gmxana/pp2shift.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/atomprop.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/bondfree.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/calcgrid.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/chargegroup.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/checkpoint.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/copyrite.cpp		diff \| blob \| blame \| history
src/gromacs/gmxlib/cuda_tools/cudautils.cu		diff \| blob \| blame \| history
src/gromacs/gmxlib/disre.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/ewald_util.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/gmx_detect_hardware.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/gmx_fatal.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/gpu_utils/gpu_utils.cu		diff \| blob \| blame \| history
src/gromacs/gmxlib/index.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/invblock.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/main.cpp		diff \| blob \| blame \| history
src/gromacs/gmxlib/mshift.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/mtop_util.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/mvdata.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/network.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/nonbonded/nb_kernel.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/nonbonded/nb_kernel_c/nb_kernel_allvsall.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/nonbonded/nb_kernel_c/nb_kernel_allvsallgb.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/nonbonded/nonbonded.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/nrnb.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/oenv.cpp		diff \| blob \| blame \| history
src/gromacs/gmxlib/orires.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/pbc.c		diff \| blob \| blame \| history
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src/gromacs/gmxlib/rbin.c		diff \| blob \| blame \| history
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src/gromacs/gmxlib/sfactor.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/splitter.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/string2.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/symtab.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/topsort.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/txtdump.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/typedefs.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/warninp.c		diff \| blob \| blame \| history
src/gromacs/gmxlib/xvgr.cpp		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/add_par.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/addconf.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/calc_verletbuf.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/convparm.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/fflibutil.cpp		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gen_ad.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gen_maxwell_velocities.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gen_vsite.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/genconf.c		diff \| blob \| blame \| history
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src/gromacs/gmxpreprocess/gmxcpp.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gpp_atomtype.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gpp_bond_atomtype.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/gpp_nextnb.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/grompp.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/h_db.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/hackblock.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/hizzie.c		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/insert-molecules.cpp		diff \| blob \| blame \| history
src/gromacs/gmxpreprocess/nm2type.c		diff \| blob \| blame \| history
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src/gromacs/gmxpreprocess/vsite_parm.c		diff \| blob \| blame \| history
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src/gromacs/selection/selectioncollection.cpp		diff \| blob \| blame \| history
src/gromacs/selection/selelem.cpp		diff \| blob \| blame \| history
src/gromacs/selection/selvalue.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_compare.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_insolidangle.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_keywords.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_merge.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_permute.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_position.cpp		diff \| blob \| blame \| history
src/gromacs/selection/sm_same.cpp		diff \| blob \| blame \| history
src/gromacs/selection/tests/nbsearch.cpp		diff \| blob \| blame \| history
src/gromacs/selection/tests/poscalc.cpp		diff \| blob \| blame \| history
src/gromacs/selection/tests/toputils.cpp		diff \| blob \| blame \| history
src/gromacs/statistics/statistics.c		diff \| blob \| blame \| history
src/gromacs/statistics/statistics_test.c		diff \| blob \| blame \| history
src/gromacs/swap/swapcoords.c		diff \| blob \| blame \| history
src/gromacs/timing/wallcycle.c		diff \| blob \| blame \| history
src/gromacs/timing/walltime_accounting.c		diff \| blob \| blame \| history
src/gromacs/tools/check.c		diff \| blob \| blame \| history
src/gromacs/tools/compare.c		diff \| blob \| blame \| history
src/gromacs/tools/convert_tpr.c		diff \| blob \| blame \| history
src/gromacs/tools/dump.c		diff \| blob \| blame \| history
src/gromacs/trajectoryanalysis/analysissettings.cpp		diff \| blob \| blame \| history
src/gromacs/trajectoryanalysis/modules/nsc.c		diff \| blob \| blame \| history
src/gromacs/trajectoryanalysis/modules/sasa.cpp		diff \| blob \| blame \| history
src/gromacs/trajectoryanalysis/modules/select.cpp		diff \| blob \| blame \| history
src/gromacs/trajectoryanalysis/runnercommon.cpp		diff \| blob \| blame \| history
src/gromacs/utility/CMakeLists.txt		diff \| blob \| blame \| history
src/gromacs/utility/scoped_ptr_sfree.h		diff \| blob \| blame \| history
src/gromacs/utility/smalloc.c	[moved from src/gromacs/gmxlib/smalloc.c with 98% similarity]	diff \| blob \| blame \| history
src/gromacs/utility/smalloc.h	[moved from src/gromacs/legacyheaders/smalloc.h with 99% similarity]	diff \| blob \| blame \| history
src/programs/mdrun/md.c		diff \| blob \| blame \| history
src/programs/mdrun/membed.c		diff \| blob \| blame \| history
src/programs/mdrun/pme_loadbal.c		diff \| blob \| blame \| history
src/programs/mdrun/repl_ex.c		diff \| blob \| blame \| history
src/programs/mdrun/runner.c		diff \| blob \| blame \| history
src/programs/view/buttons.cpp		diff \| blob \| blame \| history
src/programs/view/dialogs.cpp		diff \| blob \| blame \| history
src/programs/view/fgrid.cpp		diff \| blob \| blame \| history
src/programs/view/filter.cpp		diff \| blob \| blame \| history
src/programs/view/logo.cpp		diff \| blob \| blame \| history
src/programs/view/manager.cpp		diff \| blob \| blame \| history
src/programs/view/molps.cpp		diff \| blob \| blame \| history
src/programs/view/nleg.cpp		diff \| blob \| blame \| history
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src/programs/view/pulldown.cpp		diff \| blob \| blame \| history
src/programs/view/view.cpp		diff \| blob \| blame \| history
src/programs/view/x11.cpp		diff \| blob \| blame \| history
src/programs/view/xdlg.cpp		diff \| blob \| blame \| history
src/programs/view/xdlghi.cpp		diff \| blob \| blame \| history
src/programs/view/xdlgitem.cpp		diff \| blob \| blame \| history
src/programs/view/xutil.cpp		diff \| blob \| blame \| history

The ultimate molecular dynamics simulation package

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