--- /srv/reproducible-results/rbuild-debian/r-b-build.5a0SzpJ7/b1/lammps_20240207+dfsg-1.1_arm64.changes +++ /srv/reproducible-results/rbuild-debian/r-b-build.5a0SzpJ7/b2/lammps_20240207+dfsg-1.1_arm64.changes ├── Files │ @@ -1,10 +1,10 @@ │ │ 099bb3a86d9f2670a18dc34352374665 9539684 doc optional lammps-data_20240207+dfsg-1.1_all.deb │ 44a1853819e0a9d4d829821013258a21 22896 debug optional lammps-dbgsym_20240207+dfsg-1.1_arm64.deb │ - cbde6845a3371ce83567d4e4b567d379 54045652 doc optional lammps-doc_20240207+dfsg-1.1_all.deb │ + f6f9050f4988f2753fe7e45abb5a1306 54045796 doc optional lammps-doc_20240207+dfsg-1.1_all.deb │ 7fe846b25469c9cef91c88f5ae00f73d 45419824 doc optional lammps-examples_20240207+dfsg-1.1_all.deb │ 5266b1cee9007102e60c69943d564d14 18140 science optional lammps_20240207+dfsg-1.1_arm64.deb │ 218a77f28d07bdabb013c74689eac3a5 114028 science optional liblammps-dev_20240207+dfsg-1.1_arm64.deb │ 92a2eced7cc965f21ece86e3622c061a 80591412 debug optional liblammps0t64-dbgsym_20240207+dfsg-1.1_arm64.deb │ f31820ce9aca7bf1d5bcd92c1864c3f6 5973740 science optional liblammps0t64_20240207+dfsg-1.1_arm64.deb │ a2d59b17ae99e4127cc3a412a160f009 72268 python optional python3-lammps_20240207+dfsg-1.1_arm64.deb ├── lammps-doc_20240207+dfsg-1.1_all.deb │ ├── file list │ │ @@ -1,3 +1,3 @@ │ │ -rw-r--r-- 0 0 0 4 2024-02-28 16:51:42.000000 debian-binary │ │ --rw-r--r-- 0 0 0 29456 2024-02-28 16:51:42.000000 control.tar.xz │ │ --rw-r--r-- 0 0 0 54016004 2024-02-28 16:51:42.000000 data.tar.xz │ │ +-rw-r--r-- 0 0 0 29432 2024-02-28 16:51:42.000000 control.tar.xz │ │ +-rw-r--r-- 0 0 0 54016172 2024-02-28 16:51:42.000000 data.tar.xz │ ├── control.tar.xz │ │ ├── control.tar │ │ │ ├── ./md5sums │ │ │ │ ├── ./md5sums │ │ │ │ │┄ Files differ │ ├── data.tar.xz │ │ ├── data.tar │ │ │ ├── file list │ │ │ │ @@ -79,15 +79,15 @@ │ │ │ │ -rw-r--r-- 0 root (0) root (0) 32513 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_chunk.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 52164 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_cmake.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 34137 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_coreshell.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 14808 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_couple.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 12159 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_diffusion.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 16288 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_dispersion.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 15378 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_drude.html │ │ │ │ --rw-r--r-- 0 root (0) root (0) 65068 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_drude2.html │ │ │ │ +-rw-r--r-- 0 root (0) root (0) 65049 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_drude2.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 14427 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_elastic.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 34918 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_github.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 14995 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_granular.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 16991 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_grid.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 15687 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_kappa.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 55178 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_lammps_gui.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 13375 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/Howto_library.html │ │ │ │ @@ -914,15 +914,15 @@ │ │ │ │ -rw-r--r-- 0 root (0) root (0) 44404 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_store_force.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 48725 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_store_state.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 52354 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_temp_berendsen.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 54072 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_temp_csvr.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 52686 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_temp_rescale.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 44956 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_temp_rescale_eff.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 49982 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_tfmc.html │ │ │ │ --rw-r--r-- 0 root (0) root (0) 64768 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_tgnh_drude.html │ │ │ │ +-rw-r--r-- 0 root (0) root (0) 64785 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_tgnh_drude.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 51539 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_thermal_conductivity.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 50591 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_ti_spring.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 47370 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_tmd.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 66678 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_ttm.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 45289 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_tune_kspace.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 52810 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_vector.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 51687 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/fix_viscosity.html │ │ │ │ @@ -984,15 +984,15 @@ │ │ │ │ -rw-r--r-- 0 root (0) root (0) 57872 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/molecule.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 52564 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/neb.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 47839 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/neb_spin.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 42941 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/neigh_modify.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 33229 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/neighbor.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 28001 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/newton.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 35478 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/next.html │ │ │ │ --rw-r--r-- 0 root (0) root (0) 44423 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/objects.inv │ │ │ │ +-rw-r--r-- 0 root (0) root (0) 44419 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/objects.inv │ │ │ │ -rw-r--r-- 0 root (0) root (0) 73406 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/package.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 61356 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_adp.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 56262 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_agni.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 67347 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_aip_water_2dm.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 66648 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_airebo.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 65685 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_amoeba.html │ │ │ │ -rw-r--r-- 0 root (0) root (0) 63748 2024-02-28 16:51:42.000000 ./usr/share/doc/lammps/html/pair_atm.html │ │ │ ├── ./usr/share/doc/lammps/html/Howto_drude2.html │ │ │ │ @@ -472,15 +472,15 @@ │ │ │ │ fix NPT ATOMS npt temp 300. 300. 100 iso 1. 1. 500 │ │ │ │ fix_modify NPT temp TATOMS press thermo_press │ │ │ │ fix NVT DRUDES nvt temp 1. 1. 20 │ │ │ │ fix INVERSE all drude/transform/inverse │ │ │ │ │ │ │ │ │ │ │ │
Another option for thermalizing the Drude model is to use the │ │ │ │ -temperature-grouped Nose-Hoover (TGNH) thermostat proposed by (Son). │ │ │ │ +temperature-grouped Nose-Hoover (TGNH) thermostat proposed by (Son). │ │ │ │ This is implemented as fix tgnvt/drude and fix tgnpt/drude. │ │ │ │ It separates the kinetic energy into three contributions: │ │ │ │ the molecular center of mass (COM) motion, the motion of atoms or atom-Drude pairs relative to molecular COMs, │ │ │ │ and the relative motion of atom-Drude pairs. │ │ │ │ An independent Nose-Hoover chain is applied to each type of motion. │ │ │ │ When TGNH is used, the temperatures of molecular, atomic and Drude motion can be printed out with thermo_style command command.
│ │ │ │NVT simulation with TGNH thermostat
│ │ │ ├── ./usr/share/doc/lammps/html/fix_tgnh_drude.html │ │ │ │ @@ -442,15 +442,15 @@ │ │ │ │ │ │ │ │Example input scripts available: examples/PACKAGES/drude
│ │ │ │ │ │ │ │These commands are variants of the Nose-Hoover fix styles fix nvt and fix npt for thermalized Drude polarizable │ │ │ │ models. They apply temperature-grouped Nose-Hoover thermostat (TGNH) │ │ │ │ -proposed by (Son). When there are fast vibrational │ │ │ │ +proposed by (Son). When there are fast vibrational │ │ │ │ modes with frequencies close to Drude oscillators (e.g. double bonds or │ │ │ │ out-of-plane torsions), this thermostat can provide better kinetic │ │ │ │ energy equipartitioning.
│ │ │ │The difference between TGNH and the original Nose-Hoover thermostat is that,
│ │ │ │ TGNH separates the kinetic energy of the group into three contributions:
│ │ │ │ molecular center of mass (COM) motion,
│ │ │ │ motion of COM of atom-Drude pairs or non-polarizable atoms relative to molecular COM,
│ │ │ ├── ./usr/share/doc/lammps/html/objects.inv
│ │ │ │ ├── Sphinx inventory
│ │ │ │ │ @@ -1,12 +1,13 @@
│ │ │ │ │ # Sphinx inventory version 2
│ │ │ │ │ # Project: LAMMPS
│ │ │ │ │ # Version: 7 Feb 2024
│ │ │ │ │ # The remainder of this file is compressed using zlib.
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