From 3bbba19e854a10f071cc997c12f868a397f3170f Mon Sep 17 00:00:00 2001
From: Axel Kohlmeyer <akohlmey@gmail.com>
Date: Tue, 27 Oct 2015 07:07:38 -0400
Subject: [PATCH] correct bug in cleanup script and update permissions
 accordingly

---
 cleanup.sh                              | 4 ++--
 src/KOKKOS/angle_charmm_kokkos.cpp      | 0
 src/KOKKOS/angle_harmonic_kokkos.cpp    | 0
 src/KOKKOS/bond_fene_kokkos.cpp         | 0
 src/KOKKOS/bond_harmonic_kokkos.cpp     | 0
 src/KOKKOS/compute_temp_kokkos.cpp      | 0
 src/KOKKOS/dihedral_charmm_kokkos.cpp   | 0
 src/KOKKOS/dihedral_opls_kokkos.cpp     | 0
 src/KOKKOS/fix_deform_kokkos.cpp        | 0
 src/KOKKOS/fix_nh_kokkos.cpp            | 0
 src/KOKKOS/fix_nph_kokkos.cpp           | 0
 src/KOKKOS/fix_npt_kokkos.cpp           | 0
 src/KOKKOS/fix_nvt_kokkos.cpp           | 0
 src/KOKKOS/fix_wall_reflect_kokkos.cpp  | 0
 src/KOKKOS/improper_harmonic_kokkos.cpp | 0
 src/KOKKOS/neigh_bond_kokkos.cpp        | 0
 src/KOKKOS/pair_buck_kokkos.cpp         | 0
 src/KOKKOS/pair_coul_dsf_kokkos.cpp     | 0
 src/KOKKOS/pair_coul_wolf_kokkos.cpp    | 0
 src/KOKKOS/pair_eam_alloy_kokkos.cpp    | 0
 src/KOKKOS/pair_eam_fs_kokkos.cpp       | 0
 src/KOKKOS/pair_eam_kokkos.cpp          | 0
 src/KOKKOS/pair_sw_kokkos.cpp           | 0
 src/KOKKOS/pair_tersoff_kokkos.cpp      | 0
 src/KOKKOS/pair_tersoff_mod_kokkos.cpp  | 0
 src/KOKKOS/pair_tersoff_zbl_kokkos.cpp  | 0
 src/MANYBODY/pair_polymorphic.cpp       | 0
 src/MANYBODY/pair_vashishta.cpp         | 0
 src/MC/fix_tfmc.cpp                     | 0
 src/USER-INTEL/pair_sw_intel.cpp        | 0
 tools/xmovie/control.c                  | 0
 tools/xmovie/dummy.c                    | 0
 tools/xmovie/hpsort.c                   | 0
 tools/xmovie/read.c                     | 0
 tools/xmovie/scene.c                    | 0
 tools/xmovie/toascii.c                  | 0
 tools/xmovie/tobinary.c                 | 0
 tools/xmovie/version.c                  | 0
 tools/xmovie/xmovie.c                   | 0
 39 files changed, 2 insertions(+), 2 deletions(-)
 mode change 100755 => 100644 src/KOKKOS/angle_charmm_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/angle_harmonic_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/bond_fene_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/bond_harmonic_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/compute_temp_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/dihedral_charmm_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/dihedral_opls_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_deform_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_nh_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_nph_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_npt_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_nvt_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/fix_wall_reflect_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/improper_harmonic_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/neigh_bond_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_buck_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_coul_dsf_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_coul_wolf_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_eam_alloy_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_eam_fs_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_eam_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_sw_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_tersoff_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_tersoff_mod_kokkos.cpp
 mode change 100755 => 100644 src/KOKKOS/pair_tersoff_zbl_kokkos.cpp
 mode change 100755 => 100644 src/MANYBODY/pair_polymorphic.cpp
 mode change 100755 => 100644 src/MANYBODY/pair_vashishta.cpp
 mode change 100755 => 100644 src/MC/fix_tfmc.cpp
 mode change 100755 => 100644 src/USER-INTEL/pair_sw_intel.cpp
 mode change 100755 => 100644 tools/xmovie/control.c
 mode change 100755 => 100644 tools/xmovie/dummy.c
 mode change 100755 => 100644 tools/xmovie/hpsort.c
 mode change 100755 => 100644 tools/xmovie/read.c
 mode change 100755 => 100644 tools/xmovie/scene.c
 mode change 100755 => 100644 tools/xmovie/toascii.c
 mode change 100755 => 100644 tools/xmovie/tobinary.c
 mode change 100755 => 100644 tools/xmovie/version.c
 mode change 100755 => 100644 tools/xmovie/xmovie.c

diff --git a/cleanup.sh b/cleanup.sh
index f7e1c85b5c..94e6befd19 100755
--- a/cleanup.sh
+++ b/cleanup.sh
@@ -1,11 +1,11 @@
 #!/bin/sh
 # do some cleaning up to fix permissions and remove cruft
 
-for f in `find ./ -name \*.orig -or -name \*~ -or -name \*.rej -print`
+for f in `find ./ -name \*.orig -print -or -name \*~ -print -or -name \*.rej -print`
 do rm -v $f
 done
 
-for f in `find ./ -name \*.cpp -or -name \*.c -or -name \*.h -print`
+for f in `find ./ -name \*.cpp -print -or -name \*.c -print -or -name \*.h -print`
 do chmod -x $f
 done
 
diff --git a/src/KOKKOS/angle_charmm_kokkos.cpp b/src/KOKKOS/angle_charmm_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/angle_harmonic_kokkos.cpp b/src/KOKKOS/angle_harmonic_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/bond_fene_kokkos.cpp b/src/KOKKOS/bond_fene_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/bond_harmonic_kokkos.cpp b/src/KOKKOS/bond_harmonic_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/compute_temp_kokkos.cpp b/src/KOKKOS/compute_temp_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/dihedral_charmm_kokkos.cpp b/src/KOKKOS/dihedral_charmm_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/dihedral_opls_kokkos.cpp b/src/KOKKOS/dihedral_opls_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_deform_kokkos.cpp b/src/KOKKOS/fix_deform_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_nh_kokkos.cpp b/src/KOKKOS/fix_nh_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_nph_kokkos.cpp b/src/KOKKOS/fix_nph_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_npt_kokkos.cpp b/src/KOKKOS/fix_npt_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_nvt_kokkos.cpp b/src/KOKKOS/fix_nvt_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/fix_wall_reflect_kokkos.cpp b/src/KOKKOS/fix_wall_reflect_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/improper_harmonic_kokkos.cpp b/src/KOKKOS/improper_harmonic_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/neigh_bond_kokkos.cpp b/src/KOKKOS/neigh_bond_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_buck_kokkos.cpp b/src/KOKKOS/pair_buck_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_coul_dsf_kokkos.cpp b/src/KOKKOS/pair_coul_dsf_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_coul_wolf_kokkos.cpp b/src/KOKKOS/pair_coul_wolf_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_eam_alloy_kokkos.cpp b/src/KOKKOS/pair_eam_alloy_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_eam_fs_kokkos.cpp b/src/KOKKOS/pair_eam_fs_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_eam_kokkos.cpp b/src/KOKKOS/pair_eam_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_sw_kokkos.cpp b/src/KOKKOS/pair_sw_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_tersoff_kokkos.cpp b/src/KOKKOS/pair_tersoff_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_tersoff_mod_kokkos.cpp b/src/KOKKOS/pair_tersoff_mod_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/KOKKOS/pair_tersoff_zbl_kokkos.cpp b/src/KOKKOS/pair_tersoff_zbl_kokkos.cpp
old mode 100755
new mode 100644
diff --git a/src/MANYBODY/pair_polymorphic.cpp b/src/MANYBODY/pair_polymorphic.cpp
old mode 100755
new mode 100644
diff --git a/src/MANYBODY/pair_vashishta.cpp b/src/MANYBODY/pair_vashishta.cpp
old mode 100755
new mode 100644
diff --git a/src/MC/fix_tfmc.cpp b/src/MC/fix_tfmc.cpp
old mode 100755
new mode 100644
diff --git a/src/USER-INTEL/pair_sw_intel.cpp b/src/USER-INTEL/pair_sw_intel.cpp
old mode 100755
new mode 100644
diff --git a/tools/xmovie/control.c b/tools/xmovie/control.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/dummy.c b/tools/xmovie/dummy.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/hpsort.c b/tools/xmovie/hpsort.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/read.c b/tools/xmovie/read.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/scene.c b/tools/xmovie/scene.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/toascii.c b/tools/xmovie/toascii.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/tobinary.c b/tools/xmovie/tobinary.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/version.c b/tools/xmovie/version.c
old mode 100755
new mode 100644
diff --git a/tools/xmovie/xmovie.c b/tools/xmovie/xmovie.c
old mode 100755
new mode 100644