diff --git a/doc/src/Section_commands.txt b/doc/src/Section_commands.txt
index 91ec679360..8f36c3c98a 100644
--- a/doc/src/Section_commands.txt
+++ b/doc/src/Section_commands.txt
@@ -896,7 +896,7 @@ KOKKOS, o = USER-OMP, t = OPT.
 "lubricate/poly (o)"_pair_lubricate.html,
 "lubricateU"_pair_lubricateU.html,
 "lubricateU/poly"_pair_lubricateU.html,
-"meam (o)"_pair_meam.html,
+"meam"_pair_meam.html,
 "mie/cut (o)"_pair_mie.html,
 "morse (got)"_pair_morse.html,
 "nb3b/harmonic (o)"_pair_nb3b_harmonic.html,
@@ -956,7 +956,7 @@ package"_Section_start.html#start_3.
 "lj/sdk/coul/long (go)"_pair_sdk.html,
 "lj/sdk/coul/msm (o)"_pair_sdk.html,
 "lj/sf (o)"_pair_lj_sf.html,
-"meam/spline"_pair_meam_spline.html,
+"meam/spline (o)"_pair_meam_spline.html,
 "meam/sw/spline"_pair_meam_sw_spline.html,
 "mgpt"_pair_mgpt.html,
 "morse/smooth/linear"_pair_morse.html,
diff --git a/lib/linalg/Makefile.gfortran b/lib/linalg/Makefile.gfortran
old mode 100755
new mode 100644
diff --git a/lib/linalg/Makefile.mingw32-cross b/lib/linalg/Makefile.mingw32-cross
old mode 100755
new mode 100644
diff --git a/lib/linalg/Makefile.mingw64-cross b/lib/linalg/Makefile.mingw64-cross
old mode 100755
new mode 100644
diff --git a/lib/meam/Makefile.tbird b/lib/meam/Makefile.tbird
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_data.F b/lib/meam/meam_data.F
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_dens_final.F b/lib/meam/meam_dens_final.F
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_dens_init.F b/lib/meam/meam_dens_init.F
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_force.F b/lib/meam/meam_force.F
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_setup_done.F b/lib/meam/meam_setup_done.F
old mode 100755
new mode 100644
index 0684fde70b..8c22f4ca89
--- a/lib/meam/meam_setup_done.F
+++ b/lib/meam/meam_setup_done.F
@@ -183,6 +183,16 @@ c
       real*8, external :: zbl
       real*8, external :: compute_phi
 
+c check for previously allocated arrays and free them
+      if(allocated(phir)) deallocate(phir)
+      if(allocated(phirar)) deallocate(phirar)
+      if(allocated(phirar1)) deallocate(phirar1)
+      if(allocated(phirar2)) deallocate(phirar2)
+      if(allocated(phirar3)) deallocate(phirar3)
+      if(allocated(phirar4)) deallocate(phirar4)
+      if(allocated(phirar5)) deallocate(phirar5)
+      if(allocated(phirar6)) deallocate(phirar6)
+
 c allocate memory for array that defines the potential
       allocate(phir(nr,(neltypes*(neltypes+1))/2))
 
diff --git a/lib/meam/meam_setup_global.F b/lib/meam/meam_setup_global.F
old mode 100755
new mode 100644
diff --git a/lib/meam/meam_setup_param.F b/lib/meam/meam_setup_param.F
old mode 100755
new mode 100644
diff --git a/lib/reax/Makefile.g95 b/lib/reax/Makefile.g95
old mode 100755
new mode 100644
diff --git a/lib/reax/Makefile.gfortran b/lib/reax/Makefile.gfortran
old mode 100755
new mode 100644
diff --git a/src/MANYBODY/pair_vashishta_table.cpp b/src/MANYBODY/pair_vashishta_table.cpp
old mode 100755
new mode 100644
diff --git a/src/MANYBODY/pair_vashishta_table.h b/src/MANYBODY/pair_vashishta_table.h
old mode 100755
new mode 100644
diff --git a/src/fix_tmd.cpp b/src/fix_tmd.cpp
index 8d25739f61..f5ed970da7 100644
--- a/src/fix_tmd.cpp
+++ b/src/fix_tmd.cpp
@@ -460,9 +460,9 @@ void FixTMD::readfile(char *file)
       else
         n = sscanf(bufptr,TAGINT_FORMAT " %lg %lg %lg",&itag,&x,&y,&z);
 
-      if (n < 0 && me == 0) {
-        error->warning(FLERR,"Ignoring empty or incorrectly formatted"
-                             " line in target file");
+      if (n < 0) {
+        if (me == 0) error->warning(FLERR,"Ignoring empty or incorrectly"
+                                    " formatted line in target file");
         bufptr = next + 1;
         continue;
       }