After updating libraries system still needs the old one.

Question

Hi. Almost always when I upgrade library and som other packages, system still needs the old one but at the same time it needs the new one. Like when i updated gnome and libffi, it needs libffi.so.5 and libffi.so.6. When I run gnome-shell with libffi.so.5 I've got:
/usr/bin/gnome-shell: error while loading shared libraries: libffi.so.6: cannot open shared object file: No such file or directory
When I upgrade it, new error appears:
/usr/bin/gnome-shell: error while loading shared libraries: libffi.so.6: cannot open shared object file: No such file or directory
It happend with more apps. I think something is wrong with my system and i don't know what.

Answer 1

I am using vim in the console but have gvim because it is compiled with X copy/paste support.
/usr/local/lib is empty.
I just updated fully (included a gvim and vim-runtime update).
I deleted the files I added earlier (libffi.so.5, libffi.so.5.0.10).
I've also rebooted.
As you can see below, vim needs both libffi.so.5 and libffi.so.6.
[ismo@it ~]$ ls -l /usr/local/lib
total 0
[ismo@it ~]$ vim
vim: error while loading shared libraries: libffi.so.5: cannot open shared object file: No such file or directory
[ismo@it ~]$ ldd /usr/bin/vim
linux-vdso.so.1 => (0x00007ffff292d000)
libgtk-x11-2.0.so.0 => /usr/lib/libgtk-x11-2.0.so.0 (0x00007f755e1b7000)
libgdk-x11-2.0.so.0 => /usr/lib/libgdk-x11-2.0.so.0 (0x00007f755df04000)
libgdk_pixbuf-2.0.so.0 => /usr/lib/libgdk_pixbuf-2.0.so.0 (0x00007f755dce2000)
libpango-1.0.so.0 => /usr/lib/libpango-1.0.so.0 (0x00007f755da97000)
libgobject-2.0.so.0 => /usr/lib/libgobject-2.0.so.0 (0x00007f755d849000)
libglib-2.0.so.0 => /usr/lib/libglib-2.0.so.0 (0x00007f755d555000)
libSM.so.6 => /usr/lib/libSM.so.6 (0x00007f755d34d000)
libICE.so.6 => /usr/lib/libICE.so.6 (0x00007f755d131000)
libXt.so.6 => /usr/lib/libXt.so.6 (0x00007f755cecb000)
libX11.so.6 => /usr/lib/libX11.so.6 (0x00007f755cb91000)
libm.so.6 => /lib/libm.so.6 (0x00007f755c89c000)
libncursesw.so.5 => /usr/lib/libncursesw.so.5 (0x00007f755c63f000)
libacl.so.1 => /lib/libacl.so.1 (0x00007f755c437000)
libgpm.so.2 => /usr/lib/libgpm.so.2 (0x00007f755c231000)
libdl.so.2 => /lib/libdl.so.2 (0x00007f755c02d000)
liblua.so.5.1 => /usr/lib/liblua.so.5.1 (0x00007f755be01000)
libperl.so => /usr/lib/perl5/core_perl/CORE/libperl.so (0x00007f755ba87000)
libpthread.so.0 => /lib/libpthread.so.0 (0x00007f755b86b000)
libc.so.6 => /lib/libc.so.6 (0x00007f755b4ca000)
libpython2.7.so.1.0 => /usr/lib/libpython2.7.so.1.0 (0x00007f755b111000)
libruby.so.1.9 => /usr/lib/libruby.so.1.9 (0x00007f755acfe000)
libpangocairo-1.0.so.0 => /usr/lib/libpangocairo-1.0.so.0 (0x00007f755aaf1000)
libXfixes.so.3 => /usr/lib/libXfixes.so.3 (0x00007f755a8ea000)
libatk-1.0.so.0 => /usr/lib/libatk-1.0.so.0 (0x00007f755a6c7000)
libcairo.so.2 => /usr/lib/libcairo.so.2 (0x00007f755a3c3000)
libgio-2.0.so.0 => /usr/lib/libgio-2.0.so.0 (0x00007f755a077000)
libpangoft2-1.0.so.0 => /usr/lib/libpangoft2-1.0.so.0 (0x00007f7559e4a000)
libfontconfig.so.1 => /usr/lib/libfontconfig.so.1 (0x00007f7559c14000)
libgmodule-2.0.so.0 => /usr/lib/libgmodule-2.0.so.0 (0x00007f7559a10000)
libXext.so.6 => /usr/lib/libXext.so.6 (0x00007f75597fd000)
libXrender.so.1 => /usr/lib/libXrender.so.1 (0x00007f75595f2000)
libXinerama.so.1 => /usr/lib/libXinerama.so.1 (0x00007f75593ef000)
libXi.so.6 => /usr/lib/libXi.so.6 (0x00007f75591e1000)
libXrandr.so.2 => /usr/lib/libXrandr.so.2 (0x00007f7558fd8000)
libXcursor.so.1 => /usr/lib/libXcursor.so.1 (0x00007f7558dce000)
libXcomposite.so.1 => /usr/lib/libXcomposite.so.1 (0x00007f7558bcb000)
libXdamage.so.1 => /usr/lib/libXdamage.so.1 (0x00007f75589c8000)
librt.so.1 => /lib/librt.so.1 (0x00007f75587c0000)
libpng15.so.15 => /usr/lib/libpng15.so.15 (0x00007f7558593000)
libgthread-2.0.so.0 => /usr/lib/libgthread-2.0.so.0 (0x00007f7558391000)
libpcre.so.1 => /usr/lib/libpcre.so.1 (0x00007f7558137000)
libffi.so.6 => /usr/lib/libffi.so.6 (0x00007f7557f2f000)
libuuid.so.1 => /usr/lib/libuuid.so.1 (0x00007f7557d2a000)
libxcb.so.1 => /usr/lib/libxcb.so.1 (0x00007f7557b0c000)
libattr.so.1 => /lib/libattr.so.1 (0x00007f7557908000)
/lib/ld-linux-x86-64.so.2 (0x00007f755e7e6000)
libcrypt.so.1 => /lib/libcrypt.so.1 (0x00007f75576d1000)
libutil.so.1 => /lib/libutil.so.1 (0x00007f75574ce000)
libfreetype.so.6 => /usr/lib/libfreetype.so.6 (0x00007f755721e000)
libpixman-1.so.0 => /usr/lib/libpixman-1.so.0 (0x00007f7556f96000)
libEGL.so.1 => /usr/lib/libEGL.so.1 (0x00007f7556d75000)
libGLESv2.so.2 => /usr/lib/libGLESv2.so.2 (0x00007f7556b70000)
libxcb-shm.so.0 => /usr/lib/libxcb-shm.so.0 (0x00007f755696e000)
libxcb-render.so.0 => /usr/lib/libxcb-render.so.0 (0x00007f7556765000)
libz.so.1 => /usr/lib/libz.so.1 (0x00007f755654f000)
libresolv.so.2 => /lib/libresolv.so.2 (0x00007f7556338000)
libbz2.so.1.0 => /lib/libbz2.so.1.0 (0x00007f7556128000)
libexpat.so.1 => /usr/lib/libexpat.so.1 (0x00007f7555efe000)
libXau.so.6 => /usr/lib/libXau.so.6 (0x00007f7555cfa000)
libXdmcp.so.6 => /usr/lib/libXdmcp.so.6 (0x00007f7555af4000)
libX11-xcb.so.1 => /usr/lib/libX11-xcb.so.1 (0x00007f75558f2000)
libxcb-dri2.so.0 => /usr/lib/libxcb-dri2.so.0 (0x00007f75556ee000)
libxcb-xfixes.so.0 => /usr/lib/libxcb-xfixes.so.0 (0x00007f75554e8000)
libxcb-shape.so.0 => /usr/lib/libxcb-shape.so.0 (0x00007f75552e5000)
libwayland-client.so.0 => /usr/lib/libwayland-client.so.0 (0x00007f75550db000)
libwayland-server.so.0 => /usr/lib/libwayland-server.so.0 (0x00007f7554ecd000)
libffi.so.5 => not found
libgbm.so.1 => /usr/lib/libgbm.so.1 (0x00007f7554cc7000)
libglapi.so.0 => /usr/lib/libglapi.so.0 (0x00007f7554a82000)
libudev.so.0 => /usr/lib/libudev.so.0 (0x00007f7554874000)
libdrm.so.2 => /usr/lib/libdrm.so.2 (0x00007f7554669000)
libffi.so.5 => not found
libffi.so.5 => not found