[PyMOL] issue with the allign command

Hi,<br /><br />I encountered a weird recent behavior of the command align.<br /><br />In a script where I use the command<br />align (PO4 &amp; name OP1+OP2+P), PO4_target<br /><br />Where PO4 is a selection of O3&#39;,O5&quot;,P,OP1,OP2 atoms as well as PO4_target<br /><br />When I run the script with &quot;pymol -c&quot; I get the following<br /><br />PyMOL&gt;align (PO4 &amp; name OP1+OP2+P), PO4_target<br />&nbsp;Match: read scoring matrix.<br />&nbsp;Match: assigning 1 x 1 pairwise scores.<br />&nbsp;MatchAlign: aligning residues (1 vs 1)...<br />&nbsp;ExecutiveAlign: 2 atoms aligned.<br />&nbsp;Executive: RMS =&nbsp;&nbsp;&nbsp; 0.023 (2 to 2 atoms)<br /><br />The allignment is made only on 2 atoms. (OP1 and OP2)<br />While, it works if I introduce the command in the graphic window of pymol.<br /><br />This worked perfectly with earlier versions of pymol.<br /><br />Best,<br /><br />Pascal