JAL-3111 patch exercises for revised Structure Viewer dialog

[jalview-manual.git] / TheJalviewTutorial.tex

diff --git a/TheJalviewTutorial.tex b/TheJalviewTutorial.tex
index 46ca917..9097dc0 100644 (file)
--- a/TheJalviewTutorial.tex
+++ b/TheJalviewTutorial.tex
@@ -3273,11 +3273,11 @@ Verify that the Jmol display is as it was when you just saved the file.}
 \exstep{Continue with the Jalview project created in exercise
 \ref{viewingstructex}}
 
-\exstep{Open the 3D Structure chooser dialog from the popup menu for FER1\_SPIOL
+\exstep{Open the 3D Structure chooser dialog from the popup menu for FER1\_MAIZE
 by right-clicking its ID (CMD-click on Macs), and selecting {\sl $\Rightarrow$
 3D Structure Data \ldots } }
 
-\exstep{Pick 1A70 from the Structure Chooser dialog, and make sure the {\sl Superimpose} option is checked before clicking the {\bf Add}
+\exstep{Pick 1gaq from the Structure Chooser dialog, and make sure the {\sl Superpose} option is checked before clicking the {\bf Add}
 button to superimpose the structure associated with
 FER1\_MAIZE with the one associated with FER1\_SPIOL.
 
@@ -3477,7 +3477,7 @@ each one, open the Structure Chooser dialog box by right clicking the mouse on
 sequence name to open the context menu and select {\sl
 $\Rightarrow$ 3D Structure Data}.
 Select `Cached Structures' from
-the drop-down menu in the Structure Chooser dialog box, select the
+the drop-down menu in the Structure Chooser dialog box and select the
 DNMT1\_MOUSE.pdb structure, and click {\bf View}.
 
 {\em Part of the newly opened structure will be coloured the same way as
@@ -3488,10 +3488,9 @@ the associated DNMT1\_MOUSE sequence is in the alignment view.}
 sequences in the alignment.}
 }
 \exstep{Repeat the previous two steps for each of the other
-alignments. In each case, after selecting the DNMT1\_MOUSE.pdb structure and
-hitting the `View' button on the Structure Chooser dialog. Jalview will ask if
-you wish to create a new Jmol view, respond {\bf `Yes'} each time. This will
-ensure each sequence fragment is associated with the {\bf same} Jmol view. }
+  alignments. For those, after selecting the DNMT1\_MOUSE.pdb structure you
+  should select `Add' to ensure each domain alignment is associated
+  with the {\bf same} Jmol view. }
 
 \exstep{Pick a different
 colourscheme for each alignment, and use the {\sl Colour by ..} submenu to