Index: help/help/html/features/preferences.html =================================================================== diff -u -N -r352be780448227c5e2eaac70119c028c5a7eff13 -r214ad7e089fdf9cde66ac5e5d56d498101bbe2c3 --- help/help/html/features/preferences.html (.../preferences.html) (revision 352be780448227c5e2eaac70119c028c5a7eff13) +++ help/help/html/features/preferences.html (.../preferences.html) (revision 214ad7e089fdf9cde66ac5e5d56d498101bbe2c3) @@ -222,18 +222,16 @@ Add Temperature Factor annotation to alignment - if selected, values extracted from the Temperature Factor column for the backbone atoms in the PDB file will be extracted as annotation - lines shown on the alignment. + lines shown on the alignment.
Since 2.11.2, scores from the Temperature Column for structures imported via the 3D-Beacons network may be shown instead as model quality or reliability scores.

- Default structure viewer - choose Jmol or CHIMERA for + Default structure viewer - choose Jmol, CHIMERA, CHIMERAX or PYMOL for viewing 3D structures.

- Path to Chimera program - Optional, as Jalview will search - standard installation paths for Windows, Linux or MacOS. If you have - installed Chimera in a non-standard location, you can specify it - here, by entering the full path to the Chimera executable program. - Double-click this field to open a file chooser dialog. + Path to Chimera/X/Pymol program - Optional, as Jalview will search + standard installation paths for Windows, Linux or MacOS. If Jalview cannot locate the installation for your selected structure viewer, a dialog will be shown. If you have + installed the chosen viewer in a non-standard location, you can specify it + here, by entering the full path to its executable.
For Chimera, locate the path to the chimera program, similarly for ChimeraX and Pymol. Rather than typing in the path, you can also double-click this field to open a file chooser dialog.

-

PDB Fields shown in Search and Structure Summaries - ticks in this table indicate fields shown by default when browsing results of a free text search via the PDB sequence fetcher, or 3D structures Index: help/help/html/releases.html =================================================================== diff -u -N -re4a1d321196af18049444db25ce0e2b142cdd984 -r214ad7e089fdf9cde66ac5e5d56d498101bbe2c3 --- help/help/html/releases.html (.../releases.html) (revision e4a1d321196af18049444db25ce0e2b142cdd984) +++ help/help/html/releases.html (.../releases.html) (revision 214ad7e089fdf9cde66ac5e5d56d498101bbe2c3) @@ -58,9 +58,13 @@ 2.11.1.5
- 22/06/2021 - Development + id="Jalview.2.11.2">2.11.2.0
+ 29/09/2021 + +

+ Development Index: help/help/html/whatsNew.html =================================================================== diff -u -N -re4a1d321196af18049444db25ce0e2b142cdd984 -r214ad7e089fdf9cde66ac5e5d56d498101bbe2c3 --- help/help/html/whatsNew.html (.../whatsNew.html) (revision e4a1d321196af18049444db25ce0e2b142cdd984) +++ help/help/html/whatsNew.html (.../whatsNew.html) (revision 214ad7e089fdf9cde66ac5e5d56d498101bbe2c3) @@ -24,18 +24,20 @@

- Welcome to Jalview Version $$Version-Rel$$ !!
Please take a + Welcome to Jalview Version $$Version-Rel$$ !! +
Please take a look at the release - notes for this build. + notes for this build. Read on for the highlights.

- Jalview 2.11.1.4 + Highlights in 2.11.2

-

Jalview 2.11.1.4 is the fourth patch release in the 2.11.1 - series. One critical bug was fixed in this release - when Jalview - would occasionally hang when viewing structures in Jmol. This release - also introduces a number of new configuration options for disabling - web service connections used by the Jalview Debian package. +

New features for working with 3D Structure
+ Jalview 2.11.2 features a number of new capabilities: