Slice - Revision history

Bell: 15 revisions

2014-03-28T03:55:45Z

15 revisions

DBorhani at 21:49, 16 March 2011

2011-03-16T21:49:51Z

DBorhani at 21:49, 16 March 2011

2011-03-16T21:49:20Z

DBorhani at 21:48, 16 March 2011

2011-03-16T21:48:49Z

DBorhani at 21:47, 16 March 2011

2011-03-16T21:47:50Z

DBorhani at 21:46, 16 March 2011

2011-03-16T21:46:37Z

DBorhani at 21:45, 16 March 2011

2011-03-16T21:45:37Z

DBorhani at 18:01, 16 March 2011

2011-03-16T18:01:03Z

DBorhani at 17:57, 16 March 2011

2011-03-16T17:57:57Z

DBorhani at 17:55, 16 March 2011

2011-03-16T17:55:18Z

← Older revision		Revision as of 21:49, 16 March 2011
Line 1:		Line 1:
−	[[File:Slice_example_2_screenshot.png\|~~500px~~\|thumb\|right\|border\|Screenshot of slice example #2]]	+	[[File:Slice_example_2_screenshot.png\|600px\|thumb\|right\|border\|Screenshot of slice example #2]]

	[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.		[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.

← Older revision		Revision as of 21:49, 16 March 2011
Line 1:		Line 1:
−	[[File:Slice_example_2_screenshot.png\|~~600px~~\|thumb\|~~center~~\|border\|Screenshot of slice example #2]]	+	[[File:Slice_example_2_screenshot.png\|500px\|thumb\|right\|border\|Screenshot of slice example #2]]

	[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.		[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.

← Older revision		Revision as of 21:48, 16 March 2011
Line 1:		Line 1:
		+	[[File:Slice_example_2_screenshot.png\|600px\|thumb\|center\|border\|Screenshot of slice example #2]]
		+
	[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.		[[slice]] creates a slice object from a [[:Category:Maps\|map]] object.
−
−	~~[[File:Slice_example_2_screenshot.png\|400px\|thumb\|right\|border\|Screenshot of slice example #2]]~~

	== USAGE ==		== USAGE ==

@@ Line 1: / Line 1: @@
 [[slice]] creates a slice object from a [[:Category:Maps|map]] object.
-[[File:Slice_example_2_screenshot.png|400px|thumb|left|border|Screenshot of slice example #2]]
+[[File:Slice_example_2_screenshot.png|400px|thumb|right|border|Screenshot of slice example #2]]
 == USAGE ==
@@ Line 68: / Line 68: @@
 == PYMOL API ==
 <source lang="python">
-cmd.slice_new(string slice_name, string map_name, integer opacity=1, integer resolution=5, integer state=0, integer source_state=0)
+cmd.slice_new(string slice_name, string map_name, integer state=0, integer source_state=0)
 </source>

@@ Line 1: / Line 1: @@
 [[slice]] creates a slice object from a [[:Category:Maps|map]] object.
 == USAGE ==
@@ Line 17: / Line 19: @@
 *'''state''' = the state into which the object should be loaded (default=1; set state=0 to append new mesh as a new state)
 *'''source_state''' = the state of the map from which the object should be loaded (default=0)
 == EXAMPLES ==

← Older revision	Revision as of 03:55, 28 March 2014
(No difference)

@@ Line 3: / Line 3: @@
 == USAGE ==
 <source lang="python">
-slice_new name, map, [opacity, [resolution, [state, [source_state]]]]
+slice_new name, map, [state, [source_state]]
 </source>
@@ Line 9: / Line 9: @@
 <source lang="python">
-slice name, map, [opacity, [resolution, [state, [source_state]]]]
+slice name, map, [state, [source_state]]
 </source>
@@ Line 15: / Line 15: @@
 *'''name''' = the name for the new slice object (string)
 *'''map''' = the name of the map object to use for computing the slice (string)
 *'''state''' = the state into which the object should be loaded (default=1; set state=0 to append new mesh as a new state)
 *'''source_state''' = the state of the map from which the object should be loaded (default=0)
 == EXAMPLES ==
 <source lang="python">
@@ Line 32: / Line 33: @@
 # Reset the view, to align view on XYZ axes
 reset
-# Create a map slice perpendicular to current view. (Non-tracking by default.)
+# (Optional: Adjust view direction to your liking)
 slice slice_A, apbs_map
 # Rotate camera 90 degrees about the vertical axis
@@ Line 53: / Line 56: @@
 color ramp55MltGO, slice_C
-# The result:
+# Adjust the fineness of the slice color gradations:
 </source>
 == PYMOL API ==
@@ Line 64: / Line 73: @@
 == NOTES ==
-Occasionally mis-identified as "slice_map" in documentation. [[slice]] or [[slice|slice_new]] is the correct command.
+Mis-identified as "slice_map" in documentation. [[slice]] or [[slice|slice_new]] is the correct command. Documentation also mentions two optional parameters which seem to be no longer supported (opacity = opacity of the new slice, and resolution = the number of pixels per sampling).
 == SEE ALSO ==

@@ Line 54: / Line 54: @@
 # The result:
-[[File:Example.jpg]]
+[[File:Slice_example_2.png]]
 </source>