Catalogue - Revision history

Daniel Castaño at 20:28, 14 August 2017

2017-08-14T20:28:56Z

2017-04-28T16:06:40Z

Getting started

2017-04-26T08:40:56Z

2017-04-26T08:40:14Z

2017-04-26T08:39:38Z

During creation

2017-04-26T08:38:53Z

Entering a single tomogram

2017-04-26T08:38:37Z

Into an existing catalogue

2017-04-26T08:37:45Z

Into an existing catalogue

2017-04-26T08:37:30Z

During creation

2017-04-26T08:36:29Z

During creation

@@ Line 56: / Line 56: @@
 In this case, the flag is <tt>addvll</tt> and you use the <tt>c</tt> flag to select an already exisitng catalogue (instead of <tt>create</tt>).
- <tt>dcm -c myCatalogue -addvll myList.vll</tt>
+<tt>dcm -c myCatalogue -addvll myList.vll</tt>
 === Entering a single tomogram ===
@@ Line 62: / Line 62: @@
 You can use the <tt>addTomogram</tt> (short <tt>at</tt>) flag:
- <tt>dcm -c myCatalogue -at myTomogram.em</tt>
+<tt>dcm -c myCatalogue -at myTomogram.em</tt>
 to add a single tomogram to an existing catalogue.

@@ Line 12: / Line 12: @@
 ==Getting started==
 The best way to get familiar with the logic of the ''Dynamo'' catalogues is by [[dynamo_catalogue_tutorial|generating a test catalogue]] for a set of automatically created toy tomograms.
 == Basic functionalities ==

@@ Line 34: / Line 34: @@
 <tt>dcm -create myCatalogue -fromvll myList.vll</tt>
-Here <tt>myList.vll</tt> is a [Volume list file | volume list]. This is just a text file; the syntax can be rather complex, but in its simplest form it can be just a file with a tomogram file name at each line, like:
+Here <tt>myList.vll</tt> is a [[Volume list file | volume list]]. This is just a text file; the syntax can be rather complex, but in its simplest form it can be just a file with a tomogram file name at each line, like:
   <nowiki>tomogram1.mrc
 tomogram2.mrc</nowiki>
-or you can [Volume_list_file#Advanced_syntax | pass metadata] of each tomogram
+or you can [[Volume_list_file#Advanced_syntax | pass metadata]] of each tomogram
   <nowiki>tomogram1.mrc
@@ Line 49: / Line 49: @@
 tomogram2.mrc</nowiki>
-This metadata can be also passed in a later stage by editing the [dcm GUI].
+This metadata can be also passed in a later stage by editing the [[dcm GUI|<tt>dcm</tt> GUI]].
 ==== Into an existing catalogue ====

@@ Line 49: / Line 49: @@
 tomogram2.mrc</nowiki>
-This metadata can be also passed in a later stage by editing the [dec GUI].
+This metadata can be also passed in a later stage by editing the [dcm GUI].
 ==== Into an existing catalogue ====

@@ Line 39: / Line 39: @@
 tomogram2.mrc</nowiki>
-or yo can [Volume_list_file#Advanced_syntax | pass metadata] of each tomogram
+or you can [Volume_list_file#Advanced_syntax | pass metadata] of each tomogram
   <nowiki>tomogram1.mrc
@@ Line 48: / Line 48: @@
 tomogram2.mrc</nowiki>
 ==== Into an existing catalogue ====

@@ Line 39: / Line 39: @@
 tomogram2.mrc</nowiki>
-or passing metadata of each tomogram
+or yo can [Volume_list_file#Advanced_syntax | pass metadata] of each tomogram
   <nowiki>tomogram1.mrc
@@ Line 46: / Line 45: @@
 * apix=0.6;
 * ftype =1;
-* ytilt = -45 60
+* ytilt = -45 60;
 tomogram2.mrc</nowiki>

← Older revision		Revision as of 08:36, 26 April 2017
Line 37:		Line 37:

	<nowiki>tomogram1.mrc		<nowiki>tomogram1.mrc
		+	tomogram2.mrc</nowiki>
		+
		+	or passing metadata of each tomogram
		+	[Volume_list_file#Advanced_syntax : passing metadata]
		+
		+	<nowiki>tomogram1.mrc
		+	* def=1.2;
		+	* apix=0.6;
		+	* ftype =1;
		+	* ytilt = -45 60
	tomogram2.mrc</nowiki>		tomogram2.mrc</nowiki>