-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035	NN	6/18
1085				The image quality is not good;blurry
1155				There is no image volume only masks
1168				Low image quality; blurry
1179	NN	6/18
1212				Low image quality; blurry
1335				Low image quality; blurry
1368				Low image quality
1386	NN	6/20
1408				Low image quality
1429	NN	6/20
1454				Low image quality
1491	NN	6/23
1499	NN	6/23
1506	NN	6/23

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1005
1022
1026
1039
1059
1086

1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #
1
2
3
4
12
13
16
20
27
29
30
42
46
47
48
49
50
52
53
54
55
56
57
61
62
63
64
65
66
67
68
69
70
71
72
73
74
76
77
79
80
81
82
83
84
85
86
87
88
89
90
94
95
96
97
98
99
102
104
105
107
118
126

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1005	JL	Oct24	12:00	?
1022
1026
1039
1059
1086

1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1005
1022
1026
1039
1059
1086

1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #
1
2
3
4
12
13
16
20
27
29
30
42
46
47
48
49
50
52
53
54
55
56
57
61
62
63
64
65
66
67
68
69
70
71
72
73
74
76
77
79
80
81
82
83
84
85
86
87
88
89
90
94
95
96
97
98
99
102
104
105
107
118
126

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1005
1022
1026
1039
1059
1086

1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #
1
2
3
4
12
13
16
20
27
29
30
42
46
47
48
49
50
52
53
54
55
56
57
61
62
63
64
65
66
67
68
69
70
71
72
73
74
76
77
79
80
81
82
83
84
85
86
87
88
89
90
94
95
96
97
98
99
102
104
105
107
118
126

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

-- MubeenaMirza - 25 May 2007

Case #	Initials	Date	Time Spent
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

This is a short introduction training course for TWiki beginners (newbies).

Slide 1: A Taste of TWiki

The basic function of TWiki is a Wiki (if that helps!)

A Wiki is like a normal web site, except that you can edit the content in your browser

"Wiki" is short for "wiki wiki", the Hawaiian for "Quick"
The idea originates from Macintosh Hypercard, via Ward Cunningham
In Ward's words, Wiki is "the simplest online database that could possibly work"
A Wiki is basically a shared, online, persistant whiteboard

Slide 2: TWiki Wiki

TWiki implements the basic Wiki idea of a shared whiteboard

Anyone can add content
... or change what is written
... or change the organisation of the content
Whatever what you write is
... nicely presented
... remembered... and never forgotten

TWiki also acts as an "application platform" to integrate a number of other functions.

TWiki is an Open-Source development on TWiki.org

led by TWiki:Main.PeterThoeny
with over 100 regular contributors in many countries

Slide 3: Where is it used?

TWiki is mainly used in commercial environments, often on corporate intranets
- Examples: Disney, SAP, British Telecom, Wind River, Motorola, Epic Games
A number of public Wiki sites also use TWiki
- Examples:
  http://www.trommetter.com/cgi-bin/view.cgi/
  http://csci.mrs.umn.edu/twiki/view

Slide 4: TWiki Features

TWiki builds on the original Wiki concept and adds a number of features that make it very useful in a business environment.

TWiki pages are fully revision controlled, so a record of every change to every page is kept
r1.6 > r1.5 > r1.4
The look-and-feel is highly configurable, through use of templates

A "plugins" interface eases
- customisation
- extension
- application integration

Slide 5: Applications of basic TWiki

Basic TWiki can be used as:

A whiteboard
A document repository
A collaborative authoring environment
A notebook / scrapbook
A chat room

Slide 6: Extended applications

TWiki-with-extensions has been used as:

A Content Management System (CMS) for websites
A presentation development tool
A Blog
A database
A project management system
A tracking tool
(truth is, we don't really know its limits!)

Slide 7: Structure of a TWiki page

TWiki pages are usually organised into three parts:

A header
A body
A footer

The header and the footer are generated by the system
The body contains the text of the page, as entered by you

TWiki is very configurable, and the look can change. However the essentials will all be there on the page (somewhere!)

Slide 8: The Page Header

The header of a TWiki page is generally highlighted in colour, and will usually contain an icon that gives you an idea of where you are, such as a company logo.

	MyCo.MyTopic	Webs: Myco \| Main \| TWiki \| Sandbox
	Changes \| Index \| Search \| Go

It will also usually contain a number of 'links' that you can click on. You will generally see:

Changes - gives you a list of recent changes
Index - gives you a full index
Search - takes you to a search page, where you can search all the text
Go - lets you type in the name of a page you already know

Slide 9: The Page Header

	MyCo.MyTopic	Webs: Myco \| Main \| TWiki \| Sandbox
	Changes \| Index \| Search \| Go

You may also see in the header (usually at the top right) a list of the TWiki "webs". A web is a collection of pages that are related closely together

For example, we might have a web called "Enemies", where we keep all we know about our enemies, and another called "Friends"
There's usually a safe play web called something like "Sandbox" or "Scratch", where you can create pages just to try things out
And some admin areas, like "Main" and "TWiki"

Slide 10: The Page Footer

The footer of the page is also highlighted in colour, and is usually where you will find the links that let you change the content.

Edit \| Attach \| Diffs \| r1.2 > r1.1 \| More
Revision r1.2 - 13 Feb 2004 - 09:09 GMT - TWikiPresenter	Copyright © 1999-2009 Laboratory of Neuro Imaging, UCLA. All Rights Reserved. All material on this collaboration platform is the property of the contributing authors.

The Edit link takes you to an interactive page where you can change the page content
The Attach link lets you attach files
The other links invoke other, more complex, functions, mainly to do with revision tracking - they can safely be ignored for now

Slide 11: Editing Pages

You've read a page, and you disagree with it violently! It says:
Everyone knows that the world is an OblateSpheroid
But you know for a fact it is flat!
You've clicked the edit link, and an edit page has appeared. But it doesn't look much like what was on the page before - it's full of strange hieroglyphics!

_Everyone_ *knows* that =the world= is an OblateSpheroid

Now what?

Slide 12: What's in a page

The hieroglyphics are what's known as "TWiki Markup" or "formatting"
They are a really simple way of telling the browser how you want the page to look
You don't have to use them
- TWiki understands pages in plain text just fine.
  
  Actually it is perfectly and absolutely flat
  
  appears as
  
  Actually it is perfectly and absolutely flat

Slide 13: Formatting just makes pages prettier

... and easier to read

_Actually_ it is *perfectly* and __absolutely__ flat

appears as

Actually it is perfectly and absolutely flat

A full description of all the formatting can be found in the TextFormattingRules and TextFormattingFAQ
The best thing to do is just to type until you get stuck
- then follow the link on the edit page to the help.

Slide 14: Commonly used formatting

TWiki understands pages in plain text just fine, but you can jazz them up using some simple formatting shortcuts. Here are some of the more commonly used ones:

---+ indicates a heading. Add more +'s for a deeper heading.

You type You see

---+ This is a heading
This is a heading

---++ And so is this
And so is this
%TOC% will insert a table of contents

Slide 15: More common formatting

A blank line gives a paragraph break
--- on a line of its own gives a horizontal bar
Text in stars *like this* looks like this
Text in underscores _like this_ looks like this
Text in equals signs =like this= looks like this
Bulleted lists use three spaces followed by an asterisk (*) at the start of the line
- The depth of the bullet is given by the number of spaces, in multiples of three

You type	You see
`* Bullet` `* Sub-bullet`	Bullet Sub-bullet

Numbered lists use a number in place of the *. The list is numbered automatically, so you can just use a 1

Slide 16: Even more.....

You can create a table using vertical bars:

     | Cat | Feline |
     | Bear | Ursine |
     | Wolf | Vulpine |

appears as

Cat Feline

Bear Ursine

Wolf Vulpine
%RED% .... %ENDCOLOR% will change the colour of the enclosed text. Lots of colours are available (%RED%, %GREEN%, %BLUE% etc)

Slide 17: WikiWords

One special hieroglyph that is very important is a BumpyWord
- a word that starts with uppercase, then some lowercase, then more uppercase (a.k.a CamelCase)
This has a special meaning to TWiki; if it matches the name of another topic, TWiki will automatically create a link to that page for you.
If there is no such page, then the word is highlighted and a question mark is put after the word, LikeThis^?
If you click on the question mark, then TWiki will invite you to create that page.

This lets you enter the names of topics you think should exist, but don't yet
- You, or someone else, can always come along later and click on the question mark!

Slide 18: Referencing other pages and URLs

BumpyWords automatically link to the target page
- You can make these links easier to read using square brackets:
  - [[BumpyWords][bumpy words]] appears as bumpy words
An ordinary URL pasted into text will appear as a link - http://www.google.com
- You can also prettify URLs using square brackets:
  - [[http://www..google.com][google]] appears as google
Use %SEARCH. This is an interface to a sophisticated search engine that embeds the results of the search in your page. See TWikiVariables for full details.

Slide 19: More formatting

There's lots more formatting available, see TextFormattingRules and TextFormattingFAQ
If you are a real masochist, you can even enter raw HTML tags!
Important to disable unwanted formatting, use <nop>
- <nop>_word_ appears as _word_

Slide 20: Creating new pages

Alternative ways:
- Click on the question mark after a BumpyWord
- Type in the name of the topic in the "Go:" box
- Type in the name of the topic in the URL
Any time you try to visit a page that doesn't exist, TWiki will invite you to create it.
Make sure the names of topics are always BumpyWords.

Slide 21: Attachments

Attachments are files which have been uploaded and attached to a TWiki page using the 'Attach' function in the footer.

Attachment	Action	Size	Date	Who	Comment
myco.gif	manage	9.6 K	13 Feb 2004 - 18:41	MushroomMagicMan	Attached image file

Attachments are simply files, in whatever format you want.
TWiki recognises some file formats, notably image files (.gif)
- Write %ATTACHURL%/myco.gif to see this: /twiki/pub/TWiki/ATasteOfTWiki/myco.gif

Slide 22: Wiki Culture

Enough about mechanics; how is a wiki actually used ? Well, that's really up to you, but there are a number of tricks that the wiki community has developed for collaborative writing that work pretty well:

What can I edit?
- Anything. But it's good etiquette to sign your contributions
- If someone doesn't want you to edit a page, it's up to them to say so, clearly, on the page
But what if somebody doesn't like my edits?
- In TWiki, they can always recover the old revision and re-instantiate it if they really want to
- Otherwise they should regard your changes as an opportunity for discussion
Pages in wiki are (usually) in one of three "modes"
- DocumentMode
- ThreadMode
- StructuredMode

TWiki doesn't automatically distinguish between these modes; they are purely semantic.

Slide 23: DocumentMode

A page in DocumentMode usually comprises a contribution which is written in the third person and left unsigned.
The piece of text is community property
- It may have multiple and changing authors as it is updated to reflect the community consensus.

Slide 24: ThreadMode

Thread mode is a form of discussion where the community holds a conversation
The discussion usually starts out with a statement, at the top of the page, that is subsequently discussed
The page may be periodically "refactored" (edited) to remove some of the comments
- As long as the comment is accurately reflected in what replaces it, nobody usually minds.
- Remember to always maintain a complete list of contributors, though!

You may see a comment box on a page in ThreadMode that makes it easy to quickly add your inputs. Typing in a comment and adding it to a page this way is known as "blogging" wink

ThreadMode is rather like an e-mail thread
- Except that new comments are usually added to the end
ThreadMode pages often get refactored into DocumentMode

Slide 25: StructuredMode

A page in StructuredMode follows some predefined structure for example
- An agenda
- A set of meeting minutes
- A requirement description.
Pages in StructuredMode will usually have rules governing how they are edited.

Slide 26: Other Wiki tricks - Categories

A Wiki trick for grouping pages together
Example: to group together a set of pages all relating to the weather:
1. Create a page called 'CategoryWeather'
2. Put a SEARCH that contain the word 'CategoryWeather' into it
  - %SEARCH{"CategoryWeather" nosearch="on" nosummary="on"}%
3. Put the BumpyWord 'CategoryWeather' on all the pages relating to the weather
  (usually at the bottom, below a horizontal bar)

Slide 27: Contributed features

Basic TWiki is rich with features, but is enriched even further by the addition of optional plug-in modules that may (or may not!) be installed in your TWiki. These are classified as either skins (modules that change the look-and-feel) and plugins (modules that enhance functionality).

Here's a brief description of some of the more common plugins, together with the tags you might expect to see in topics if they are used. You can find out more by visiting the plugin pages.

ActionTrackerPlugin: Support action tags in topics, with automatic notification of action statii %ACTION...
CalendarPlugin: Show a monthly calendar with highlighted events %CALENDAR...%
CommentPlugin: Support rapid entry of short comments (also known as blogging) %COMMENT...
ChartPlugin: Create PNG or GIF charts to visualize data in TWiki tables %CHART...
EditTablePlugin: Edit TWiki tables using edit fields and drop down boxes %EDITTABLE...
InterwikiPlugin: Define shortcuts for links to common external sites

Slide 28: More plugins

RenderListPlugin: Render bullet lists in a variety of formats %RENDERLIST...
SlideShowPlugin: Create web based presentations based on topics with headings %SLIDESHOWSTART...
SpreadSheetPlugin: Add spreadsheet calculations like "$SUM( $ABOVE() )" to tables located in TWiki topics %CALC...
TablePlugin: Control presentation and sorting of tables %TABLE...
TWikiDrawPlugin: Add quick sketches to pages %DRAWING...

The following plugins are installed on this TWiki: DefaultPlugin, SpreadSheetPlugin, CommentPlugin, EditTablePlugin, InterwikiPlugin, RenderListPlugin, SlideShowPlugin, SmiliesPlugin, TablePlugin

There are many other plugins, see http://www.twiki.org/cgi-bin/view/Plugins

Slide 29: Credits and Acknowledgements

This training was developed by TWiki:Main.CrawfordCurrie on behalf of Oxamer, one of the companies in the Oxford Gene Technology group.
Valuable contributions were also received from the TWiki Open Source community; special mentions go to:
- TWiki:Main.WalterMundt
- TWiki:Main.SvenDowideit
The latest version of this presentation is available at TWiki:TWiki.ATasteOfTWiki, where you can also provide feedback

Related topics: WelcomeGuest, TWikiTutorial, ATasteOfTWikiTemplate

-- TWiki:Main.CrawfordCurrie - 17 Feb 2004

Slide template for ATasteOfTWiki presentation

%SLIDETITLE%
	%SLIDETEXT%
%SLIDENAVFIRST% %SLIDENAVPREV% Slide %SLIDENUM% of %SLIDEMAX% %SLIDENAVNEXT% %SLIDENAVLAST% Copyright © 2009 by the contributing authors

-- TWiki:Main.CrawfordCurrie - 18 Feb 2004

Access Keys

What are access keys?

Access keys are keyboard shortcuts which allow the user to navigate around a website or a piece of computer software without having to use a mouse or other pointing device.

What are the advantages of using access keys?

Its an alternative to using a mouse, or other pointing device, and can sometimes be quicker than using a mouse.

How do I use access keys?

This depends on the browser you are using (see also cross-browser support below):

If you use Internet Explorer
- Press and hold the 'Alt' key
- Press the required letter
- Release the keys and press the 'ENTER' key

If you use Netscape Navigator, Mozilla, or Firefox
- Press and hold the 'Alt' key
- Press the required letter

If you are using a Mac
- Press and hold the 'Ctrl' key
- Press the required letter

Learn more

Case #	Initials
1005	ES: first part PE: left and right OBJs made, Lhem155 and Rhem155 chosen, right flip done
1022	ES: first part PE: left and right OBJs made, Lhem155 and Rhem170 chosen, right flip done
1026	ES: first part PE: left and right OBJs made, Lhem135 and Rhem135 chosen, right flip done
1039	CC: first part PE: left and right OBJs made, Lhem156 and Rhem160 chosen, right flip done
1059	CC: first part PE: left and right OBJs made, Lhem130 and Rhem130 chosen, right flip done
1086	CC: first part PE: left and right OBJs made, Lhem150 and Rhem150 chosen, right flip done

1037	NOT CHECKED & NO HEMS! see VentricularSystem
1069	ES: first part PE: left and right OBJs made, Lhem150 and Rhem170 chosen, right flip done
1091	NOT CHECKED & NO HEMS! see VentricularSystem
1096	ES: first part PE: left and right OBJs made, Lhem154 and Rhem150 chosen, right flip done
1098	ES: first part PE: left and right OBJs made, Lhem170 and Rhem170 chosen, right flip done
1100	NO HEMS see VentricularSystem
1109	ES: first part PE: left and right OBJs made, Lhem150 and Rhem150 chosen, right flip done
1110	ES: first part PE: left and right OBJs made, Lhem170 and Rhem170 chosen, right flip done
1116	ES: first part PE: left and right OBJs made, Lhem150 and Rhem144 chosen, right flip fone
1121	YH:first part PE: left and right OBJs made, Lhem130 and Rhem140 chosen, right flip done PE: first part
1146	YH: first part PE: left and right OBJs made, Lhem160 and Rhem160 chosen, right flip done
1147	?: first part PE: left and right OBJs made
1151	YH: first part PE: left and right OBJs made
1158	no Lhem.img, Lhem.hdr, Rhem.img, Rhem.hdr
1159	no 1159mean_bet_mask.hdr
1165	no Lhem.img, Lhem.hdr, Rhem.img, Rhem.hdr
1171
1175	YH: first part PE: left OBJs made, right OBJs in progress, PE: first part
1193	YH: first part PE: left OBJs made, Problem with Rhem .mnc file
1203	YH: first part PE: left OBJs made, Problem with Rhem .mnc file
1216	YH: first part PE: left and right OBJs made ES: Lhem150 and Rhem??? chosen, PE: first part complete
1217	YH: first part PE: left and right OBJs made, Lhem130 and Rhem160 chosen, right flip done, PE: first part complete
1218
1220	YH: first part PE: left and right OBJs made, Lhem140 and Rhem140 chosen, right flip done PE: first part complete
1229	YH: first part PE: left and right OBJs made PE: first part complete
1232	YH: first part PE: left and right OBJs made PE: first part complete
1234	YH: first part PE: left and right OBJs made PE: first part complete
1236	YH: first part PE: left and right OBJs made PE: first part complete
1243	no Lhem.img, Lhem.hdr, Rhem.img, Rhem.hdr
1246	YH: first part PE: left and right OBJs made PE: first part complete

1248	YH: first part PE: left and right OBJs made PE: first part in complete
1259	YH: first part PE: left and right OBJs made PE: first part in progress
1265	YH: first part PE: left and right OBJs made PE: first part in progress
1275	YH: first part PE: left and right OBJs made PE: first part in progress
1288	YH: first part PE: left and right OBJs made
1292	YH: first part PE: left and right OBJs made
1295	YH: first part PE: left and right OBJs made
1296	YH: first part PE: left and right OBJs made
1338	YH: first part PE: left and right OBJs made
1340	YH: first part PE: left and right OBJs made
1356	YH: first part PE: left and right OBJs made
1367	YH: first part PE: left and right OBJs made
1371	YH: first part PE: left and right OBJs made
1376	YH: first part PE: left and right OBJs made
1391	1039_Lhem.img 1039_Rhem.img files instead of 1391
1406	YH: first part PE: left and right OBJs made
1422	YH: first part PE: left and right OBJs made
1427	YH: first part PE: left and right OBJs made
1430	YH: first part PE: left and right OBJs made
1436	YH: first part PE: left and right OBJs made
1438	YH: first part PE: left and right OBJs made
1446	YH: first part PE: left and right OBJs made
1450	YH: first part PE: left and right OBJs made
1459	YH: first part PE: left and right OBJs made
1468
1476	YH: first part PE: left and right OBJs made
1487	YH: first part PE: left and right OBJs made
1489	problem with Rhem.img
1498	YH: first part PE: left and right OBJs made

Go Back

Administrator Skills Assumptions

For each of these, the requirement is either pre-existing knowledge/skill, or the willingness to spend significant time (i.e. from hours to days) learning these.

Operating system administration: Ability to use Unix/Linux command line tools (or equivalent Windows tools), including ability to move/copy/delete files, change permissions, view web server log files, set environment variables, use a text editor, etc.
Web server administration: Ability to do basic setup, e.g. ability to edit config files or use GUI configuration tools to enable CGI scripts on a directory.
Program compilation: Where RCS is not pre-installed (that is most Unix systems), the ability to download and compile the RCS program from source, including use of configure, make, etc. This is often not necessary on Linux or Windows.
Troubleshooting: Ability to perform tests, inspect error logs, talk to technical support (whether in an IT department or web hosting provider) and read documentation in order to help with diagnosing installation problems.

Installing TWiki is not recommended for people who only know HTML and web design, unless they are willing to learn the above, or team up with someone who can handle the installation.

Although the TWikiInstallationGuide is quite complete, there will on occasion be parts that don't work in your local environment (particularly with TWiki:Codev/TWikiOnWebHostingSites, which are sometimes challenging even for those with good OS and web server skills).

There are many excellent resources for learning how to administer your OS and web server, including books, web sites, web forums, IM and email lists. The TWiki:Support web must not be depended on as a resource for this purpose - in other words, it is not there to answer basic questions about operating system and web server administration. Asking and answering questions is time consuming for all concerned and is best used for specific TWiki related issues, rather than helping you learn the OS and web server.

One of the best training courses for Linux is Basic Linux Training at http://basiclinux.net/ - this is a 2 month distance-learning course (via email). The course operators are friendly, and all students are newbies. A nice tool for people migrating from Windows is http://www.MidnightCommander.org/. It is already installed on Linux systems: try mc -ac and ESC 1 to get help.

-- TWiki:Main.RichardDonkin - 27 Apr 2002
-- TWiki:Main.GrantBow - 15 Jan 2003
-- TWiki:Main.PeterMasiar - 28 May 2003

Admin tools

Manage whole TWiki site from one screen.

Users: Register, NewUserTemplate, ResetPassword, ChangePassword, InstallPassword, MaintenanceGuide^?
Site Tools: TWikiPreferences, InterWikis, Variables
Managing: Topics, Webs, YouAreHere

Web	Tools	Use to...
ADNI		The collaboration forum for the ADNI project
CCB		Solve reseach problems in Computational Biology
CTSA		...collaborate on the CTSA Grant
Debabeler		...find information about the Debabeler
Infrastructure		...view information and guides to using LONI's computing facilities.
LONI		Serve as an intranet for LONI lab members
LONIR		...collaborate on the LONI Resource Grant
MouseBIRN		...facilitate collaboration on Mouse BIRN issues.
Pipeline		...collaborate on usage of the LONI Pipeline processing environment application
SHIVA		document the SHIVA project
Sandbox		...experiment in an unrestricted hands-on web.
TWiki		...learn about our Wiki software
This table is updated automatically based on WebPreferences settings of the individual webs.

Legend:		WebHome	WebSearch	WebChanges	WebNotify
		WebPreferences	WebStatistics	WebTopicList	WebIndex

Plugins: TWikiPlugins, TWikiFuncModule

DefaultPlugin: This plugin can be used to specify some simple custom rendering rules. It also renders depreciated *_text_* as bold italic text.
SpreadSheetPlugin: Add spreadsheet calculation like "$SUM( $ABOVE() )" to tables located in TWiki topics.
CommentPlugin: Allows users to quickly post comments to a page without an edit/preview/save cycle.
EditTablePlugin: Edit TWiki tables using edit fields, date pickers and drop down boxes
InterwikiPlugin: Link ExternalSite:Page text to external sites based on aliases defined in the InterWikis topic
RenderListPlugin: Render bullet lists in a variety of formats
SlideShowPlugin: Create web based presentations based on topics with headings.
SmiliesPlugin: Render smilies as icons, like :-) for or :cool: for
TablePlugin: Control attributes of tables and sorting of table columns

Versions:

TWiki engine: 02 Sep 2004 $Rev: 1742 $
Plugin API: 1.025

-- TWiki:Main.PeterMasiar - 02 Jul 2003
-- TWiki:Main.PeterThoeny - 15 Aug 2004

-- MubeenaMirza - 09 May 2007

All Brain

Case #	Cingulate	Cuneus	Occ/Temp	Front/Temp	Notes	Gap Cleanup
Please be a precise as possible with times completed
1005-	QH	JP	BRM	YH	checked: AX	-YH:
1022-	QH	JP	BRM	YH	checked: AX	-YH
1026-	QH	JP	BRM	YH	checked: AX	-NN
1039-	QH	JP	BRM	YH	checked: AX	-YH
1059-	QH	JP	BRM	YH	checked: AX	-YH
1086-	QH	JP	BRM	YH	checked: AX	-NN
1037	QH	JP	BRM	YH	checked: AX	-YH
1069	QH	JP	BRM	YH	checked: AX	MM
1091	QH	JP	BRM	YH	54,74
1096-	QH	JP		YH	MM: needs frontal lobe cleanup; AX: missing 45, 46, 54 (low voxel count), 58, 61 (low voxel count), 74 (low voxel count), 79
1098	QH	JP	BRM	YH	checked: AX	-NN hippo missing;
1100	QH	JP	BRM	YH	checked: AX	-NN hippo missing
1109	QH	JP	BRM	YH	checked: AX	YH: mask does not match img file
1110	QH	JP	BRM	YH	checked: AX	YH
1116	QH	JP	BRM	YH	checked: AX	MM
1121	QH	JP	BRM	YH	checked: AX	YH
1146	QH	JP	BRM	YH	checked: AX	YH
1147	QH	JP	BRM	YH	checked: AX	MM
1151	QH	JP	BRM	YH	checked: AX	YH
1153	QH	JP	BRM	YH	checked: AX	MM
1158	QH	JP	BRM	YH	AX: missing 11, 117	MM: STG missing
1159	QH	JP	BRM	YH	checked: AX	MM
1165-	QH	JP	BRM	YH	MM: missing cingulate; AX: missing 6, 59	MM
1175	QH	JP	BRM	YH	checked: AX	YH
1193	QH	JP	BRM	CC	checked: AX	YH
1203	QH	JP	BRM	CC	checked: AX	MM
1216	QH	JP	BRM	CC	checked: AX	YH
1217	QH	JP	BRM	CC	checked: AX	MM
1218	QH	JP	BRM	CC	checked: AX	YH
1220	QH	JP	BRM	CC	checked: AX	NN hippo missing
1229	QH	JP	BRM	CC	checked: AX	NN hippo missing
1232-	QH	JP	BRM	CC	AX: missing 41, 44, 46, 79	Somethings wrong
1234	QH	JP	BRM	CC	checked: AX	YH
1236	QH	JP	BRM	CC	checked: AX	YH
1243	QH	JP	missing??		checked: AX	1243.img and 1243.hdr missing
1246	QH	JP	BRM	CC	checked: AX	YH

1248	QH	JP	BRM	CC	checked: AX	-CC
1259-	QH	JP	BRM	CC	checked: AX	-CC
1265	QH	JP	BRM	CC	AX: missing 88	-CC
1275	QH	JP	BRM	CC	checked: AX	-CC
1288	QH	JP	BRM	CC	checked: AX	the sub_sub file does not work
1292	QH	JP	BRM	CC	checked: AX	-CC
1295	QH	JP	BRM	CC	checked: AX	-CC
1296	QH	JP	BRM	CC	checked: AX	-CC
1338	QH	JP	BRM	CC	checked: AX	CC
1340	QH	JP	BRM	CC	checked: AX	CC
1356	QH	JP	BRM	CC	checked: AX	CC
1367	QH	JP	BRM	CC	checked: AX	CC
1371	--	--	--	--	--	--
1376-	QH	JP	BRM	CC	AX: missing 33, 41, 44, 46, 57, 79	CC
1391-	QH	JP	BRM	CC	checked: AX	CC
1406	QH	JP	BRM	CC	checked: AX	CC
1422	QH	JP	BRM	CC	checked: AX	CC
1427-	QH	JP	BRM	CC	MM: missing gyrus rectus; AX: missing 41, 44, 46	CC: missing label 58
1430	QH	JP	BRM	CC	checked: AX	NN hippo missing
1436	QH	JP	BRM	CC	checked: AX	NN hippo missing
1438	QH	JP	BRM	CC	checked: AX	YH
1446	QH	JP	BRM	CC	checked: AX	YH
1450	QH	JP	BRM	CC	checked: AX	YH
1459	QH	JP	BRM	CC	checked: AX	YH
1468-	QH				MM: **whole brain needs to be checked; checked: AX; missing lower half of mask
1476	QH	JP	BRM	CC	checked: AX	YH (needs to be uploaded once SSH works)
1487	QH	JP	BRM	CC	checked: AX	YH
1489	QH	JP	BRM	CC	checked: AX	CC
1498-	QH	JP	BRM	CC	MM: no putamen/caudate; AX: missing 25, 94	CC

Go Back

-- MubeenaMirza - 09 May 2007

All Brain

Case #	Initials	Date	Hrs/Case	Notes
Please be a precise as possible with times completed
1005
1022
1026
1039
1059
1086

1037
1069
1091
1096
1098
1100
1109
1110
1116
1121
1146
1147
1151
1153
1158
1159
1165
1175
1193
1203
1216
1217
1218
1220
1229
1232
1234
1236
1243
1246

1248
1259
1265
1275
1288
1292
1295
1296
1338
1340
1356
1367
1371
1376
1391
1406
1422
1427
1430
1436
1438
1446
1450
1459
1468
1476
1487
1489
1498

Go Back

Case #
1035
1085
1155
1168
1179
1212
1335
1368
1386
1408
1429
1454
1491
1499
1506

Angular Gyrus

Case #	Initials	Date	Hrs/Case	Notes	Cleanup Ang/Supra
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005	LC BM	8/15 8/14	2.5 2
1022	LC BM	8/15 8/17	2 2
1026	LC BM	8/15 8/17	2 2
1039	LC BM	8/17 8/21	2 2
1059	LC BM	8/17 8/21	2 2
1086	LC BM	8/18 8/21	2 2

1037	BM	8/25	1.5	pre reliability	LC- 9/12- 1 hour
1069	BM	8/25	1.5	pre reliability	LC- 9/12- 45 minutes
1091	BM	8/25	1	pre reliability	LC- 9/12- 1 hour
1096	BM	8/28	1	pre reliability	LC- 9/12- 1 hour
1098	BM	8/28	1	pre-R	LC- 9/12- 1 hour
1100	BM	8/28	1	pre-R	LC- 9/12- 45 minutes
1109	BM	8/28	1	pre- R	LC- 9/14- 1 hour
1110	BM	8/29	1	pre r
1116	BM	8/29	1	pre r
1121	BM	8/29	1	pre r
1146	BM	8/29	in progress	pre r
1147	BM	8/30	1	uncertain about Left and right occiptal
1151	BM	8/30	1	uncertain about left jensen and occipital and right jensen
1153	BM	8/30	1	pre r
1158	BM	8/30	1	uncertain about jensen on both sides	LC- 9/14- 45 minutes
1159	BM	9/5	1	pre r double check LH
1165	BM	9/5	1	pre r
1175	BM	9/5	1	pre r	LC- 9/14- 45 minutes
1193	BM	9/5	1	pre rdouble check RH	LC- 9/14- 45 minutes
1203	BM	9/7	1	pre r	LC- 9/14- 45 minutes
1216	BM	9/7	1	double check LH	LC- 9/14- 45 minutes
1217	BM	9/7	1	pre r	LC- 9/15- 50 minutes
1218	BM	9/7	1	pre r	LC- 9/15- 1 hour
1220	BM	9/7	1	need double check
1229	BM	9/7	1	occipital boundry on rh
1232	BM	9/7	1	pre r
1234	BM	9/8	1	pre r
1236	BM	9/8	1	right hemisphere jensen

| 1243 |BM |9/8 | 1 |double check lh

1246	BM	9/8	1	pre r

1248	LC	8/28	1.5	Pre-Reliability; Is the Jensen one sulcus forward from what I have?
1259	LC	8/28-8/29	1	Pre-Reliability
1265	LC	8/29	1	Pre-Reliability; Left- Uncertain about Jensen; Right- colored a little too much on top toward the center?
1275	LC	8/29	1	Pre-Reliability; Left- boundary should go lower?; Right- Uncertain about Jensen (go more forward?)
1288	LC	8/29	1	Pre-Reliability; Left- Should lower boundar be lower? Uncertain about P-O; Right- P-O be lower?
1292	LC	8/29	1	Pre-Reliability; colored a little more up on both sides?
1295	LC	8/29, 8/31	1	Pre-Reliability; Right- colored a little further up/toward center?
1296	LC	8/31	1.5	Pre-Reliability
1338	LC	8/31	1.5	Pre-Reliability
1340	LC	8/31	1	Pre-Reliability; Left- uncertain about Jensen- next sulcus forward?
1356	LC	8/31	1	Pre-Reliability; Left- uncertain about Jensen, Uncertain about Top/Medial Boundary
1367	LC	9/1	1	Pre-Reliability; Right- Uncertain about P-O
1371	LC	9/1	1	Pre-Reliability; Left- Uncertain about Jensen and posterior boundary (P-O); Right- uncertain about Jensen
1376	LC	9/5	1.5	Pre-Reliability; Right- Uncertain about Jensen
1391	LC	9/5	1	Pre-Reliability; Right- Uncertain about Jensen
1406	LC	9/5	1	Pre-Reliability
1422	LC	9/5	1	Pre-Reliability
1427	LC	9/5	1	Pre-Reliability
1430	LC	9/5-9/6	1	Pre-Reliability; Right- Uncertain about Jensen
1436	LC	9/6	1	Pre-Reliability; Left- Uncertain about Jensen and P-O; Right- Uncertain about Jensen
1438	LC	9/6-9/7	1	Pre-Reliability; Uncertain about Back/Bottom Boundaries on right hemi
1446	LC	9/7	1	Pre-Reliability; Uncertain about Bottom boundary on right hemi
1450	LC	9/7	1	Pre-Reliability
1459	LC	9/7	1	Pre-Reliability
1468	LC	9/7	1	Pre-Reliability
1476	LC	9/7	1	Pre-Reliability; Left- bottom boundary lower?
1487	LC	9/7,9/11	1	Pre-Reliability; Left- Uncertain about Jensen and back boundary (P-O)
1489	LC	9/11	1	Pre-Reliability; Right- Uncertain about Jensen
1498	LC	9/11	1	Pre-Reliability; Left- Uncertain about Jensen and P-O boundary; Right- Uncertain about Jensen

Go Back

Appendix C: Encode URLs With UTF8

Appendix C: Encode URLs With UTF8

This page addresses implemented UTF-8 support for URLs only. The overall plan for UTF-8 support for TWiki is described in TWiki:Codev.ProposedUTF8SupportForI18N .

Current Status

To simplify use of internationalised characters within WikiWords and attachment names, TWiki now supports UTF-8 URLs, converting on-the-fly to virtually any character set, including ISO-8859-*, KOI8-R, EUC-JP, and so on.

Support for UTF-8 URL encoding avoids having to configure the browser to turn off this encoding in URLs (the default in Internet Explorer, Opera Browser and some Mozilla Browser URLs) and enables support of browsers where only this mode is supported (e.g. Opera Browser for Symbian smartphones). A non-UTF-8 site character set (e.g. ISO-8859-*) is still used within TWiki, and in fact pages are stored and viewed entirely in the site character set - the browser dynamically converts URLs from the site character set into UTF-8, and TWiki converts them back again.

System requirements are updated as follows:

ASCII or ISO-8859-1-only sites do not require any additional CPAN modules to be installed.
Perl 5.8 sites using any character set do not require additional modules, since CPAN:Encode is installed as part of Perl.
This feature still works on Perl 5.005_03 as per TWikiSystemRequirements, or Perl 5.6, as long as CPAN:Unicode::MapUTF8 is installed.

ISO-2022-*, HZ-* and other 'non-ASCII-safe' multi-byte character sets are now specifically excluded from use as the site character set, since they interfere with TWiki ML; however, many multi-byte character sets work fine, e.g. EUC-JP, GB2312, etc.

It's now possible to override the site character set defined in the $siteLocale setting in TWiki.cfg - this enables you to have a slightly different spelling of the character set in the server locale (e.g. 'eucjp') and the HTTP header sent to the browser (e.g. 'euc-jp').

This feature should also support use of Mozilla Browser with TWiki:Codev.TWikiOnMainframe (as long as mainframe web server can convert or pass through UTF-8 URLs) - however, this specific combination is not tested. Other browser-server combinations should not have any problems.

Please note that use of UTF-8 as the site character set is not yet supported - see Phase 2 of TWiki:Codev.ProposedUTF8SupportForI18N for plans and work to date in this area.

This feature is complete in TWiki releases newer than February 2004.

Note for skin developers: %INTURLENCODE% is no longer required (TWiki:Plugins.InternationalisingYourSkin).

Details of Implementation

URLs are not allowed to contain non-ASCII (8th bit set) characters: http://www.w3.org/TR/html4/appendix/notes.html#non-ascii-chars

The overall plan for UTF-8 support for TWiki is described in two phases in TWiki:/Codev.ProposedUTF8SupportForI18N - this page addresses the first phase, in which UTF-8 is supported for URLs only.

UTF-8 URL translation to virtually any character set is supported as of TWiki Release 01 Sep 2004, but full UTF-8 support (e.g. pages in UTF-8) is not supported yet - this will be phase 2.

The code automatically detects whether a URL is UTF-8 or not, taking care to avoid over-long and illegal UTF-8 encodings that could introduce TWiki:Codev.MajorSecurityProblemWithIncludeFileProcessing (tested against a comprehensive UTF-8 test file, which IE 5.5 fails quite dangerously, and Opera Browser passes). Any non-ASCII URLs that are not valid UTF-8 are then assumed to be directly URL-encoded as a single-byte or multi-byte character set (as now), e.g. EUC-JP.

The main point is that you can use TWiki with international characters in WikiWords without changing your browser setup from the default, and you can also still use TWiki using non-UTF-8 URLs. This works on any Perl version from 5.005_03 onwards and corresponds to Phase 1 of TWiki:Codev.ProposedUTF8SupportForI18N. You can have different users using different URL formats transparently on the same server.

UTF-8 URLs are automatically converted to the current $siteCharset (from the TWiki.cfg locale setting), using modules such as CPAN:Encode if needed.

TWiki generates the whole page in the site charset, e.g. ISO-8859-1 or EUC-JP, but the browser dynamically UTF-8 encodes the attachment's URL when it's used. Since Apache serves attachment downloads without TWiki being involved, TWiki's code can't do its UTF-8 decoding trick, so TWiki URL-encodes such URLs in ISO-8859-1 or whatever when generating the page, to bypass this URL encoding, ensuring that the URLs and filenames seen by Apache remain in the site charset.

TWiki:Codev.TWikiOnMainframe uses EBCDIC web servers that typically translate their output to ASCII, UTF-8 or ISO-8859-1 (and URLs in the other direction) since there are so few EBCDIC web browsers. Such web servers don't work with even ISO-8859-1 URLs if they are URL encoded, since the automated translation is bypassed for URL-encoded characters. For TWiki on Mainframe, TWiki assumes that the web server will automatically translate UTF-8 URLs into EBCDIC URLs, as long as URL encoding is turned off in TWiki pages.

Testing and Limitation

It should work with TWiki:Codev.TWikiOnMainframe. Tested with IE 5.5, Opera 7.11 and Mozilla (Firebird 0.7).

Opera Browser on the P800 smartphone is working for page viewing but leads to corrupt page names when editing pages.

For up to date information see TWiki:Codev.EncodeURLsWithUTF8

-- TWiki:Main.RichardDonkin - 7 Jan 2004
-- TWiki:Main.MattWilkie - 10 Aug 2004
-- TWiki:Main.PeterThoeny - 14 Aug 2004

Appendix A: TWiki Filesystem

Appendix A: TWiki Filesystem

Annotated directory and file listings, for the 01-Sep-2004 TWiki production release.

Who and What is This Good For?

Interested Users and Site Administrators can find out in simple terms what each part of TWiki actually does. Adventurous Adminstrators with server access to files (via telnet, ssh or ftp) can also figure out where to look to make minor modifications, like changing hardcode text or color. Software Developers can get an at-a-glance overview of TWiki code architecture.

Directory Structure

You can rename the root TWiki directory - twiki - to whatever you like by changing it in the TWiki.cfg configuration file. However, to keep the current installation and future upgrades simple, you should leave the five main subdirectories intact:

Directory:	Files:	Used for:
`twiki`	list	Start-up info
`twiki/bin`	list	Perl scripts
`twiki/lib`	list	Configuration file, main library, Perl system modules, Plugins directory
`twiki/pub`	list	Public files (eg: images) and FileAttachments and their RCS histories
`twiki/data`	list	Individual topics (page content) and their RCS histories
`twiki/templates`	list	HTML templates, used by TWiki scripts

File Descriptions

A rundown of the individual files included in the current distribution, organized by TWiki root directories.

Files in `twiki`

Application info and the current reference documentation. Full file list:

File	Used for
`index.html`	Links to launch TWiki after install and for files in this directory
`license.txt`	GNU General Public License and TWiki-specific info
`readme.txt`	General TWiki start-up info with relevant URLs
`TWikiDocumentation.html`	All documentation packaged as a single page
`TWikiHistory.html`	TWiki development timeline: versions, features, developers
`TwikiUpgrade`	TWiki upgrade script (Beta state)

Files in `twiki/bin`

Perl CGI scripts. Full file list:

File:	Used for:
`.htaccess.txt`	Authentication. Rename to .htaccess and customize if used
`attach`	Shows the attach file page (FileAttachment)
`changes`	a simple WebChanges query
`edit`	Edit a topic
`geturl`	Fetch URL data
`installpasswd`	Install new password by admin
`mailnotify`	Script called by cron job to notify users of changes
`manage`	Manage script to create new webs
`oops`	Shows an OK or oops dialog
`passwd`	Reset and change password
`preview`	Preview topic after edit
`rdiff`	See differences of topics
`rdiffauth`	Copy of rdiff script (ideally a link). The .htaccess file sets this as requiring authorisation
`register`	Register new users
`rename`	Rename/move topics and move attachments
`save`	Saves a topic, called by preview
`search`	Displays search results
`setlib.cfg`	Location of the TWiki libraries. Customize if needed
`statistics`	Create statistics topic
`testenv`	Test CGI environment variables
`upload`	Does file upload (FileAttachment)
`view`	View a topic (the script)
`viewauth`	Copy of view script (ideally a link). The .htaccess file sets this as requiring authorisation
`viewfile`	View a file attachment

Files under `twiki/lib`

The new lib/TWiki/Plugins directories contain configuration, library and function files, and TWikiPlugins. Full file list:

File:	Used for:
`TWiki.cfg`	Main configuration, used by `TWiki.pm`
`TWiki.pm`	Main TWiki library
`Algorithm/Diff.pm`	Diff library
`Text/Diff.pm`	Diff library, used by TwikiUpgrade script
`TWiki/Access.pm`	Access control
`TWiki/Attach.pm`	Attachment handling
`TWiki/Form.pm`	Form handling
`TWiki/Func.pm`	Public functions that Plugins may use
`TWiki/Meta.pm`	Meta data in topics
`TWiki/Net.pm`	SMTP mail handling
`TWiki/Plugins.pm`	Plugin handling
`TWiki/Plugins/CommentPlugin.pm`	Plugin handling a comment box
`TWiki/Plugins/CommentPlugin/Attrs.pm`	Supporting module for Comment Plugin
`TWiki/Plugins/CommentPlugin/Comment.pm`	Supporting module for Comment Plugin
`TWiki/Plugins/CommentPlugin/Templates.pm`	Supporting module for Comment Plugin
`TWiki/Plugins/DefaultPlugin.pm`	Handles some legacy rules
`TWiki/Plugins/EditTablePlugin.pm`	Plugin to edit tables
`TWiki/Plugins/EmptyPlugin.pm`	Empty plugin, use to create your own
`TWiki/Plugins/InterwikiPlugin.pm`	Use aliases as links for predefined URLs
`TWiki/Plugins/RenderListPlugin.pm`	Plugin to render lists as nice trees
`TWiki/Plugins/SlideShowPlugin.pm`	Plugin turning headings into slides
`TWiki/Plugins/SmiliesPlugin.pm`	Plugin rendering smilies like `:-)`
`TWiki/Plugins/SpreadSheetPlugin.pm`	Plugin resolving spreadsheet formulae
`TWiki/Plugins/TablePlugin.pm`	Plugin to render tables nicely
`TWiki/Prefs.pm`	Preferences handling
`TWiki/Render.pm`	TWiki markup to HTML rendering
`TWiki/Search.pm`	Search engine, used by TWiki.pm
`TWiki/Store.pm`	Back-end storage, `.txt` text file and `.txt,v` RCS repository file handling
`TWiki/Store/RcsFile.pm`	Generic file handling code, a class
`TWiki/Store/RcsWrap.pm`	Wrappers around RCS executables, a class that inherits from RcsFile
`TWiki/Store/RcsLite.pm`	A Perl RCS implemention, a class that inherits from RcsFile
`TWiki/UI.pm`	User interface handling
`TWiki/UI/Changes.pm`	Functionality of changes script
`TWiki/UI/Edit.pm`	Functionality of edit script
`TWiki/UI/Manage.pm`	Functionality of manage script
`TWiki/UI/Oops.pm`	Functionality of oops script
`TWiki/UI/Preview.pm`	Functionality of preview script
`TWiki/UI/RDiff.pm`	Functionality of rdiff script
`TWiki/UI/Save.pm`	Functionality of save script
`TWiki/UI/Search.pm`	Functionality of search script
`TWiki/UI/Statistics.pm`	Functionality of statistics script
`TWiki/UI/Upload.pm`	Functionality of upload script
`TWiki/UI/View.pm`	Functionality of view script
`TWiki/UI/Viewfile.pm`	Functionality of viewfile script
`TWiki/Upgrade/TWikiCfg.pm`	Supporting module of TwikiUpgrade script
`TWiki/Upgrade/UpdateTopics.pm`	Supporting module of TwikiUpgrade script
`TWiki/Upgrade/UpdateTopicsManualSymlinks.pm`	Supporting module of TwikiUpgrade script
`TWiki/User.pm`	Abstraction package to allow plugable user authentication systems
`TWiki/User/HtPasswdUser.pm`	Apache Htpasswd file implementation (the default)
`TWiki/User/NoPasswdUser.pm`	simple, no users authentication (totally wiki)

Files under `twiki/pub`

The pub directory stores topic-related files, including images used by TWiki and FileAttachments. Attachments are stored in subdirectories created with the related topic name. You can also upload files directly for and link manually (but not through Attach) Partial file list:

File:	Used for:
`favicon.ico`	ICO file
`wikiHome.gif`	GIF file
`icn/_filetypes.txt`	Lookup table to translate file extension to file type
`icn/bat.gif`	GIF file for file type
`icn/bmp.gif`	GIF file for file type
...	...
`TWiki/FileAttachment/Sample.txt`	TEXT file: sample
`TWiki/FileAttachment/Smile.gif`	GIF image: sample
`TWiki/FileAttachment/Smile.gif,v`	RCS repository for GIF file
`TWiki/PreviewBackground/blankltgraybg.gif`	GIF image
`TWiki/PreviewBackground/blankwhitebg.gif`	GIF image
`TWiki/PreviewBackground/previewbg.gif`	GIF image: Preview view background
`TWiki/PreviewBackground/preview2bg.gif`	GIF image: Alternate preview view background
`TWiki/TWikiLogos/twikiRobot121x54.gif`	GIF image: TWiki logo
...	...
`TWiki/TWikiTemplates/testscreen.gif`	GIF image: Screen shot
`TWiki/WabiSabi/wabisabi.gif`	GIF image: illustration

Files under `twiki/data`

TWiki topics: data stored as individual text files and rendered by TWiki for display as regular Web pages. Each active web has its own subdirectory. The TWiki distribution includes a number of start-up webs - Main, TWiki, and Sandbox - with documentation and demo content, a Trash web for browser-based, recoverable topic deletion, and a _default directory containing a core topic set required to start a new web. Partial file list:

File:	Used for:
`.htpasswd`	Basic Authentication (htaccess) users file with username and encrypted password pairs
`debug.txt`	Program-generated messages useful for debugging
`mime.types`	Recognized file formats
`warning.txt`	Diagnostic messages for identifying problems
`_default/.changes`	Per web record of topic changes
`_default/.mailnotify`	Per web timestamp of most recent email notification
`_default/WebChanges.txt`	Display most recent topic changes in web
`_default/WebChanges.txt,v`	Revisions history (RCS)
`_default/WebHome.txt`	Default web home page
`_default/WebHome.txt,v`	Revisions history (RCS)
`_default/WebIndex.txt`	Lists all topics in a web
`_default/WebIndex.txt,v`	Revisions history (RCS)
`_default/WebLeftBar.txt`	Left navigation bar for PatternSkin
`_default/WebLeftBar.txt,v`	Revisions history (RCS)
`_default/WebNotify.txt`	Subscribe/unsubscribe to web changes email alert
`_default/WebNotify.txt,v`	Revisions history (RCS)
`_default/WebPreferences.txt`	Per web Preference Settings
`_default/WebPreferences.txt,v`	Revisions history (RCS)
`_default/WebSearch.txt`	Per web search options
`_default/WebSearch.txt,v`	Revisions history (RCS)
`_default/WebStatistics.txt`	Generates web usage statistics
`_default/WebStatistics.txt,v`	Revisions history (RCS)
`_default/WebTopicList.txt`	Lists all topics in a web in compact format
`_default/WebTopicList.txt,v`	Revisions history (RCS)
...	...

Files in `twiki/templates`

Templates and skins used to control appearance of topics rendered as Web pages. Partial file list:

File:	Used for:
`attach.tmpl`	Attachment (FileAttachments) control screen
`attachagain.tmpl`	Attachment control screen for updating an existing attachment
`attachnew.tmpl`	Attachment control screen for adding a new attachment
`attachtables.tmpl`	Macros for definition of attachment tables
`changeform.tmpl`	Control screen to change the form in edit mode
`changes.tmpl`	Displays list of recently changed topics
`edit.iejs.tmpl`	Edit window with IE-specific JavaScript
`edit.tmpl`	Main edit window
`mailnotify.tmpl`	Email notification
`moveattachment.tmpl`	Move attachment control screen
`oopsaccesschange.tmpl`	Error message
`oopsaccessgroup.tmpl`	Error message
`oopsaccessmanage.tmpl`	Error message
`oopsaccessrename.tmpl`	Error message
`oopsaccessview.tmpl`	Error message
`oopsattachnotopic.tmpl`	Error message
`oopsauth.tmpl`	Error message
`oopsbadcharset.tmpl`	Error message
`oopsbadpwformat.tmpl`	Error message
`oopschangepasswd.tmpl`	Error message
`oopscreatenewtopic.tmpl`	Error message
`oopsempty.tmpl`	Error message
`oopslocked.tmpl`	Error message
`oopslockedrename.tmpl`	Error message
`oopsmanage.tmpl`	Error message
`oopsmissing.tmpl`	Error message
`oopsmngcreateweb.tmpl`	Error message
`oopsmore.tmpl`	More topic actions message
`oopsmoveerr.tmpl`	Error message
`oopsnoformdef.tmpl`	Error message
`oopsnotwikiuser.tmpl`	Error message
`oopsnoweb.tmpl`	Error message
`oopspreview.tmpl`	Error message
`oopsregemail.tmpl`	Error message
`oopsregexist.tmpl`	Error message
`oopsregpasswd.tmpl`	Error message
`oopsregrequ.tmpl`	Error message
`oopsregthanks.tmpl`	Error message
`oopsregwiki.tmpl`	Error message
`oopsremoveuserdone.tmpl`	Error message
`oopsrenameerr.tmpl`	Error message
`oopsrenamenotwikiword.tmpl`	Error message
`oopsresetpasswd.tmpl`	Error message
`oopsrev.tmpl`	Error message
`oopssave.tmpl`	Error message
`oopssaveerr.tmpl`	Error message
`oopssendmailerr.tmpl`	Error message
`oopstopicexists.tmpl`	Error message
`oopsupload.tmpl`	Error message
`oopsuploadlimit.tmpl`	Error message
`oopswrongpassword.tmpl`	Error message
`preview.tmpl`	Preview Changes screen
`rdiff.tmpl`	Displays text changes before & after `Diffs`
`registernotify.tmpl`	Registration notification
`rename.tmpl`	`Rename/move` control screen (choose web & new topic tile
`renamebase.tmpl`	Used by other rename templates
`renameconfirm.tmpl`	Confirms a pre-specified rename, ex: undoing a rename
`renamedelete.tmpl`	Confirms a delete
`renamerefs.tmpl`	Display if rename done, but some references not changed (topics were locked)
`search.tmpl`	Search screen
`searchbookview.tmpl`	Search results with full topic content
`searchformat.tmpl`	Search screen for formatted search
`searchmeta.tmpl`	Search screen
`searchrenameview.tmpl`	Used by `rename` to list references to topic being renamed
`twiki.tmpl`	Master template: definitions are used by other templates
`view.plain.tmpl`	Skin for bare bone topic view without header/footer but with HTML head and body tags
`view.print.tmpl`	Skin for printable topic view with a simple header/footer
`view.rss.tmpl`	Skin for topic view in RDF XML format
`view.text.tmpl`	Skin for topic text only, without HTML head and body tags, and no form and attachments
`view.tmpl`	Main topic view - the standard regular Web page

TWiki File System Snapshot

The following partial directory listings from a Linux installation show typical file permissions and ownership. This is provided for general debugging use only and isn't an exact representation of the current distribution.

On an ISP installation... The user and group - twiki twiki - will probably be your domain or login name, eg: yourdomain yourdomain and can't be changed; same for nobody nobody files further down. Also, in the bin directory, scripts might need a .cgi (sometimes .pl) extension.

Directory twiki/bin:

drwxrwxr-x    2 twiki   twiki        4096 May  9 00:08 .
drwxrwxr-x    5 twiki   twiki        4096 Nov 18  2002 ..
-rw-rw-r--    1 twiki   twiki        3145 Jul 25 00:31 .htaccess.txt
-rwxrwxr-x    1 twiki   twiki        1459 May 28 23:51 attach
-rwxrwxr-x    1 twiki   twiki        1721 May 28 23:51 changes
-rwxrwxr-x    1 twiki   twiki        1994 May 28 23:51 edit
-rwxrwxr-x    1 twiki   twiki        1878 May 28 23:51 geturl
-rwxrwxr-x    1 twiki   twiki        6689 May 28 23:51 installpasswd
-rwxrwxr-x    1 twiki   twiki        7313 May 28 23:51 mailnotify
-rwxrwxr-x    1 twiki   twiki        3557 Jul 25 15:00 manage
-rwxrwxr-x    1 twiki   twiki        1448 May 28 23:51 oops
-rwxrwxr-x    1 twiki   twiki        4062 May 28 23:51 passwd
-rwxrwxr-x    1 twiki   twiki        1506 May 28 23:51 preview
-rwxrwxr-x    2 twiki   twiki        1490 May 28 23:51 rdiff
-rwxrwxr-x    2 twiki   twiki        1490 May 28 23:51 rdiffauth
-rwxrwxr-x    1 twiki   twiki        7635 May 28 23:51 register
-rwxrwxr-x    1 twiki   twiki        1774 May 28 23:51 rename
-rwxrwxr-x    1 twiki   twiki        1654 Jul 25 00:31 save
-rwxrwxr-x    1 twiki   twiki        1728 May 28 23:51 search
-rw-rw-r--    1 twiki   twiki        2131 Aug  7 21:13 setlib.cfg
-rwxrwxr-x    1 twiki   twiki        2596 May 28 23:51 statistics
-rwxrwxr-x    1 twiki   twiki       39926 Jul 25 15:00 testenv
-rwxrwxr-x    1 twiki   twiki        1478 May 28 23:51 upload
-rwxrwxr-x    2 twiki   twiki        1689 May 28 23:51 view
-rwxrwxr-x    2 twiki   twiki        1689 May 28 23:51 viewauth
-rwxrwxr-x    1 twiki   twiki        1438 May 28 23:51 viewfile

Directory twiki/templates/:

drwxrwxr-x    2 twiki   twiki        4096 Aug  7 19:09 .
drwxrwxr-x    4 twiki   twiki        4096 Aug  7 21:13 ..
-rw-rw-r--    1 twiki   users        2077 Aug 13 22:21 attachagain.pattern.tmpl
-rw-rw-r--    1 twiki   users        1650 Aug 13 22:21 attachagain.tmpl
-rw-rw-r--    1 twiki   twiki        2556 Jul 27 10:47 attach.dragon.tmpl
-rw-rw-r--    1 twiki   users         567 Jul 28 19:52 attachnew.pattern.tmpl
-rw-rw-r--    1 twiki   users         470 Jul 28 19:52 attachnew.tmpl
-rw-rw-r--    1 twiki   users        2855 Aug  8 03:40 attach.pattern.tmpl
-rw-rw-r--    1 twiki   users        1991 Aug  3 13:09 attachtables.pattern.tmpl
-rw-rw-r--    1 twiki   users        1869 Jul 27 22:03 attachtables.tmpl
-rw-rw-r--    1 twiki   users        2355 Jul 28 19:52 attach.tmpl
-rw-rw-r--    1 twiki   twiki        1324 Jul 27 10:47 changeform.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        1441 Aug  6 11:47 changeform.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1032 Jul 28 19:52 changeform.tmpl
-rw-rw-r--    1 twiki   twiki        1870 Jul 27 10:47 changes.dragon.tmpl
-rw-rw-r--    1 twiki   twiki         433 Jul 31 12:39 changes.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1196 May 28 23:51 changes.tmpl
-rw-rw-r--    1 twiki   twiki          35 May 21 03:56 comments.tmpl
-rw-rw-r--    1 twiki   twiki         526 Jul 27 10:47 dragoncssvars.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        1645 Jul 31 00:57 dragonmenu.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        4207 Jul 27 10:47 edit.dragon.tmpl
-rw-rw-r--    1 twiki   twiki       12608 Jul 28 19:52 edit.iejs.tmpl
-rw-rw-r--    1 twiki   twiki        4904 Aug  7 17:48 edit.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        3975 Aug  8 03:40 edit.tmpl
-rw-rw-r--    1 twiki   twiki         993 May 28 23:51 mailnotify.tmpl
-rw-rw-r--    1 twiki   twiki        1640 Jul 27 10:47 moveattachment.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        1968 Aug  7 17:48 moveattachment.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1342 Jul 28 19:52 moveattachment.tmpl
-rw-rw-r--    1 twiki   twiki         571 May 28 23:51 oopsaccesschange.tmpl
-rw-rw-r--    1 twiki   twiki         587 May 28 23:51 oopsaccessgroup.tmpl
-rw-rw-r--    1 twiki   twiki         597 Aug  2 11:10 oopsaccessmanage.tmpl
-rw-rw-r--    1 twiki   twiki         572 May 28 23:51 oopsaccessrename.tmpl
-rw-rw-r--    1 twiki   twiki         574 May 28 23:51 oopsaccessview.tmpl
-rw-rw-r--    1 twiki   twiki         571 Aug  2 11:10 oopsattachnotopic.tmpl
-rw-rw-r--    1 twiki   twiki         998 May 28 23:51 oopsauth.tmpl
-rw-rw-r--    1 twiki   twiki         646 May 28 23:51 oopsbadcharset.tmpl
-rw-rw-r--    1 twiki   twiki         406 May 28 23:51 oopsbadpwformat.tmpl
-rw-rw-r--    1 twiki   twiki         345 May 28 23:51 oopschangepasswd.tmpl
-rw-rw-r--    1 twiki   twiki         382 May 28 23:51 oopscreatenewtopic.tmpl
-rw-rw-r--    1 twiki   twiki         627 Jul  7 23:11 oopsempty.tmpl
-rw-rw-r--    1 twiki   twiki         927 Aug  3 13:09 oopslocked.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         612 Aug  2 11:10 oopslockedrename.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         596 Aug  2 11:10 oopslockedrename.tmpl
-rw-rw-r--    1 twiki   twiki         910 Aug  3 13:09 oopslocked.tmpl
-rw-rw-r--    1 twiki   twiki         679 May 28 23:51 oopsmanage.tmpl
-rw-rw-r--    1 twiki   twiki         329 May 28 23:51 oopsmissing.tmpl
-rw-rw-r--    1 twiki   twiki        2353 May 28 23:51 oopsmngcreateweb.tmpl
-rw-rw-r--    1 twiki   twiki        2987 Aug  3 13:09 oopsmore.tmpl
-rw-rw-r--    1 twiki   twiki         418 May 28 23:51 oopsmoveerr.tmpl
-rw-rw-r--    1 twiki   twiki        1133 May 28 23:51 oopsnoformdef.tmpl
-rw-rw-r--    1 twiki   twiki         521 May 28 23:51 oopsnotwikiuser.tmpl
-rw-rw-r--    1 twiki   twiki        1516 Jul 28 19:52 oopsnoweb.tmpl
-rw-rw-r--    1 twiki   twiki         394 May 28 23:51 oopspreview.tmpl
-rw-rw-r--    1 twiki   twiki         341 May 28 23:51 oopsregemail.tmpl
-rw-rw-r--    1 twiki   twiki         411 May 28 23:51 oopsregerr.tmpl
-rw-rw-r--    1 twiki   twiki         476 May 28 23:51 oopsregexist.tmpl
-rw-rw-r--    1 twiki   twiki         346 May 28 23:51 oopsregpasswd.tmpl
-rw-rw-r--    1 twiki   twiki         357 May 28 23:51 oopsregrequ.tmpl
-rw-rw-r--    1 twiki   twiki         541 May 28 23:51 oopsregthanks.tmpl
-rw-rw-r--    1 twiki   twiki         680 May 28 23:51 oopsregwiki.tmpl
-rw-rw-r--    1 twiki   twiki         587 May 28 23:51 oopsremoveuserdone.tmpl
-rw-rw-r--    1 twiki   twiki         503 May 28 23:51 oopsrenameerr.tmpl
-rw-rw-r--    1 twiki   twiki         434 May 28 23:51 oopsrenamenotwikiword.tmpl
-rw-rw-r--    1 twiki   twiki         507 May 28 23:51 oopsresetpasswd.tmpl
-rw-rw-r--    1 twiki   twiki         962 Jul 28 19:52 oopsrev.tmpl
-rw-rw-r--    1 twiki   twiki         483 May 28 23:51 oopssaveerr.tmpl
-rw-rw-r--    1 twiki   twiki         777 Jul  7 23:11 oopssave.tmpl
-rw-rw-r--    1 twiki   twiki         466 May 28 23:51 oopssendmailerr.tmpl
-rw-rw-r--    1 twiki   twiki         385 May 28 23:51 oopstopicexists.tmpl
-rw-rw-r--    1 twiki   twiki         344 May 28 23:51 oopsuploadlimit.tmpl
-rw-rw-r--    1 twiki   twiki         343 May 28 23:51 oopsupload.tmpl
-rw-rw-r--    1 twiki   twiki         365 May 28 23:51 oopswrongpassword.tmpl
-rw-rw-r--    1 twiki   twiki        3590 Jul 27 10:47 preview.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        2855 Aug  6 11:47 preview.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        2253 Aug  8 03:40 preview.tmpl
-rw-rw-r--    1 twiki   twiki        1739 Jul 27 10:47 rdiff.dragon.tmpl
-rw-rw-r--    1 twiki   users        1529 Aug 13 22:21 rdiff.pattern.tmpl
-rw-rw-r--    1 twiki   users        1299 May 28 23:51 rdiff.tmpl
-rw-rw-r--    1 twiki   twiki        1159 Jul 31 12:39 registernotify.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1160 May 28 23:51 registernotify.tmpl
-rw-rw-r--    1 twiki   twiki        2561 Jul 27 10:47 renamebase.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        3363 Aug  8 03:40 renamebase.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        2279 Jul 28 20:54 renamebase.tmpl
-rw-rw-r--    1 twiki   twiki         718 Jul 31 12:39 renameconfirm.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         570 Jul 28 19:52 renameconfirm.tmpl
-rw-rw-r--    1 twiki   twiki        1046 Jul 31 12:39 renamedelete.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         932 Jul 28 19:52 renamedelete.tmpl
-rw-rw-r--    1 twiki   twiki        1147 Jul 31 12:39 rename.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         766 Jul 28 19:52 renamerefs.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         616 Jul 28 19:52 renamerefs.tmpl
-rw-rw-r--    1 twiki   twiki        1041 Jul 28 19:52 rename.tmpl
-rw-rw-r--    1 twiki   twiki        1397 Jul 27 10:47 searchbookview.dragon.tmpl
-rw-rw-r--    1 twiki   twiki         723 Jul 31 12:39 searchbookview.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1230 May 28 23:51 searchbookview.tmpl
-rw-rw-r--    1 twiki   twiki        1705 Jul 27 10:47 search.dragon.tmpl
-rw-rw-r--    1 twiki   twiki         722 Jul 27 10:47 searchformat.dragon.tmpl
-rw-rw-r--    1 twiki   twiki         157 Jul 31 12:39 searchformat.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         529 May 28 23:51 searchformat.tmpl
-rw-rw-r--    1 twiki   twiki         149 Jul  7 23:03 searchmeta.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         149 May 28 23:51 searchmeta.tmpl
-rw-rw-r--    1 twiki   twiki        1638 Aug  7 17:48 search.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1892 Jul 27 10:47 searchrenameview.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        1208 Aug  3 13:09 searchrenameview.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        1615 May 28 23:51 searchrenameview.tmpl
-rw-rw-r--    1 twiki   twiki        1364 May 28 23:51 search.tmpl
-rw-rw-r--    1 twiki   twiki        3836 Jul 27 10:47 twiki.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        3175 Aug  7 17:48 twiki.pattern.tmpl
-rw-rw-r--    1 twiki   twiki        2798 Jul 27 22:57 twiki.tmpl
-rw-rw-r--    1 twiki   twiki        1324 Jul 27 10:47 view.dragon.tmpl
-rw-rw-r--    1 twiki   twiki        3577 Aug  8 03:40 view.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         425 May 28 23:51 view.plain.tmpl
-rw-rw-r--    1 twiki   twiki        1056 Jul 31 12:39 view.print.pattern.tmpl
-rw-rw-r--    1 twiki   twiki         845 May 28 23:51 view.print.tmpl
-rw-rw-r--    1 twiki   twiki         300 May 28 23:51 view.rss.tmpl
-rw-rw-r--    1 twiki   twiki           8 May 28 23:51 view.text.tmpl
-rw-rw-r--    1 twiki   twiki        1281 Jul 31 12:39 view.tmpl

Directory twiki/data/:

drwxrwxr-x    7 nobody  twiki        4096 Aug  7 21:13 .
drwxrwxr-x    4 twiki   twiki        4096 Aug  7 21:13 ..
-rw-rw-rw-    1 twiki   twiki           0 Feb  1  2003 debug.txt
drwxrwxr-x    2 nobody  twiki        4096 Jul 16 00:36 _default
-rw-rw-r--    1 twiki   twiki          25 Dec 16  2003 .htpasswd.txt
-rw-rw-r--    1 nobody  nobody      11811 Aug 13 23:10 log200408.txt
drwxrwxr-x    2 nobody  twiki        4096 Aug  4 21:03 Main
-rw-rw-r--    1 twiki   twiki        3419 Aug 13  2001 mime.types
drwxrwxr-x    2 nobody  twiki        4096 Aug  7 21:03 Sandbox
drwxrwxr-x    2 nobody  twiki        4096 Jul 20 18:15 Trash
drwxrwxr-x    2 nobody  twiki       12288 Aug 13 23:10 TWiki
-rw-rw-rw-    1 twiki   twiki           0 Aug  7 18:03 warning.txt

Partial file list for twiki/data/Main:

Included files come with their RCS versions histories .txt,v.

drwxrwxr-x    2 nobody  twiki        4096 Aug  4 21:03 .
drwxrwxr-x    7 nobody  twiki        4096 Aug  7 21:13 ..
-rw-rw-rw-    1 twiki   twiki        3743 Aug  4 21:03 .changes
-rw-rw-rw-    1 twiki   twiki           9 Oct 25  2001 .mailnotify
-rw-r--r--    1 nobody  nobody        518 Dec 16  2003 TWikiAdminGroup.txt
-r--r--r--    1 nobody  nobody       2453 Dec 16  2003 TWikiAdminGroup.txt,v
-rw-r--r--    1 nobody  nobody       1668 Aug  4 21:03 TWikiGroups.txt
-r--r--r--    1 nobody  nobody       3421 Aug  4 21:03 TWikiGroups.txt,v
-rw-r--r--    1 nobody  nobody        686 Dec 13  2000 TWikiGuest.txt
-rw-r--r--    1 nobody  nobody       1995 Dec 13  2000 TWikiGuest.txt,v
-rw-r--r--    1 nobody  nobody        319 Dec 20  2003 TWikiPreferences.txt
-r--r--r--    1 nobody  nobody        508 Dec 20  2003 TWikiPreferences.txt,v
-rw-r--r--    1 nobody  nobody       1812 Feb 20 13:54 TWikiUsers.txt
-r--r--r--    1 nobody  nobody       9222 Feb 20 13:54 TWikiUsers.txt,v
-rw-r--r--    1 nobody  nobody        119 Jan 11  2003 TWikiVariables.txt
-r--r--r--    1 nobody  nobody        742 Jan 11  2003 TWikiVariables.txt,v
-rw-r--r--    1 nobody  nobody        124 Aug 16  2001 WebChanges.txt
-r--r--r--    1 nobody  nobody        526 Aug 16  2001 WebChanges.txt,v
-rw-r--r--    1 nobody  nobody       1842 Feb  1  2003 WebHome.txt
-r--r--r--    1 nobody  nobody      11862 Feb  1  2003 WebHome.txt,v
-rw-r--r--    1 nobody  nobody        176 Nov 24  2001 WebIndex.txt
-r--r--r--    1 nobody  nobody        483 Nov 24  2001 WebIndex.txt,v
-rw-r--r--    1 nobody  nobody        922 Feb  3  2003 WebNotify.txt
-r--r--r--    1 nobody  nobody       4303 Feb  3  2003 WebNotify.txt,v
-rw-r--r--    1 nobody  nobody       3738 Dec 25  2003 WebPreferences.txt
-r--r--r--    1 nobody  nobody      10697 Dec 25  2003 WebPreferences.txt,v
-rw-r--r--    1 nobody  nobody        416 Jan 30  2003 WebRss.txt
-r--r--r--    1 nobody  nobody        605 Jan 30  2003 WebRss.txt,v
-rw-r--r--    1 nobody  nobody        164 Jan 18  2004 WebSearchAdvanced.txt
-r--r--r--    1 nobody  nobody        353 Jan 18  2004 WebSearchAdvanced.txt,v
-rw-r--r--    1 nobody  nobody        158 Aug  7  2001 WebSearch.txt
-r--r--r--    1 nobody  nobody      18332 Aug  7  2001 WebSearch.txt,v
-rw-r--r--    1 nobody  nobody        825 Jul 16 00:32 WebStatistics.txt
-r--r--r--    1 nobody  nobody       4226 Jul 16 00:32 WebStatistics.txt,v
-rw-r--r--    1 nobody  nobody        182 Nov 24  2001 WebTopicList.txt
-r--r--r--    1 nobody  nobody        371 Nov 24  2001 WebTopicList.txt,v

Directory twiki/pub/:

drwxrwxr-x    8 nobody  nobody       4096 Nov 18 12:31 .
drwxrwxr-x    3 twiki   twiki        4096 Nov 18 12:31 ..
drwxrwxr-x    2 nobody  nobody       4096 Apr  7  2002 Main
drwxrwxr-x    2 nobody  nobody       4096 Apr 20  2002 Sandbox
drwxrwxr-x    8 nobody  nobody       4096 Nov 18 12:31 TWiki
drwxrwxr-x    2 nobody  nobody       4096 Dec  3  2001 Trash
-rw-rw-r--    1 twiki   twiki        1078 Jan 14  2000 favicon.ico
drwxrwxr-x    2 twiki   twiki        4096 Nov 18 12:31 icn
-rw-rw-r--    1 twiki   twiki        2877 Jun  7  1999 wikiHome.gif

Partial file list for twiki/pub/icn/:

drwxrwxr-x    2 twiki   twiki        4096 Nov 18 12:31 .
drwxrwxr-x    8 nobody  nobody       4096 Nov 18 12:31 ..
-rw-rw-r--    1 twiki   twiki         801 Mar 26  1999 _filetypes.txt
-rw-rw-r--    1 twiki   twiki         143 Mar  9  1999 bat.gif
-rw-rw-r--    1 twiki   twiki         926 Mar  9  1999 bmp.gif
-rw-rw-r--    1 twiki   twiki         141 Mar 25  1999 c.gif
-rw-rw-r--    1 twiki   twiki         144 Mar  9  1999 dll.gif
-rw-rw-r--    1 twiki   twiki         152 Mar  9  1999 doc.gif

Directory twiki/pub/TWiki:

drwxrwx--x    8 nobody  nobody       4096 Nov 18 12:31 .
drwxrwxr-x    8 nobody  nobody       4096 Nov 18 12:31 ..
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 FileAttachment
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 PreviewBackground
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 TWikiDocGraphics
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 TWikiLogos
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 TWikiTemplates
drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 WabiSabi

Directory twiki/pub/TWiki/FileAttachment:

drwxrwxr-x    2 nobody  nobody       4096 Nov 18 12:31 .
drwxrwx--x    8 nobody  nobody       4096 Nov 18 12:31 ..
-rw-rw-r--    1 nobody  nobody         30 Jul 22  1999 Sample.txt
-rw-rw-r--    1 nobody  nobody         94 Jun  7  1999 Smile.gif
-r--r--r--    1 nobody  nobody         81 Aug 15 10:14 Smile.gif,v

-- TWiki:Main.PeterThoeny - 29 Aug 2004
-- TWiki:Main.MikeMannix - 16 May 2002
-- TWiki:Main.ArthurClemens - 08 Aug 2004

Common attributes parser code module, for use by Plugins authors.

Summary of Contents

Provides a simple and consistent interface for creation and management of lists of standard TWiki-syntax attribute value lists, as used in tags.

Detailed Documentation

Package TWiki::Contrib::Attrs

Class of attribute sets, designed for parsing and storing attribute values from a TWiki tag e.g. %TAG{fred="bad" "sad" joe="mad"}%

An attribute set is a map containing an entry for each parameter. The default parameter (unnamed quoted string) is named __default__ in the map. Attributes declared later in the string will override those of the same name defined earlier. Escaping quotes is not supported.

The parser is forgiving; it will handle standard TWiki syntax (parameter values double-quoted) but also single-quoted values, unquoted spaceless values, spaces around the =, and commas as well as spaces separating values.

new ($string) => Attrs object ref

$string

String containing attribute specification

Parse a standard attribute string containing name=value pairs and create a new attributes object. The value may be a word or a quoted string. If there is an error during parsing, the parse will complete but $this->{__error__} will be set in the new object.

Example:

use TWiki::Contrib::Attrs;
my $attrs = new TWiki::Contrib::Attrs('the="time has come", "the walrus" said to=speak of='many things');

In this example: * the will be time has come * __default__ will be the walrus * said will be on * to will be speak * of will be many things

get( $key) => value

$key	Attribute name

Get an attr value; return undef if not set

isEmpty() => boolean

Return false if attribute set is not empty.

remove($key) => value

$key	Attribute to remove

Remove an attr value from the map, return old value. After a call to remove the attribute is no longer defined.

toString() => string

Generate a printed form for the map, using standard attribute syntax, with only the single-quote extension syntax observed (no {} brackets, though).

Settings

Name of the perl package
- Set STUB = TWiki::Contrib::Attrs

Installation Instructions

Download the ZIP file from the Plugin web (see below)
Unzip AttrsContrib.zip in your twiki installation directory. Content:

File: Description:

data/TWiki/AttrsContrib.txt

lib/TWiki/Contrib/Attrs.pm

lib/TWiki/Contrib/AttrsContrib/test.zip

lib/TWiki/Contrib/AttrsContrib/build.pl

Plugin Info

Author:	TWiki:Main/CrawfordCurrie http://www.c-dot.co.uk
Copyright ©:	2001, Motorola Corp, All Rights Reserved
License:	GPL
Dependencies:	None
Change History:
14/08/04	Separated out from SharedCode^? module
Home:	http://TWiki.org/cgi-bin/view/Plugins/AttrsContrib
Feedback:	http://TWiki.org/cgi-bin/view/Plugins/AttrsContribDev

Related Topics: TWikiPreferences

-- TWiki:Main/CrawfordCurrie - 12:53:50 16 August 2004

BookView is an option available from the WebSearch topic. It allows you to display the result in "book view", that is, the whole content of topics is shown instead of a topic summary. This allows you to easily see a whole set of pages, which is useful for printing.

Skull Stripping

Please put your initials, the date, and time next to the corresponding brain # completed.

For instructions on how to edit this page...Go here

Thanks

Skull Stripping Cases

Skull Stripping 1-99

Skull Stripping 100-199

Skull Stripping 200-299

Brain Collection Sheet

Hippocampus pba40

Pipeline Ontology List

ICBM Cases Second Batch

Completed Brains Progress Sheet

Ahoy hoy...

In order to keep an organized record of your progress, we have set up this web page so that you could update your data. Click on a brain structure you are working on and edit the table.

For instructions on how to edit a page...Go here

Thanks

Initials Legend

Skull Stripping

Left/Right Hemispheres

Frontal Lobe Cleanup

Temporal Lobe Cleanup

Parietal Lobe Cleanup

Occipital Lobe Cleanup

Occipial/Parietal Cleanup

Frontal/Temporal Cleanup

All Brain Cleanup

Individual Brain Structures:

Brian Christina Jen Wilma

Mubeena

New Actual Skull Stripping

For Peter & Mo Only (and maybe Mubeena)

Brain Stem

Case #	Initials	Date	Hrs/Case
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005
1022
1026
1039
1059
1086

1037	YH
1069	YH	07/25	~1 hr
1091	YH	07/25	~1 hr
1096	CC	07/24	~2 hrs
1098	CC	07/24	1 hr 30 min
1100	YH	07/26	~45 min
1109	YH	07/25	~1 hr
1110	YH	07/25	~30 min
1116	YH	07/25	~30 min
1121	YH	07/25	~30 min
1146	YH	07/25	~30 min
1147	YH	07/26	~40 min
1151	YH	08/01	~40 min
1153	YH	08/01	~45 min
1158	YH
1159	YH	07/26	~45 min
1165	YH
1175	YH	07/26	~30 min
1193	YH	07/26	~30 min
1203	YH	07/26	~45 min
1216	YH	07/28	~45 min
1217	YH	07/28	~30 min
1218	YH	07/28	~30 min
1220	YH	07/28	~30 min
1229	YH	07/28	~35 min
1232	YH	07/28	~40 min
1234	YH	08/01	~35 min
1236	YH	08/01	~35 min
1243	YH	08/01	~35 min
1246	YH	08/01	~40 min

1248	CC	07/26	1 hr 20 min
1259	CC	07/26	1 hr 10 min
1265	CC	07/26	1 hr 10 min
1275	CC	07/26	1 hr 15 min
1288	CC	07/27	1 hr
1292	CC	07/27	50 min
1295	CC	07/27	55 min
1296	CC	07/27	50 min
1338	CC	07/28	~1 hr
1340	CC	07/28	55 min
1356	CC	07/28	55 min
1367	CC	07/31	~1 hr
1371	CC	08/01	50 min
1376	CC	07/31	50 min
1391	CC	08/01	~50 min
1406	CC	08/01	50 min
1422	CC	08/01	55 min
1427	CC	08/02	45 min
1430	CC	08/02	35 min
1436	CC	08/02	40 min
1438	CC	08/02	40 min
1446	CC	08/02	~50 min
1450	CC	08/02	35 min
1459	CC	08/04	~1 hr
1468	CC	08/04	50 min
1476	CC	08/04	45 min
1487	CC	08/04	45 min
1489	YH	08/02	~45 min
1498	YH	08/02	~40 min

not in cxfs: 1037 1100 1158 1165

Go Back

-- MubeenaMirza - 05 Oct 2006

Brian

Case #	Initials	Date	Hrs/Case	Notes
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
Superior Occipital Gyrus
1005	BRM	10/5	1	have reliability
1022	BRM	10/5	1
1026	BRM	10/5	1
1039	BRM	10/5	1

Middle Occiptial Gyrus
1005	BRM	10/11	1	have reliability
1022	BRM	10/11	1
1026	BRM	10/11	1
1039	BRM	10/12	1

Inferior Occipital Gyrus
1005	BRM	10/13	1
1022	BRM	10/13	.75
1026	BRM	10/13	.75
1039	BRM	10/13, 10/18	1

Cuneus
1005	BRM	9/7	1	have reliability
1022	BRM	9/7	1
1026	BRM	9/7	1
1039	BRM	9/7	1

Lingual Gyrus
1005	BRM	10/12	1	have reliability
1022	BRM	10/12	1
1026	BRM	10/12	1
1039	BRM	10/12	1

Go Back

See WikiWord

Change password

Forgot your old password? Then use ResetPassword instead. Please only use ResetPassword in case you really forgot your password. Thank you.

After submitting this form your password will be changed.

If you have questions please contact the TWiki webmaster webmaster@loni.ucla.edu.

Note to administrator: The change password form applies only if TWiki uses Basic Authentication, e.g. a .htpassword file managed by TWiki. It does not apply if you are using external authentication, such as an IT managed password system. (remove this note if you are using Basic Authentication; else replace this topic with a note describing how to change the password in your organization)

Caudate Nucleus

Case #	Initials	Date	Hrs/Case	Notes
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005	SM JL	1/26/07, 1/29	40min
1022	SM JL	1/26, 1/29	50 min
1026	SM JL	1/30, 1/29	30min
1039	SM JL	1/30, 2/2	30min
1059	SM JL	1/30, 2/2	30min
1086	SM JL	1/30, 2/2	30min

1037	SM	3/2	1 hr
1069	SM	3/2	1 hr
1091	SM	3/2	1 hr
1096	SM	2/14	30 min
1098	SM	2/15	30 min
1100	SM	2/15	30 min
1109	SM	4/3	1 hr
1110	SM	4/4	1 hr
1116	SM	4/4	30 min
1121	SM	4/5	40 min
1146	SM	4/5	30 min
1147	SM	4/5	30 min
1151	SM	4/5	40 min
1153	SM	4/5	30 min
1158	SM	4/5	30 min
1159	SM	4/5	40 min
1165	SM	4/6	1 hr
1175	SM	4/6	30 min
1193	SM	4/6	30 min
1203	SM	4/6	30 min
1216	SM	4/6	30 min
1217	SM	4/6	30 min
1218	SM	4/6	30 min
1220	SM	4/6	30 min
1229	SM	4/6	30 min
1232	SM	4/6	30 min
1234	SM	4/6	30 min
1236	SM	4/7	1 hr
1243	SM	4/7	30 min
1246	SM	4/7	30 min

1248	JL	2/23	1 hr	Reliability not yet been reached
1259	JL	2/23	45 min
1265	JL	2/23	45 min
1275	JL	2/23	40 min
1288	JL	2/23	40 min
1292	JL	2/23	40 min
1295	JL	2/23	38 min
1296	JL	2/23	35 min
1338	JL	2/28	40 min
1340	JL	2/28	38 min
1356	JL	2/28	40 min
1367	JL	3/6	45 min
1371				File Not Found
1376	JL	3/6	40 min
1391	JL	3/6	45 min
1406	JL	3/7	40 min
1422	JL	3/7	45 min
1427	JL	3/7	40 min
1430	JL	3/8	45 min
1436	JL	3/8	45 min
1438	JL	3/22	45 min
1446	JL	3/22	40 min
1450	JL	3/22	38 min
1459	JL	3/22	45 min
1468	JL	3/22	45 min
1476	JL	3/22	45 min
1487	JL	3/22	45 min
1489	JL	3/23	45 min
1498				File Not Found

Go Back

Cerebellum

Case #	Initials	Date	Hrs/Case	cleanup BS/CEREB
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005	RL QH	7/11 7/12	3 3	QH RL
1022	RL QH	7/12 7/14	3 3	QH RL
1026	RL QH	7/18 7/14	3 3	QH RL
1039	RL QH	7/19 7/17	3 3	QH RL
1059	RL QH	7/18 7/17	3 3	QH
1086	RL QH	7/19 7/19	3 3	QH RL

1037	QH	8/8	1.25	QH RL
1069	QH	8/8	1	QH RL
1091	QH	7/21	2	QH RL
1096	QH	7/24	1.5	QH RL
1098	QH	7/24	1.5	QH RL
1100	QH	7/24	1.5	QH RL
1109	QH	7/26	1.5	QH RL
1110	QH	7/26	1	QH RL
1116	QH	7/26	1	QH RL
1121	QH	7/26	1.5	QH RL
1146	QH	7/27	1.25	QH RL
1147	QH	7/28	1.25	QH RL
1151	QH	7/28	1.25	QH RL
1153	QH	7/28	1	QH RL
1158	QH	8/8	1	QH RL
1159	QH	7/28	1	QH RL
1165	QH	8/8	1	QH RL
1175	QH	7/31	1	QH RL
1193	QH	7/31	1	QH RL
1203	QH	7/31	1	QH RL
1216	QH	7/31	1.25	QH RL
1217	QH	8/4	1	QH RL
1218	QH	8/4	1	QH RL
1220	QH	8/4	1	QH RL
1229	QH	8/7	1	QH RL
1232	QH	8/7	1	QH RL
1234	QH	8/7	0.75	QH RL
1236	QH	8/7	1	QH RL
1243	QH	8/7	1	QH RL
1246	RL	8/8	1.25	QH RL

1248	RL	7/25	2	QH RL
1259	RL	7/26	1.5	QH RL
1265	RL	7/26	1.5	QH RL
1275	RL	7/26	1.25	QH RL
1288	RL	7/26	1.5	QH RL
1292	RL	7/26	1.5	QH RL
1295	RL	7/27	1.5	QH RL
1296	RL	7/27	1.5	QH RL
1338	RL	8/1	1.5	QH RL
1340	RL	8/1	1.25	QH RL
1356	RL	8/1	.75	QH RL
1367	RL	8/1	1.25	QH RL
1371	RL	8/8	1.25	QH ??
1376	RL	8/8	1.25	QH RL
1391	RL	8/2	1	QH RL
1406	RL	8/2	1	QH RL
1422	RL	8/2	1.5	QH RL
1427	RL	8/2	.75	QH RL
1430	RL	8/3	1	QH RL
1436	RL	8/4	1	QH RL
1438	RL	8/4	1	QH RL
1446	RL	8/4	1	QH
1450	RL	8/4	1.25	QH RL
1459	RL	8/5	1	QH RL
1468	RL	8/6	.75	QH RL
1476	RL	8/7	.75	QH RL
1487	RL	8/7	1	QH RL
1489	RL	8/7	.5	QH RL
1498	RL	8/7	1	QH RL

Go Back

Change password

Please only use ResetPassword in case you really forgot your password. Thank you.

Follow this link to change your password. After submitting this form your password will be changed.

If you have questions please contact the TWiki webmaster webmaster@loni.ucla.edu.

Note to administrator: The change password form applies only if TWiki uses Basic Authentication, e.g. a .htpassword file managed by TWiki. It does not apply if you are using external authentication, such as an IT managed password system. (remove this note if you are using Basic Authentication; else replace this topic with a note describing how to change the password in your organization)

-- MubeenaMirza - 05 Oct 2006 -- MubeenaMirza - 05 Oct 2006

Christina

Case #	Initials	Date	Hrs/Case	Notes
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005
1022
1026
1039
1059
1086

1037
1069
1091
1096
1098
1100
1109
1110
1116
1121
1146
1147
1151
1153
1158
1159
1165
1175
1193
1203
1216
1217
1218
1220
1229
1232
1234
1236
1243
1246

1248
1259
1265
1275
1288
1292
1295
1296
1338
1340
1356
1367
1371
1376
1391
1406
1422
1427
1430
1436
1438
1446
1450
1459
1468
1476
1487
1489
1498

Go Back

Cingulate Gyrus

Case #	Initials	Date	Hrs/Case	Notes	cleanup cing/postc/prec/spg	cleanup cing/spg/sfg
Please be a precise as possible with times completed
Also, make sure you're putting the right info in the right column...
1005	QH RL	8/10 8/10	3 4			QH
1022	QH RL	8/11 8/14	1.75 2			QH
1026	QH	8/11	2			QH
1039	QH	8/14	1.75			QH
1059	QH	8/14	1.25			QH
1086	QH	8/14	1.5			QH

1037	QH	8/30	1		QH	QH
1069	QH	8/16	1		QH	QH
1091	QH	8/17	1		QH	QH
1096	QH	8/17	1		QH	QH
1098	QH	8/17	1		QH	QH
1100	QH	8/17	0.75		QH	QH
1109	QH	8/22	1		QH - FINAL
1110	QH	8/22	1		QH - FINAL
1116	QH	8/22	1		QH	QH
1121	QH	8/22	0.75		QH	QH
1146	QH	8/24	1		QH	QH
1147	QH	8/24	1		QH	QH
1151	QH	8/24	1			QH
1153	QH	8/24	1			QH
1158	QH	8/28	1			QH
1159	QH	8/28	1			QH
1165	QH	8/28	1
1171	no brain files
1175	QH	8/28	1			QH
1193	QH	8/29	0.5			brain unfinished - missing cing gyrus
1203	QH	8/29	0.5			QH
1216	QH	8/29	0.75			QH
1217	QH	8/29	0.75			QH
1218	QH	8/29	1			QH
1220	QH	8/29	1			QH - missing left spg
1229	QH	8/29	0.75		QH - FINAL
1232	QH	8/30	1		QH - FINAL
1234	QH	8/30	0.75		QH - FINAL
1236	QH	8/30	1		QH - FINAL
1243	QH	8/30	0.75		QH - FINAL
1246	QH	8/30	1		QH - FINAL

1248	RL	8/18	2		RL	RL
1259	RL	8/21	1.5		missing	RL
1265	RL	8/21	1.5		RL	RL
1275	RL	8/21	1.5		RL	RL
1288	RL	8/22	1.5		RL	RL
1292	RL	8/22	1.5	cereb	missing	RL
1295	RL	8/22	1.5		RL	RL
1296	RL	8/22	1		RL	RL
1338	RL	8/22	1.5		RL	RL
1340	RL	8/28	1		RL	RL
1356	RL	8/28	1		RL	RL
1367	RL	8/23	1.25		RL	RL
1371	RL	8/28	1		RL	missing
1376	RL	8/28	1		RL	RL
1391	RL	8/28	1		QH	QH
1406	RL	8/28	1		QH	RL
1422	RL	8/28	1		QH	RL
1427	RL	8/29	1		QH	RL
1430	RL	8/29	1		QH	RL
1436	RL	8/29	1		RL	RL
1438	RL	8/29	1		QH	RL
1446	RL	8/29	1		QH - FINAL
1450	RL	8/29	1		QH - FINAL
1459	RL	8/29	1		QH - FINAL
1468	RL	9/3	1		QH - FINAL
1476	RL	9/4	1		QH - FINAL
1487	RL	9/4	1		QH - FINAL
1489	RL	9/4	1	with cereb	QH - FINAL
1498	RL	9/4	1		QH - FINAL

Go Back

Classic Skin

The classic TWiki skin is a bare bone and functional skin, supporting any browser, and has a minimum of graphics

This is not really a skin. It is the set of default templates, shown if no skin is activated. The default templates are part of every TWiki distribution.

Skin Info

Description:	The classic TWiki skin, bare bone and functional, for any browser, with a minimum of graphics
Screenshot:
Base Name:	classic
Skin Author:	TWiki:Main/PeterThoeny
Skin Version:	25 Jul 2004 (v1.000)
Change History:
25 Jul 2004:	Initial version (v1.000)
Dependencies:
Skin Home:	http://TWiki.org/cgi-bin/view/Plugins/ClassicSkin
Feedback:	http://TWiki.org/cgi-bin/view/Plugins/ClassicSkinDev

Note: The Description, Screenshot and Base Name rows are needed by the TWikiSkinBrowser

Related topic: TWikiSkins, TWikiSkinBrowser

-- TWiki:Main/PeterThoeny - 25 Jul 2004

-- MubeenaMirza - 08 Nov 2006

Case #	structure
1005
1022	sfg/mfg/mfo
1026	sfg/mfg/mfo
1039	sfg/mfg/mfo
1059	sfg/mfg/
1086	sfg/mfg

1037
1069	sfg/mfg
1091
1096
1098
1100	sfg/mfg
1109	sfg/mfg
1110
1116	sfg/mfg
1121	sfg/mfg
1146	sfg/mfg
1147	sfg/mfg	in progress
1151	sfg/mfg
1153
1158
1159
1165
1175
1193
1203
1216
1217
1218
1220
1229
1232
1234
1236
1243
1246

1248
1259
1265
1275
1288
1292
1295
1296
1338
1340
1356
1367
1371
1376
1391
1406
1422
1427
1430
1436
1438
1446
1450
1459
1468
1476
1487
1489
1498

Go Back

-- Main.guest - 06 Feb 2009 09:31:42
-- Main.guest - 03 Dec 2008 04:16:34
-- Main.guest - 06 Nov 2008 17:51:00
-- Main.guest - 06 Nov 2008 17:50:43
-- Main.guest - 29 Aug 2008 17:09:18

Comment Plugin

This plugin allows users to quickly post comments to a page without an edit/preview/save cycle.

( Discussion in TWiki:Plugins/CommentPluginDev )

Features

Inserts an edit box into the page that allows users to type in and save comments. Comments can be made

in different formats (as defined by a template),
in both forward and reverse chronological order,
signed or unsigned, dated or undated (as defined by a template),
in other topics, or other positions within the current topic.

Syntax Rules

Write the command %COMMENT{ attributes }% anywhere in a TWiki topic. %COMMENT% is also legal.

The following attributes are recognised

Name	Description
`type`	This is the name of the template to use for this comment. Comment templates are defined in a TWiki template - see Customisation, below. If this attribute is not defined, the type is whatever is defined by COMMENTPLUGIN_DEFAULT_TYPE, either in this topic or in your WebPreferences. By default this is 'below'.
`target`	Name of the topic to add the comment to. Defaults to the current topic.
`location`	Regular expression specifying the comment location in the target topic. Read carefully below!
`mode`	For compatability with older versions only, synonymous with `type`
`nonotify`	Set to "on" to disable change notification for target topics
`noform`	Set to "on" to disable the automatic form that encloses your comment block - remember to insert `<FORM>` tags yourself!

Positioning the comment

%COMMENT supports several ways to specify where a comment should be inserted in the target topic. This is referred to as the location of the comment.

Location relative to `%COMMENT` tag

The default location is the %COMMENT tag itself. For example:

%COMMENT{type="below"}%

will add comments in the current topic, directly below the %COMMENT tag.

Location relative to a TWiki anchor

The target attribute may specify a web, and may also specify an anchor within the target topic; for example,

%COMMENT{type="above" target="%MAINWEB%.PersonalRemarks#InsertHere"}%

This uses a standard TWiki in-topic anchor as the insertion location. See TextFormattingRules for more about TWiki anchors.

Location relative to an arbitrary text string

Getting more sophisticated, you can also specify a regular expression for the target location using the location parameter. The target topic is searched for the regular expression, and the comment inserted relative to the string that the search matched. For example,

%COMMENT{type="above" location="Flights of Fancy"}%

will place comments above the first occurence of the string Flights of Fancy in the current topic.

Warning of course, if a user's comment contains the string "Flights of Fancy" they may and up changing the location for the next comment! Also, if you use a tag in the location, then you've just inserted another tag in the page that contains the %COMMENT! So be very careful how you specify the RE for location. Note that the RE is matched using perl "multiple line" mode, so ^ and $ match the start of a line and the end of a line respectively.

I look forward to someone leveraging this feature to create - for example - threaded conversations using %COMMENT.

If you specify an anchor and a location, the anchor will be ignored.

Default templates

Templates are used to define the "comment style" i.e. how comments appear in the page. The default is to add comments in "Blog like" style using bulleted lists, with the most recent comment at the top, but many other styles are available such as tables or Wiki thread mode comments. It is easy to define your own customer styles as well.

A set of default comment templates are shipped with the plugin. These are:

Template type	Description
`top`	Comments, signed and dated, added at top of the topic (the anchor is ignored)
`bottom`	Comments, signed and dated, added at end of the target topic (the anchor is ignored)
`above`	Comments, signed and dated, added immediately before the target anchor, or the `%COMMENT` if no anchor is specified
`below`	Comments, signed and dated, added immediately below the target anchor, or the `%COMMENT` if no anchor is specified
`threadmode`	Wiki thread mode comment, signed and dated
`tableprepend`	Comments, signed and dated, formatted as an HTML table row, added below the anchor (which must be in an HTML <table>)
`tableappend`	Comments, signed and dated, formatted as an HTML table row, added above the anchor (which must be in an HTML <table>)

Your local installation may add more template types as well - see Customisation, below.

Customisation

Customisation of the comment plugin requires

familiarity with HTML forms,
some familiarity with the TWiki templating language.

The plugin picks up its templates from a standard TWiki template file, named "comments". This allows different templates to be defined for different TWiki skins. This template file may include other template files, or may include a topic from a user web (this is an extension to the normal handling of %TMPL:INCLUDE described in the documentation). The shipped plugin defines default templates in comments.tmpl and then includes the topic CommentsTmpl. If you want to define your own templates, add them to UserTemplates^?. Note that you can use %TMPL:INCLUDE in this file to include other files of templates. Note also that if you want to override any of the default templates shipped with the plugin, you can simply do so by defining them in UserTemplates^?, and they will replace the installed versions.

To define a comment type, you have to provide two simple template definitions in the template file; one for the prompt box, and one for the generated output. If we have a template type "mytype", these are named PROMPT:mytype and OUTPUT:mytype respectively. See comments.tmpl in the templates directory for examples.

The `PROMPT` template

The PROMPT template defines the contents of an HTML form that is used to capture the comment. This form invokes the comment generator when submitted. Parameters to the comment generator are defined using standard HTML input fields, such as input, textarea and select. The user enters values for these parameters, and these are then available when the OUTPUT template is expanded, in the form of %URLPARAM%s.

Only the input fields of the form need be defined. The plugin automatically generates the >form< and &gt:/form< tags, unless you specify noform="on", in which case you have to provide them yourself. Note that you must define a "submit" button if you want the form to work!

If an attribute is given to the %COMMENT tag that is not one of the standard attributes, then that attribute is taken as the name of a parameter to be expanded in the PROMPT template. Expressions in the template of the form %param|default% (e.g. %rows|3%, %button|Push me%) are expanded to the values given in the %COMMENT. For example, if the PROMPT template 'example' contains:

<textarea rows=%rows|3% cols="%cols|50%" value="%tval|Rubbish%">

and the %COMMENT tag is:

%COMMENT{type="example" cols="75"}%

then the template will be expanded as

<textarea rows="3" cols="75" value="Rubbish">

As well as support for all the usual TWiki variables in templates, the following special variables are supported in the PROMPT definition:

Variable	Description
`%MESSAGE%`	A helpful generated message, either a lock message or a reminder to refresh.
`%DISABLED%`	Set to 'disabled' when you cannot comment (see Important Note regarding Locks, below).

The `OUTPUT` template

The OUTPUT template defines the format for the text that actually gets embedded into the topic. All the usual TWiki variables are available in the PROMPT definition, but note that they get expanded when the comment is inserted in the text, so time, date and username will refer to the time and date when the comment was made and the user who made it.

There are also four position tags that are used to indicate where the comment should be placed, relative to the location defined in the %COMMENT tag:

`%POS:TOP%`	If present, comments will be inserted at the top of the topic i.e. before any other text
`%POS:BOTTOM%`	If present, comments will be inserted at the end of the topic i.e. after all existing text
`%POS:BEFORE%`	If present, comments will be inserted immediately before the `%COMMENT%` tag
`%POS:AFTER%`	If present, comments will be inserted immediately after the `%COMMENT%` tag

Note that these position tags are obviously mutually exclusive. If you define more than one, the result is undefined. If none is present, the default is taken from the plugin setting DEFAULT_TYPE

Important Note regarding Locks

The plugin checks if the page is locked for edit. When a locked page is displayed in 'view' mode, comment input is automatically disabled.

Note that if the page was read long time ago, it's possible that page was locked by another user after it was read, and the lock is still outstanding. In this case, comments cannot be saved, and you will be redirected to a "topic is locked" page. You then have two options:

Cancel - throw away your comment and return to viewing the page.
Back - WARNING some browsers might requery the page and lose your comments - so test how your browser behaves before using the Back button.

To help avoid edit conflict, a reminder to refresh the page before entering comments is the default text for a %COMMENT. When the target page is known to be locked, the PROMPT form is automatically disabled.

Settings

Description:
- Set SHORTDESCRIPTION = Allows users to quickly post comments to a page without an edit/preview/save cycle.
Name of file in the 'templates' directory that contains the comment templates. The default 'comments.tmpl' automatically includes user templates from CommentsTmpl
- Set TEMPLATES = comments
default template type (if not present, defaults to "below")
- Set DEFAULT_TYPE = below

Plugin Installation Instructions

Download the ZIP file from the Plugin web (see below)
Unzip CommentPlugin.zip in your twiki installation directory. Content:

File:

You type	You see
`---+ This is a heading`	This is a heading
`---++ And so is this`	And so is this

File:	Description:
`data/TWiki/AttrsContrib.txt`
`lib/TWiki/Contrib/Attrs.pm`
`lib/TWiki/Contrib/AttrsContrib/test.zip`
`lib/TWiki/Contrib/AttrsContrib/build.pl`

Your WikiName:	`**`
Old password:	`**`
New password:	`**`
Retype new password:	`**`
	(Fields marked `**` are required)

Slide 1: A Taste of TWiki

Slide 2: TWiki Wiki

Slide 3: Where is it used?

Slide 4: TWiki Features

Slide 5: Applications of basic TWiki

Slide 6: Extended applications

Slide 7: Structure of a TWiki page

Slide 8: The Page Header

Slide 9: The Page Header

Slide 10: The Page Footer

Slide 11: Editing Pages

Slide 12: What's in a page

Slide 13: Formatting just makes pages prettier

Slide 14: Commonly used formatting

This is a heading

And so is this

Slide 15: More common formatting

Slide 16: Even more.....

Slide 17: WikiWords

Slide 18: Referencing other pages and URLs

Slide 19: More formatting

Slide 20: Creating new pages

Slide 21: Attachments

Slide 22: Wiki Culture

Slide 23: DocumentMode

Slide 24: ThreadMode

Slide 25: StructuredMode

Slide 26: Other Wiki tricks - Categories

Slide 27: Contributed features

Slide 28: More plugins

Slide 29: Credits and Acknowledgements

Access Keys

What are access keys?

What are the advantages of using access keys?

How do I use access keys?

Administrator Skills Assumptions

Admin tools

All Brain

All Brain

Angular Gyrus

Appendix C: Encode URLs With UTF8

Current Status

Details of Implementation

Testing and Limitation

Appendix A: TWiki Filesystem

Who and What is This Good For?

Directory Structure

File Descriptions

Files in twiki

Files in twiki/bin

Files under twiki/lib

Files under twiki/pub

Files under twiki/data

Files in twiki/templates

TWiki File System Snapshot

Summary of Contents

Detailed Documentation

Package TWiki::Contrib::Attrs

new ($string) => Attrs object ref

get( $key) => value

isEmpty() => boolean

remove($key) => value

toString() => string

Settings

Installation Instructions

Plugin Info

Skull Stripping

Completed Brains Progress Sheet

Brain Stem

Brian

Caudate Nucleus

Cerebellum

Christina

Cingulate Gyrus

Classic Skin

Skin Info

Comment Plugin

Features

Syntax Rules

Positioning the comment

Files in `twiki`

Files in `twiki/bin`

Files under `twiki/lib`

Files under `twiki/pub`

Files under `twiki/data`

Files in `twiki/templates`

Location relative to `%COMMENT` tag

The `PROMPT` template

The `OUTPUT` template