# Help:Wiki questions

< Help

## Biblio & Show / Hide

### Question

Hi, I would like to know if it is possible to do the following. I think it's a really useful way of displaying a bibliography:

```<showhide>2002-2007 Publications__HIDER__
<hide>
<biblio>
#[[Streptomyces:PublicationsKelemen]]
</biblio>
</hide>
</showhide>
```

I can get the biblio tags to work fine & display the list on Streptomyces:PublicationsKelemen page, just not in a useful show/hide display. I thought this would be good to show publications in 5 year groups that a reader could show/hide rather than one great long list. If someone knows a way around this, i would be grateful for some help. Thanks, Jim @ Streptomyces 11:59, 13 March 2007 (GMT)

• Reshma 09:11, 13 March 2007 (EDT): Just tried playing around with this at the Sandbox and couldn't make it work either. I think the extension itself might have to be changed to accommodate what you want to do. You could try leaving a note on Martin Jambon's talk page. He might be able to help since he wrote the Biblio extension. (Though the problem could be with the show/hide extension.)

### Thanks

Thanks for your suggestion Reshma, I left a message on Martin Jambon's talk page. He's not sure about it, but said he'll contact someone about the show/hide code. Jim @ Streptomyces 06:36, 16 March 2007 (EDT)

• Austin Che 14:38, 18 March 2007 (EDT): I'm deprecating the showhide extension so don't use it any more. There are much too many problems with it and it's unnecessary. I've rewritten something that is completely editable via the wiki and is much better in every way. See OpenWetWare:Toggle for more details. Your example code above can be changed to:
```2002-2007 Publications

{{hide|
<biblio>
#[[Streptomyces:PublicationsKelemenList]]
</biblio>
}}
```

Streptomyces 07:07, 20 March 2007 (EDT) Great / brilliant. Thanks :-)

## Openness of openwetware

### Question

• Thanks for help with my last question. I am now curious about where I can go to download the openwetware software or the database dumps. Is this currently possible? PaulGrayson 02:16, 30 January 2007 (EST)

OWW is running the stock Mediawiki software with several extensions. We have recently started making the daily dumps of all revisions of all OWW pages available in XML format here. --Ilya 03:43, 30 January 2007 (EST)

### Thanks

Thanks for the link. I'm thinking that any lab seriously using openwetware will want to maintain a complete local backup of their contributions, so how about a way to download all of the uploaded files as well? Eventually it might be important for you to make it possible for a lab to get a complete backup of its files with a single click. PaulGrayson 16:25, 6 February 2007 (EST)

## Very small edit window

### Question

• Hello, I just joined the site and edited my first page. But the edit form is so small! It's only 3 lines high. By contrast, Wikipedia gives me a 30-line high form. Was this a conscious decision, or is the problem unique to my computer? I don't think it is because of a small window - there is a ton of white space (actually, blue space) below the form. PaulGrayson 00:50, 30 January 2007 (EST)

• You can change it by going to 'my preferences' in the top right of the screen. Select 'Editing', then change the number of rows.-Jkm
• That said, I'm not sure why that happens, but it depends on who created your account (or, more likely, on how they did it). When I create an account at Special:Userlogin&type=signup, it gives 25 rows. A number of people (BioControl folks) have had the same problem - but I'm not sure who created their accounts (not me).-Jkm
• Thanks Josh for noticing this. There was a bug in the user system that I've patched so new accounts should not have this problem. I've also updated most existing accounts that may have been affected by this with a more reasonable window size. --Austin Che 14:32, 7 February 2007 (EST)

## Wiki mystery #1

### Question from skoch3

I noticed that when I created a lab notebook per the instructions, I have convenient links automatically at the top of the page (to go back to main notebook). I suspect this may be do to the "calendar" extensions, but it's sort of magic to me. Is there some way to do this for otherpages with the forward slash heirarchy?--Skoch3 01:36, 20 January 2007 (EST)

### Follow-on

• Skoch3 22:03, 20 January 2007 (EST): Thanks for the help, Reshma -- I had thought this may be true. My specific page I am thinking of is: PHYC500/2007:Discussions/Steve_Koch_talk. I do see the backlinks on your page, but not on this one. I wonder if it's because of (a) the 2007:Discussions part of the link or (b) the template I am using (the normal course template)? Thanks if you have more hints!

• Reshma 11:25, 21 January 2007 (EST): Hey, Steve. OK with a little bit of playing around, I figured it out. It was because the page PHYC500 did not exist that you weren't getting any backlinks. I've created PHYC500 and made it a redirect to PHYC500/2007 and so it looks like the backlinks are all showing up now. Sorry about the trouble.

### Thank you!

• Skoch3 16:14, 21 January 2007 (EST): Thanks for fixing that! It would have taken me quite a while to figure that out, but hopefully I'll remember for the next time. Thanks for doing the research! I'll see if I can find a place to add a tip under the "courses" instructions.

## Wiki mystery #2

### Question from skoch3

Some pages I use (such as the user talk pages) have a "+" button that is convenient. For example, I would like to use that button in my lab notebook. Is there some way of adding that button to other pages? This again is a mystery to me. Thanks!--Skoch3 01:36, 20 January 2007 (EST) PS: Am I supposed to delete questions when I they've been answered or leave them for others to learn???

## Etiquette for disk usage?

### Question by skoch3

I'm new to OWW and to wikis in general. I'm curious whether there are limits on individual file sizes or total disk usage by a user / group? My current question is related to seminar slides and movies for the course I am adding to OWW. Not sure how soon I will hear back (and am wary of bugging you all too much on email!) so I will go ahead and try it now at a cost of about 40 MB. But definitely would like to know the etiquette for the future!--Skoch3 00:21, 19 January 2007 (EST)

There's no official policy on large file uploads although we have tried to not have limits on file sizes. However, OWW shouldn't be treated as a file storage area. For large movies, putting them on another service like Google Video and embedding it or linking from OWW works fine (kind of like the video on the front page of OWW). --Austin Che 10:09, 19 January 2007 (EST)

### Thanks!

--Skoch3 13:15, 19 January 2007 (EST)

## dewikifying problem

### Question by halayc

I am trying to dewikify this page:http://www.openwetware.org/wiki/Richard_Lab . I followed the subfiles naming convention, and created the page Dewikify:Richard_Lab , and added " !BODY! in the content. The problem is that I still don't automatically get the dewikified version when I go to http://www.Richard_Lab.openwetware.org. Any suggestions? Please email me back at halayc @ gmail.com .

--Sri Kosuri (talk) 21:17, 22 October 2006 (CDT)

### Case issue with dewikify

I am having the same problem. The wikified page is located at http://www.openwetware.org/wiki/BDRD, and I created a Dewikify:BDRD page (not sure if that step is necessary if I just want to use the default). http://bdrd.openwetware.org does not send me to an automatically dewikified version of BDRD. Instead it sends me to the openwetware homepage. --Stewarta 16:53, 18 December 2006 (EST)

• Reshma 17:20, 18 December 2006 (EST): I think the problem with BDRD is a case problem. The dewikify extension is looking for a page named Bdrd rather than BDRD. I believe that this can be fixed manually on the OpenWetWare server side, but I don't have access. Either Austin Che or Ilya Sytchev will be able to fix this for you. If you give it a day, I think they will get to it. Sorry for the trouble!
• Jasonk 18:25, 18 December 2006 (EST): OK, I added a redirect from Bdrd to BDRD and that looks to have fixed it: http://bdrd.openwetware.org. (not sure if this is the best long term solution (have to see what austin/ilya say), but should work for now.
• Andrew Stewart 09:42, 19 December 2006 (EST): Ya know, it had occurred to me that that might be the problem. Redirect should work just fine, I would think. Thanks.
• Andrew Stewart 10:01, 19 December 2006 (EST): Perhaps I spoke too soon. I've changed the content of BDRD since the redirect from Bdrd to BDRD was created, however the page generated from http://bdrd.openwetware.org still shows the same content that existed on that page at the time the redirect was created. I wonder if the redirect is somehow preventing the dewikify script from updating its knowledge of the contents on BDRD?
• Jasonk 15:28, 19 December 2006 (EST): OK, should be updated now. The problem is that the dewikify script updates the dewikfied page once a day, currently. You can read about it here: Dewikify#Cache - but you can force it to update immediately by visiting the link http://bdrd.openwetware.org/x. If you think it would be better to have it update after every change rather than once a day contact Austin Che - looks like he was soliciting feedback about this based on the Dewikify page.

#### Similar dewikify question

I am having a similar dewikifying problem as the above user. I am trying to dewikify this page:http://www.openwetware.org/wiki/Wei_He. I followed the subfiles naming convention, and created the page Dewikify:Wei_He , and added " !BODY! in the content. The problem is that I still don't automatically get the dewikified version. Could anyone help? Thanks a lot! (Wei 10/4/2007)

Thanks a lot for your help! It was an accident that we edited the openwetware:getting started paper. I'm still trying to learn how to use wiki. Again, I truly appreciated your help!

#### dewikify question

similar problem: I dont get dewikified version of http://openwetware.org/wiki/Li_Lab.

#### dewikify question again

Thanks Austin, can I dewikify http://openwetware.org/wiki/Li_Lab to http://lilab.openwetware.org/ or http://li_lab.openwetware.org/, thanks a million. -Wei

## Calendar

### Question

Does anyone know how to cycle repetitive codes without the use for copying and pasting for every day of the calendar? please email me back rjs397@psu.edu

## LaTex to Wiki

### Question

Diacritical marks and special symbols/characters: how is a hacek/caron symbol created? In LaTex, such a symbol over a lowercase "s" would be Bene\v{s}.

Sri Kosuri 17:01, 4 April 2006 (EDT): Here are two resources you can look at

1. Mediawiki markup - You can directly encode characters using mediawiki's markup language.
2. If you need to do math equations, you can directly use LaTex format using the math markup. For example, see this page

Hope this helps... if it didn't, update it here, and I'm sure there will be other ways to solve the problem.

• One option is to cut and paste from a caron/hacek Wiki page. However, the result depends upon the character size in a browser: Beneš

### Question

• Pdextras 13:05, 24 March 2006 (EST): Does anyone know if it's possible to restrict access to a document to specific users?

• RS 14:12, 24 March 2006 (EST): Sorry but we don't have a way of doing this on OpenWetWare. You can put the document in your own public directory and restrict access to it using htaccess and just link to it from OpenWetWare if you like. You can read more about the debate over whether to permit restricting access to certain pages on OWW at the ideas archive.

### Question

• RS 13:10, 19 March 2006 (EST): I tried several times to upload this pdf to OpenWetWare but every time it gave me the following error message "The file you uploaded seems to be empty. This might be due to a typo in the file name. Please check whether you really want to upload this file." I've tried resaving the file using Adobe Acrobat and Preview as well as remaking the file by printing to pdf from Microsoft Powerpoint but nothing works. I was able to successfully upload another pdf file just fine. A quick google search reveals that you can get this message if you are approaching the maximum file size or the maximum http request size (see Mediawiki on uploading file). (My file size is 2 MB.) Anyone have a good solution to this?
• Jasonk 16:38, 25 March 2006 (EST):Getting the same problem with a 3MB powerpoint file.
• BC 14:10, 25 April 2006 (EDT):Same problem, 2MB image.

• Sri Kosuri 17:05, 19 March 2006 (EST): I believe we set the upload limit to 10MB. For example, see this PDF. I don't know about the maximum http request size. Maybe something broke on one of our upgrades? Anyone else have a clue?
• Ilya 13:28, 28 April 2006 (EDT): This was caused by a change of server configuration after upgrade to PHP5. I'm working with Biosupport to resolve this.
• Ilya 14:51, 1 May 2006 (EDT): I have implemented a workaround to increase the file size limit. It is now set to 20MB but you'll receive a warning if you upload something larger than 10MB.

### Question

• Nikolai.windbichler 05:05, 10 March 2006 (EST): I have this small problem: On this site I want the image to link to the .doc file which can be found when clicking on the link above the image. How would I do that? I searched a little bit through oww and wiki help sites but couldn't get ot done. If you have any ideas please let me know.

• RS 09:22, 10 March 2006 (EST): Have you tried looking at the code for the Main Page? The icons under the OWW logo do something similar. It looks something like this {{Click || image=MainPage LookChange.jpg | link=Highlights:Considering_a_new_look | width=50px | height=50px }}. By replacing the link= field with your link, I assume you would get what you want. Hope this helps.
• Nikolai.windbichler 17:25, 10 March 2006 (EST): Thank you. It is very close to what I want but now not the whole area of the image links to the file but only the left half of it. I'm not sure why that is tough. Well 50% is not bad when you start at 0. ;)
• BC 19:48, 3 April 2006 (EDT):Sorry this is so late, but you should be able to fix this by reading the discussion on this page - Template talk:Click. If you have any problems getting this fix to work, let me know.

## Printable Subsections

• smd 12:58, 26 April 2006 (EDT):

### Question

• Anyone know of an extension/patch that has been written to display a printable version of a subsection of a wiki page? It would be great for printing protocols or other partial documents if (for example) next to the  link there was a [printable] link, which took you to a URL that looked something like:
```http://openwetware.org/index.php?Help:Wiki_questions&printable=yes&section=5
```

If anyone has interest in this, I could possibly just write it myself, but I'm a little busy these days. I thought I'd check here first. Thanks.

## Deleting pages

### Question

• <font=red>If I want to delete a website, how can I do that?

Thanks!

• Austin Che 07:34, 27 April 2007 (EDT): Include {{deleteme}} on the page and an admin will delete the page eventually.

## Loss of session data

### Question

• I receive the following message upon trying to edit any page (including this one): "Sorry! We could not process your edit due to a loss of session data. Because this wiki has raw HTML enabled, the preview is hidden as a precaution against JavaScript attacks.If this is a legitimate edit attempt, please try again. If it still doesn't work, try logging out and logging back in."

Logging out and logging back in doesn't help. On my publications page, the error actually prevents me from editing at all. Help! Thanks --Drummond 12:12, 19 June 2007 (EDT)

• Austin Che 13:51, 19 June 2007 (EDT): The warning message is harmless. That's a side effect of it trying to preview for you. Go into your preferences->editing and uncheck "Show preview on first edit". That should get rid of the warning message. I'm not sure why you can't edit your publications page. It seems to work for me.
• Reshma 14:00, 19 June 2007 (EDT): Also, if you just click the button again, it should work.
• Ilya 14:03, 19 June 2007 (EDT): I sometimes receive this error message when my session times out while I edit a page in one Firefox tab, then open a new tab, log back in from there and try to save the page in the first tab. If logging out and back in doesn't help, simply refresh your browser session. In Firefox 2 you can go to Tools -> Clear Private Data, select Cookies and Authenticated Sessions, then click Clear Private Data Now. Then after you log in again, everything should be back to normal.

Drummond 14:53, 19 June 2007 (EDT): Thanks. The first suggestion seemed to do it; the last suggestion didn't seem to affect the problem. I'm now happily editing, error-free.

## Biblio comment disruption

### Question

I learned how to add comments to a biblio entry (see here). On one of my pages, adding a comment disrupts the rest of the biblio entries. Are we running the latest biblio?

• Reshma 10:21, 5 October 2007 (EDT): It appears that we're not running the latest version of Biblio ... we're running 0.7 and the latest is 0.8. I am not sure if this is why your comment is not working. Sorry about that. I'll mention is to Bill. And sorry that it took so long to get a response.

## Setting up lab page: how to link to template?

### Question

I followed the instructions for setting up a new lab page Help:Starting_a_lab_wiki and got to the point where the actual lab page is supposed to be linked to the new template:

Quote:

1. First, go to the generic lab wiki page (open it in a new browser window if you want to keep reading this text).
2. Click Image:EditButton.jpg and copy all the wiki markup on that page.

However, this step brings me back to the generic TEMPLATE template, not the lab template. So there is no working description how to use the Template for a lab page. PS: the template is Templates:PrbbBB

I'm getting errors trying to render even very simple math equations: "Failed to parse (Missing texvc executable; please see math/README to configure.): n_i(t)" Should replicate here: ${\displaystyle n_{i}(t)}$
I can correctly render anything that has previously been rendered on the site, such as ${\displaystyle n_{i}}$, suggesting that caching is at work; novel math expressions fail to parse and render. See, e.g., Drummond:PopGen. Help! Thanks -- DAD 21:25, 4 July 2008 (UTC):