Talk:Biology/Draft

Article re-approval and version record area

Reserved for a log of re-approval events for Biology article and template records

See here for help.

Version 1.1 approval

(Earlier details of V 1.1 commented out for clarity)

Version 1.2 approval

Updated termplate url pointer reflecting Chris Day's/ D Tribe's minor edits David Tribe 01:08, 26 January 2007 (CST) Further updated approval url pointer David Tribe 00:53, 27 January 2007 (CST)

Biology version 1.2 created here in Biology log. David Tribe 01:05, 27 January 2007 (CST)

Version 1.2.1 approval

David Tribe has nominated this version of this article for approval. Other editors may also sign to support approval. The Biology Workgroup is overseeing this approval. Unless this notice is removed, the article will be approved on January 30, 2007.

Further updated url pointer and reinstated "To approve" template to incorporate two minor edits (full stops and blank spaces plus emergency changes to several figures caused by changes in primary file sizes of figures that lack thumbnails).

This update involves no change to the substance of approved version 1.2 and is occurring to ensure a due process is followed for article re-approval. It is noted that person with sysop permissions other than User David Tribe will need to action this revison after the specified deadline has elapsed. David Tribe 14:31, 28 January 2007 (CST)

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Formating conventions

• The reference format style started in Horizontal gene transfer is being currently followed in an attempt at typographical consistency. Boooks are being cited here by the authors' full name and ISBN numbers are being used to minimize needed detail.

• At some later stage we may well use non abbreviated jounal titles for clarity but currently this would expand the size of some articles with many references

• "Quotes", for direct quotes, 'scientific method' for special emphasis.

• Also possible is use of reference method: <ref name=Smith> giving names to citation when first used David Tribe 20:09, 26 January 2007 (CST)

A Style manual for citation from PloS Biology Slightly modified ?

See link for their format [1]

Formating conventions

• The reference format style started in Horizontal gene transfer is being currently followed in an attempt at typographical consistency. Boooks are being cited here by the authors' full name and ISBN numbers are being used to minimize needed detail.

• At some later stage we may well use non abbreviated jounal titles for clarity but currently this would expand the size of some articles with many references

• "Quotes", for direct quotes, 'scientific method' for special emphasis.

• Also possible is use of reference method: <ref name=Smith> giving names to citation when first used David Tribe 20:09, 26 January 2007 (CST)

A Style manual for citation from PloS Biology Slightly modified ?

This is an attempt to create a reference style model for the future based on PLoS

See link for their format [2]

References ... For all references, list the first five authors We should only give one plus et al. if there are more than two); add "et al." if there are additional authors. You can include a DOI number for the full-text article as an alternative to or in addition to traditional volume and page numbers. Please use the following style for the reference list:

Published Papers

1. Anandalakshmi R et al. (1998) A viral suppressor of gene silencing in plants. Proc Natl Acad Sci U S A 95:13079–13084. Open access

Two authors Published Papers

2. Anandalakshmi R, Defffa J (1998) A viral suppressor of gene silencing in plants. Proc Natl Acad Sci U S A 95:13079–13084. Open access

3. Bernstein E et al. (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature 409:363–366. PMID 11201747

Accepted Papers Same as above, but "In press" appears instead of the page numbers. Example: Adv Clin Path. In press.

Electronic Journal Articles 4. Loker WM (1996) "Campesinos" and the crisis of modernization in Latin America. Jour Pol Ecol 3. Available: [3]. Accessed 11 August 2006.

Books

5. Bates B (1992) Bargaining for life: A social history of tuberculosis. Philadelphia: University of Pennsylvania Press. 435 p. or 5. Bates B (1992) Bargaining for life: A social history of tuberculosis. ISBN 12345677

Book Chapters

6. Hansen B (1991) New York City epidemics and history for the public. In: Harden VA Risse GB editors. AIDS and the historian. Bethesda: National Institutes of Health. pp. 21–28.

Reference Style Model in electronic final form?:

[4]

5. Xie Z et al. (2004) Genetic and functional diversification of small RNA pathways in plants. PloS Biol 2:e104 doi: 10.1371/journal.pbio.0020104.

A variant on the above closer to what Gareth Leng suggested to me: 1. Anandalakshmi R et al. (1998) A viral suppressor of gene silencing in plants. Proc Natl Acad Sci U S A 95:13079–13084. Open access CrossedDavid Tribe 20:13, 30 January 2007 (CST)

Revised reference style proposal

As above

Taking raw PubMed text and PLos izing it, and shortening authors.

RAW start Pubmed:

1: Bernstein E, Caudy AA, Hammond SM, Hannon GJ.

Role for a bidentate ribonuclease in the initiation step of RNA interference.

Nature. 2001 Jan 18;409(6818):363-6. PMID: 11201747 [PubMed - indexed for MEDLINE]

The PubMed to PloS briefened conversion with only deletion and date typing and insertion of et al. Probably suited to an automatic software algorithm for Pubmed conversion.

Exhibit A

1. Bernstein E et al. (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature. 409:363-6. PMID 11201747

====Automated PMID===+ But using link to algorithm engin provided by Gareth , that is [5]

{{cite journal |author=Bernstein E, Caudy A, Hammond S, Hannon G |title=Role for a bidentate ribonuclease in the initiation step of RNA interference |journal=Nature |volume=409 |issue=6818 |pages=363-6 |year=2001 |id=PMID 11201747}} {{cite journal |author=Bernstein E ''et al.''|title=Role for a bidentate ribonuclease in the initiation step of RNA interference |journal=Nature |volume=409 |pages=363-6 |year=2001 |id=PMID 11201747}}

Gives: Exhibit B Bernstein E, Caudy A, Hammond S, Hannon G (2001). "Role for a bidentate ribonuclease in the initiation step of RNA interference". Nature 409 (6818): 363-6. PMID 11201747.

Exhibit C Bernstein E et al. (2001). "Role for a bidentate ribonuclease in the initiation step of RNA interference". Nature 409: 363-6. PMID 11201747.

Finally for now I propose 9float the conjecture) that all the three exhibits are acceptable, and that if any one is chosen that it must be used consistently

This proposal is acknowledging (Gareth's?) bolded regions below, which were bolded by David Tribe 20:29, 30 January 2007 (CST)

Couple of comments 1) Most style manuals propose that n'on English words be italicized except when they are incorporated into normal use - thus in vivo but vice versa. Thus it would be et al - but this is something for CZ-wide style to decide. 2) PubMed citations give the page range as 13079-84. 3) Ideally I'd like to see a simple way of importing from PubMed directly into CZ style, that way, as we check we can copy edit too. Please see this [6] - Not perfect but easily edited. I guess using a template like this has the advantage that reference templates can later be changed to implement a future style change en masse? 4) Books are a problem, and there's a case for giving authors names in full I guess.Follow PLos for Style 5) There's a case for putting some journal titles in full in some articles - Sci Am is fine in a scholarly list but for an introductory article perha[ps Scientific American would be better. 6) So think we may need slightly different guidelines depending on the intended readership??

Accepted David Tribe 20:29, 30 January 2007 (CST)

Well done for taking this on. I do think it's important to get this consistent; I don't mind what convention is adopted, but think it's important we have one. Gareth Leng 06:59, 30 January 2007 (CST)

I've previously been following you with bold vol numbers. Ital Journal titles.

Amazingly, the WP MOS has inconsistent references in its own (Physics type ) type style manual!

The advantage of PloS with minimal change is

1. The Style Manual is almost already done. 2. Minimal key work for italics and bold. Needs a few more full stops and commas than Ive been using so far. The less keywork the easier to get followers to follow. Glad to see that a retreat from yor suggest is pragmatically possible.

I'm now going to propose that we follow PLos with some mimimal changes and allow ISBN and PMIDs and doi to enable shorter citations and see what the response is David Tribe 20:03, 30 January 2007 (CST)

We can use all this grinding work Biology as a testing ground and precedent for style and process.David Tribe 20:13, 30 January 2007 (CST)

WARNING

Warnings: alterations to any figures and templates used in the draft page may affect the appearance of Biology approved page

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General commentary, edit context discussions

I'm happy with it but I have to tell you my spelling is an issue and I'm not in a position to bless it from that angle. David Goodman raised an objection in the Forums over having the sperm picture captioned "magnified" without an exact magnification as being a terrible blunder, wrote that he would not have approved the article previously had he noticed it. I myself, do not see it that way as I think it is being used in the context of the homunculus and van Leeuwenhook, and illustrates an important point in the article very nicely - I think the exact magnification is a trivial point. I would certainly agree with him if the article was about sperm cells, however and used the same picture with the same caption as it does here.. I bring this up though for explicit discussion, because I do not wish to ignore his opinion-which I generally respect. Anyway, I approve the new draft. Nancy Sculerati MD 10:38, 24 January 2007 (CST)

I measured and estimated the magnif as close to 150x. Fixed legend. I see differences between you and DG on this as due to different conceptions of what CZ should do. I think your concept actually works well for the lead article in a general area, but DGs conception is important for mmany subsidiary articles and that there is a role for both concepts. David Tribe 15:17, 24 January 2007 (CST)

Pixel counts suggest 125x is more precise David Tribe 22:23, 26 January 2007 (CST)

Thanks for fixing it.Please look down at the next section, read the letter and comment.Nancy Sculerati MD 15:21, 24 January 2007 (CST)

Looks good too me, if you still need a vote. Chris Day (Talk) 01:22, 25 January 2007 (CST)

Article Criticisms from outsider 1/23/07

I recently received an email from someone who had read and reviewed the copy of the Biology article that we posted publically. Could you all please take a look at it here, ideally before re-approving. (note that I didn't write it, he just emailed it to me). --ZachPruckowski 11:51, 24 January 2007 (CST)

Do you have any idea of what the yellow marks mean? I don't.Nancy Sculerati MD 12:24, 24 January 2007 (CST)

They are comments - hover over them with your mouse and they show up. Ian Ramjohn 13:02, 24 January 2007 (CST)

Now that I have read the comments, I must say I liked them better as yellow marks. They are written in the tone of the All-knowing, which is particularly amusing coming from an anonymous commentor. The comments seem to assume that the article has no hyperlinks, and that "being encyclopedic" is something that any of us hold as a positive absolute value. If the person is actually interested in making constructive comments, let them sign up and join in. Nancy Sculerati MD 13:46, 24 January 2007 (CST)

The reader has at least noticed that Nancy has injected emotional engagement and subjective judgement into it. (irony warning). Having been trained to write flat but lucid scientific journal articles I noticed too!. But I value a LOT what Nancy has brought to the table. On the other hand, maybe I can retrieve some valid small revision from the yellow taking care not to obliterate Nancy. Exactly why emphasis is verboten I cannot fathom though. May need to extend Approval deadline a day or too. We may as well do it well. David Tribe 15:35, 24 January 2007 (CST)

PS Just to be sure, what I ment by emotion is esthetic appeal and reader engagement with a sympathetic style. Ive happily accepted from NS several improvments to my unengaging prose. I also take to point that anonymous jusgement are of very low priority, and by devaluing those we elevate those who put their real names on the line. Im thinking to see if buried in that yellow there snippets of value. Ill also do a WORD auto spell check David Tribe 17:53, 24 January 2007 (CST)

Hey, don't kill me over it, I'm just passing along what I was sent by that guy (because he happened to catch me in the IRC channel). I don't care how you take it, I'm just passing it up the line. I don't know if he has any sort of relevant training at all, or how seriously you should take it. That's up to you guys. I didn't even read it through all the way. --ZachPruckowski 15:43, 24 January 2007 (CST)

P.S. no angst felt towards anyone by David Tribe.

I was trying to be funny with "kill me over it". I don't feel angsted upon or whatever :-) --ZachPruckowski 18:10, 24 January 2007 (CST)

Prize Quote from the yellow anonymous commentator

"The start of this paragraph is more appropriate for an essay. An encyclopedic article should not try to communicate with the reader." [sic]

Well well, thats exactly what Nancy's done: an essay on biology as a hyperlinked lead into the huge resources we want to develop, a hypertext preface if you like, and surely that's one of the reasons we liked it? It succeeds in communicating with the reader. Its a good thing that we haven't called Citizendium an encyclopedia, and isnt this comment an encouragement for us to do something other than what this reader suggests? David Tribe 00:16, 25 January 2007 (CST)

To finish with the yellow critique: I have gone through the yellow points and considered every issue. There is little of substance, I tried hard and found one redundant word.

Mostly, the writer has a serious lack of comprehension of the role of good communication, and poor judgement about what Citizendium should hope for. The 17th century biologists who mapped veins can wait for The History of biology. I put in a link to Kary Mullis, and to Cell (biology). Nancy - you can sleep well tonight, feeling thoroughly vindicated. Lets move on David Tribe 01:00, 25 January 2007 (CST)

Sounds good. Again, I didn't really even look at it. I just passed on what had been emailed to me. I certainly hope no one lost sleep over it. --ZachPruckowski 19:56, 25 January 2007 (CST)

Zach, just passing something from an anonymous person without checking it is not nothing. It's a mistake. If an anonymous person contacts you by e-mail in the future please reply with the CZ address and let them register and make their own criticisms directly. That's the whole point of the no anonymous contributions policy: there are no anonymous contributions. And, as this example (which was no big deal, but was somewhat hurtful and was a waste of everybody's time-including yours) nicely illustrates: anonymous contributions are more likely to be of trivial value than attributed statements and criticisms. They are more likely to be mean spirited, and the fact that the knowledge and background of the person making them cannot be evaluated in any way makes them difficult to assess appropriately. Nancy Sculerati MD 20:19, 25 January 2007 (CST)

I would normally not have done it, but we specifically put this article up as a model and to seek commentary. I certainly am fully in favor of the anti-anonymity rule, but we did put this up as outside Citizendium. I apologize if it hurt anyone and I apologize for wasting people's time. -- ZachPruckowski 21:22, 25 January 2007 (CST)

Nancy, are you taking his criticisms personally? I don't think many of the editors comments were that off the wall and he had some interesting ideas as well. I have a hard time thinking that it was a waste of anyone's time. It's always nice to see where others think writing can be improved. -Tom Kelly (Talk) 21:34, 25 January 2007 (CST)

I just read the anons comments and non seemed to be out of order. In fact, they all seemed pretty trivial which in its own right is a complement. Chris Day (Talk) 22:48, 25 January 2007 (CST)

Please update approved article after vetting this change. 1/22/2007

Added link to 'orphan' article "Systems Biology", per Larry's request

Anthony.Sebastian (Talk) 14:07, 23 January 2007 (CST)

Edits since first approval

http://pilot.citizendium.org/wiki?title=Biology/Draft&diff=prev&oldid=100013668

I request to get this edit edited by editors and considered for approval. -Tom Kelly (Talk) 18:43, 4 January 2007 (CST)

Personally, I think people should be able to add little links like this and get them in to the approved article faster. I think this could seriously be a negative to CZ if this small issue isn't addressed. However, CZ does a great job getting scientific 'experts' involved in editing. However, ease of addition is an important concept in wikis. -Tom Kelly (Talk) 18:47, 4 January 2007 (CST)

I concur. I also made a request to fix spelling errors in the approved version (a couple of the errors being rather glaring), but the talk page does not seem to be active, so I am also making this request here as well. --Ted Zellers 22:37, 12 January 2007 (CST)

Suggestions

Talk about Biology, the major, as part of the definition of biology (?) or would that be another article. -Tom Kelly (Talk) 18:43, 4 January 2007 (CST)

Perhaps a redirect to Education in biology? DavidGoodman 02:21, 13 January 2007 (CST)

Minor Edits

Thomas, I don't want to turn you off, but at this point in the CZ pilot, we are not so much into minor edits, and this is why: we have an idea to work on a large number of articles and get them into an "approved" status. It seems that the idea of an approved article in CZ is not the same as a WP feature article. Instead, it's a coherent article that is true and useful. The idea being that a user can access CZ and, reading approved article, feel confident that this is the real deal, so to speak. On a wiki where changes are constant, or at least very frequent, it's a dynamic state where improvements happen quickly, but so do mistakes or language that might not be an outright mistake, but something that confuses the explanation. There are only a few of us working now, and the system for approval is cumbersome. There are so many important topics that need to be totally rewritten that the task of tweaking an article that is in good enough shape to have been approved is not a current priority. Hopefully, when there are more people and a new server, this is not an issue. Biology was the first approved article and its far from perfect, but its basically ok. As far as Biology the major, that would be another article. We will get back to incorporating your, and other, suggestions from the draft into the next edition of the approved biology, but realistically, revised editions of approved articles are not going to be daily or weekly or, at this early stage, even monthly. The draft, on the other hand, is open to continual updates. That's how I see it, anyway. Nancy Sculerati MD 21:53, 12 January 2007 (CST)

P.S. I acually don't agree with the definitions of microbiology that seem to be the edits in question. Sorry. Nancy Sculerati MD 22:09, 12 January 2007 (CST)

am I understanding this correctly? You disagree that medical microbiology includes the study of bacteria, viruses, fungi, and the immune response to them?? -Tom Kelly (Talk) 22:15, 12 January 2007 (CST)

forgot parasites. -Tom Kelly (Talk) 19:50, 13 January 2007 (CST)

I have replied to this in the biology forum as follows:

'I think this is exactly wrong. We are trying to produce a well-edited version, one that will be obviously well-edited. This means accuracy, bt it also means copyediting. There is nothing that gives the appearance of amateurism faster than inconsistence and error in style, punctuation, and detail. (well, spelling mistakes are even worse, but I think the article has been checked for this.)' To say, 'let's do a haphazard job, and hope people will make corrections,' is one of the factors that has done in the reputation of Wkipedia DavidGoodman 02:42, 13 January 2007 (CST) (heading interruption to comment)

micrographs

The micrograph of sperm cells does not have a scale or a magnification factor. I apologize for not having noticed it before. This one I consider a major error. DavidGoodman 02:42, 13 January 2007 (CST)

Ive calculated magnif as 150x and added the texct to the legend David Tribe 21:57, 23 January 2007 (CST) Better 125x David Tribe 22:25, 26 January 2007 (CST)

Microbiology

Microbiology is not listed in Biology today a survey of the science of life section of this article http://pilot.citizendium.org/wiki/Biology/Draft#Biology_today.2C_a_survey_of_the_science_of_life

I listed it in the draft page because I think microbiology is a major subfield of biology. In studying microbiology, one usually studies bacteriology, virology, parasitology, mycology, and then in doing so you learn about virulence factors, host response, immunology, inflammation, pathology, etc.

I knew immunology would probably be controversial to have listed in such a short segment, although I think hematology and immunology and clinical immunology are fascinating aspects of Life, and the science of life and they deserve recognition somewhere.

I did not foresee virology being controversial but not understand the argument is "are viruses alive?" I'd rather not get in to that argument and just list them as "a major part of life," but that is just me. I do not foresee anyone solving the question if virology should be listed as a biological science in the near future and would vote on just removing it from the list, but then linking it somewhere else in the article (!!!!).

I don't like the format of my edit and was looking for advice - that's why I've been trying to get editors attention.

I don't like the wording exactly either - I think subgroup sounds funny - but again, I was just putting this out there as a criticism to the incompleteness of the list and trying to add some things to maybe improve it. It's just a minor edit but I think mainly, getting microbiology on the list is essential and getting some more sub-specialties in biology listed is also essential. -Tom Kelly (Talk) 00:17, 15 January 2007 (CST)

Forum post on minor edits to approved articles

http://forum.citizendium.org/index.php/topic,421.msg3264.html#msg3264

haematology , hematology

I'd like to see hematology added to the list. thoughts?? -Tom Kelly (Talk) 22:01, 16 January 2007 (CST)

How do I edit the box at the bottom of the article? -Tom Kelly (Talk) 21:48, 17 January 2007 (CST)

It's a template. Apparently, it's Template:Biology-footer. Go to that page, click edit, and go to town. Note that you may need to re-edit this draft page to make the display on the page change. --ZachPruckowski 21:57, 17 January 2007 (CST)

I'm tending towards Hematology being a Health Science topic and maybe its covered by the Links at the top? David Tribe 19:13, 24 January 2007 (CST)

ok -Tom Kelly (Talk) 19:21, 24 January 2007 (CST)

I guess, does it take away from the article being there? -Tom Kelly (Talk) 19:22, 24 January 2007 (CST)

David, I don't disagree (aka agree) with the removal of heme from this general topic article and understand it fits in a different niche, however, I would argue (as a fun way of joking :)) that pathogy is not a word - i believe you meant pathology, and if so, Heme is a lot more than just a specialty of pathology-Tom Kelly (Talk) 22:09, 24 January 2007 (CST)

lol, i mis-spelled the description of my joke!! pathogeny, haha -Tom Kelly (Talk) 22:12, 24 January 2007 (CST)

Gee. I was interupted by students for an hour mid edit and now my typing clumsyness is there for all to see Grrrr.Have to go hom,e now and continue work there.David Tribe 22:30, 24 January 2007 (CST)

Just suggest minimising redlinks - especially overt links to articles that don't exist...Gareth Leng 04:26, 25 January 2007 (CST)

I think red links are fine. Larry thinks blank pages will encourage people to write more anyway - he might be right. -Tom Kelly (Talk) 21:36, 25 January 2007 (CST)

Consider for approval added paragraph at end of section "The Continuing Story"

I added paragraph at end of section "The Continuing Story" designed to expand the thoughts in the preceding paragraph.

I think that it is not an improvement, too technical, writing needs a lot of work. Nancy Sculerati MD 16:06, 25 January 2007 (CST)

I tried to merge it into to what was already there. See what you think. Chris Day (Talk) 16:14, 25 January 2007 (CST)

I played with it some, and I think it has potential. It needs polishing, and a great last line.Nancy Sculerati MD 16:52, 25 January 2007 (CST)

Version 1.2possibly near?

Also narrowing the red link categories in History of biology, as Gareth proposes, has the added advantage of focussing effort by others on the more general History of biology, field first,ahead of any History subfields, and I propose that's good strategy.

I support the more polished mention of systems biology and an editor such as Nancy slapping another Approval Template to generate version V1.2. I can efficiently handle the final approval of an existing approved article mechanics. I've had practice now 17:15, David Tribe 17:17, 25 January 2007 (CST)

David, I've done the best I can. Could you take over now, please? Thank you, Nancy Sculerati MD 18:15, 25 January 2007 (CST)

I just made some more edits to help the flow. See what you think. Chris Day (Talk) 23:08, 25 January 2007 (CST)

seem good to me, Ill scoop them into V 1.2 David Tribe 01:04, 26 January 2007 (CST)

Looking at the comments of the anonymous reviewer, I think they deserve consideration. I've adjusted the Einstein mention. The sentence below caught my eye as needing redrafting as it's a bit clumsy but my brain's not working fast enough to redraft it... "The development of biology has drawn on many more topics, and a much larger geographical area than referred to here, but the science of biology has had a continuous thread through the centuries that began with the ancient Greek philosophers, and has generally followed the winding pattern of advancement presented here."Gareth Leng 08:26, 26 January 2007 (CST)

Just how did we let that through? Ill look at when my brain is alive too David Tribe 09:03, 26 January 2007 (CST)

Had a go, perhaps not good, and made some adjustments in note of the comments of Zachs reiewer. This sentence I've also cut: "That amorphous material that Harvey could not fathom as the progenitor of organs might have seemed to him to be of a wholly different nature had he the advantage of magnification." I thought it was hard to digest and did not really add anything. Please revert anything I've done without hesitation if you disagree.Gareth Leng 09:08, 26 January 2007 (CST)

I'd like to sign off as an editor/author here. I have read and changed this article so many times I think I have developed an allergy to it! Please continue without me. Nancy Sculerati MD 09:14, 26 January 2007 (CST)

I havnt been exposed to the heavy dose that Nancy's taken on so heroically, and can tolerate more.

"Greek philosophers, and since then has advanced over the centuries in a winding pattern to embrace a multitude of topics."

? through different avenues, maybe. Hmmm.

I think youve captured some extra value in several places Gareth. David Tribe 09:34, 26 January 2007 (CST)

Montage updated to individual pictures

I just discovered that the sizing option for pictures is now functional. i changed the montage to make it individual pictures that are now clickable. I will write a blurb for each picture in the future. This montage is different to the other one. It is very easy to switch pictures in and out, so other, better, pictures can be used. We can have fewer pictures too. See here for more options. Chris Day (Talk) 11:04, 26 January 2007 (CST)

I just checked the montage on a different computer (sun with firefox browser). In that environment there are inconsitent white gaps between some of the individual pictures, whereas on my MAC running safari they are all tightly aligned. What do other people see? It might be impossible to do this montage in a way that is good for all browsers. although I hope not since I think the clickable picture feature is useful. Chris Day (Talk) 13:34, 26 January 2007 (CST)

YES with Firefox on Windows XP I see gaps. Well have to revert to premontage. But worse, They are fixed now on approved, but changing primary images ruins the approved version (of the other figures ). I used my Sysop status to do emergency repairs so DO NOT please change them back Chris David Tribe 22:31, 26 January 2007 (CST)

Update: after a discussion with Zach on my talk page i think this montage should be one jpg. We can make it clickable in the future using ImageMap technology. For a cool example of ImageMap in action see here. http://www.chekmate.org/wiki/index.php/MW:_ImageMap_Extension#Samples This would also be a very powerful tool for metabolic diagrams and such. Or imagine a picture of a cell where you can click on the different organelles. The potential seems huge. For now, let's go with the jpg in combination with a link to a gallery. Then we don't have to worry about the compatability issues as browsers get updated in the future. Chris Day (Talk) 13:01, 30 January 2007 (CST)

Revision status

I just noted something in the history of theis draft that may have been there for a long time. There is a classification for revision status written as follows; Revision status: N=normal A=approved. To the left of each saved version is a N. This will be a great feature for quickly identifying the last approved version for comaprsion with the most recent draft. However, scrolling through all the version I do not see any with an A, and by my calculation there should be at least two. What is the procedure for getting a version tagged with the A when the sysop finally cut and pastes a draft version to the main article? Chris Day (Talk) 12:55, 26 January 2007 (CST)

Yes indeed, I noticed that too. See the non draft version Biology though - *its history log*. I suggest that we keep links to the souce files in the talk section there. The history log there automatically accumulated A notation so it is natural to exploit that. Also is used space effectively. i.e.use the TOP page (non draft extension) for logging identity of approved A files and the draft for editing progress of revision. What do you think Chris D? David Tribe 20:13, 26 January 2007 (CST

Sorry to be slow getting back to this David. I guess my major concern here is to be able to compare the most recent draft with the last approved version, taking advantage of the comparison technology available here, i.e. the Compare selected versions option at the top of the draft history page. It would be great to be able to scroll down the page and select the radio button for the version that was copied over to the approved article page. If there was an A to distinguish that version it would make it a lot easier.

I see the A you are talking about in the biology article history, but aren't all these versions approved? I thought that was the point of the separating out the draft version. I understand that you made a few copy edits but nothing that would overide any approved version.

What I am trying to propose, and I'm not sure this has come across, it that what ever Larry did on that edit in the biology article history to make it an A instead of a N needs to be done each time a version from the draft page is approved. Does this make sense? I might start a seperate thread on this in the forum since it is a more general point than somethinjg specific to the biology or biology/draft articles. Chris Day (Talk) 17:28, 28 January 2007 (CST)

I dont know all the answers here Chris. Ill have to think and study about it but I need to go now. It would indeed be useful to air it on the forum. The appearance of the A seems to be by some high sysop permission and tool Larry and others have, possibley similar to standard disclaimer removal, but I'm guessing. We need to understand it better to be able to use it.David Tribe 18:24, 28 January 2007 (CST)

David, I'll take this to the forums and phrase it in the context of a more general issue. Chris Day (Talk) 02:46, 29 January 2007 (CST)

Forum thread can be found here: http://forum.citizendium.org/index.php/topic,499.0.html Chris Day (Talk) 12:41, 30 January 2007 (CST)

Stubs for red links

I've been looking at this article as a sort of map for the Biology workgroup, I would like to generate some reasonable stub forms of articles for major subfields in biology that are "red". I hope these can be seeds for us to all make grow. I know that Health science is a CZ Live article, and I keep failing at piping the link. Could you please fix it? Thanks, Nancy Nancy Sculerati MD 21:14, 26 January 2007 (CST)

I have reverted the edit by Gareth referred to. Please let me know is I have done it badly. It enabled me to see the AntoniE that need fixing too David Tribe 22:22, 26 January 2007 (CST)

Ive had that trouble before . I eventually found that the software is kind about the initiasl cap but cant understand internal caps eg Health Sciences vs Health sciences. Gosh itsa stuupid. Doesnt like singular either. We need to create a few redirect pages too. David Tribe 21:36, 26 January 2007 (CST) All authors and editors who take initiatives on figs and tables READ WARNING at top! David Tribe 21:37, 26 January 2007 (CST)

Another minor point: The point about Harvey and the microscope was that his failure to grasp that the early contents of the fertile womb were continuous with the macroscopic contents was the technology- the lack of a microscope. That's why that line you took out was there. I think you should re-write it and put it back. It was a link in the theme. Nancy Sculerati MD 21:52, 26 January 2007 (CST)

deletion reverted David Tribe 22:27, 26 January 2007 (CST)

Restoring NS text, Gareth, with sentance break in bold:

This article explores just a few selected themes; those themes center on the origin of life (both 'life on earth' and the creation of a new infant) and are followed through the centuries from ancient Greece to the present day. It is apparent that a philosophy of critical thinking, investigative methods that rely on empirical evidence, and the availability of technological tools have, together, accounted for how these ideas have changed. The development of biology has drawn on many more topics, and a much larger geographical area than referred to here. But the science of biology has a continuous thread through the centuries that began with the ancient Greek philosophers, and has generally followed the winding pattern of advancement presented here.

Im starting to know how you feel Nancy. David Tribe 23:01, 26 January 2007 (CST) Still need to revert early montage David Tribe 23:03, 26 January 2007 (CST)

That whole bit about the "This article explores just a few selected themes..." was a reply to several criticisms bemoaning the fact that ALL of biology was not covered through ALL time and the entire world. I finally decided to sort of define my domain explicitly, in a sort of mathematics sense, to shut them up (I do mean that with affection, believe it or not) as it was getting ridiculous. Do with it what you want.Nancy Sculerati MD 23:07, 26 January 2007 (CST) But it might be better: This article explores just a few selected themes; those themes center on the origin of life (both 'life on earth' and the creation of a new infant) and are followed through the centuries from ancient Greece to the present day. It is apparent that a philosophy of critical thinking, investigative methods that rely on empirical evidence, and the availability of technological tools have, together, accounted for how these ideas have changed. The development of biology has drawn on many more topics, and a much larger geographical area than referred to in this article. However, the science of biology has had a continuous thread through the centuries that began with the ancient Greek philosophers, and has generally followed the winding pattern of advancement presented here. OH NO_I'm breaking out in a rash....gotta go! Nancy Sculerati MD 23:39, 26 January 2007 (CST)

Version 1.2 actioned

Now I'm breaking out in a rash.;0)

I've just actioned creation of version 1.2, before coming here to discover more commentary to address. I believe I have reversed two changes made by Gareth if I recall correctly to very close to the previous original, but with some smal genuflection to the point of the criicism.

I think we've gotta all call a halt to Biology revision for a while, with the possible exception of a better montage, which I regard as a non-contentious minor change where Chris' valiant efforts have been already vetted but still are a risk due to browser variation generating ugliness.

Let's get on with other stuff. I learn't one new fact: Imam is the standard spelling of the Islamic leader. Plus I learn't a lot about how ethical processes and having an editorial 'leader' working constructively with real name colleagues is very important David Tribe 01:19, 27 January 2007 (CST)

Actually, you learned about Imam in Novemeber ;) , not sure how Iman got back in though. Chris Day (Talk) 01:16, 29 January 2007 (CST)

For the future or for subpages

• The mystery of consiousness S Pinker David Tribe 21:58, 27 January 2007 (CST)

Anthony.Sebastian (Talk) 22:09, 29 January 2007 (CST):

David: Regarding the "mystery of consciousness": An interest of mine for decades, starting when I read: Jaynes J. (1976) The Origin of Consciousness in the Breakdown of the Bicameral Mind. Boston: Houghton Mifflin Co. I have in hand advanced drafts of three papers I plan to submit to the Journal of Consciousness Studies, someday, of course, Multiverse willing. I’ve had several posters accepted for the biennial Tucson conference "Toward a Science of Consciousness", the abstracts of two of which you can find at http://groups.msn.com/Anthony-Sebastian/. If interested, click there on 'documents' and look for files entitled:

• Consciousness Made ‘Easy’ - The Perspective of a Lay Enthusiast.rtf
• Defining 'Experience' As Prerequisite To Explaining 'Conscious Experience' [post conference revision].rtf

I’d love to start a draft on 'conscious experience' for CZ, but I’d have to give up my academic life first. I know the players in the (controversial) field fairly well, but I can’t think of anyone who would qualify as 'non-POV'. Will give further thought to whom we might try to recruit.

You have thoughts? --Anthony.Sebastian (Talk) 22:09, 29 January 2007 (CST)

microscope

according to my knowledge it was anthonie van leeuwenhoek who invented a microscope, or better was able to use a tiny lens to use AS a microscope. The first time thtat ever happened. That is why that fact made him to the Dutch (yes I am Dutch :) ) the inventor of the microscope. Others specifically in the UK and of the Royal Society invited him to show his invention. Like microsoft nowadays it was soon copied and improved. Robert Tito 23:42, 29 January 2007 (CST)

My memory for the details fails me (like so much I once counted on!) - and so I will have to look it up. No, he was not, as per established sources (which I will find -give me a moment!)[or two]) the "inventor", what was called a microscope was around and used in the textile trade to examine cloth. He made some kind of revolutionary improvement to it- and used it to look at, more or less, everything. In November (I think) I worked on his biography as a CZ Live article. It's in there-along with the references. By the way- he was much more impressive than simply an inventor of one thing, I think he's been "dwindled" by happenstance and history from the status he should have- meaning, I became a fan. Nancy Sculerati MD 05:59, 30 January 2007 (CST)

Agree with Nancy here, he did not invent the microscope but improved it to a point such that it had a huge impact on biology. Robert Hooke was using microscopes to look at cells, although dead, before Anthonie van Leeuwenhoek but his magnification was only about 30 times. Leeuwenhoek made microscopes that could magnify up to 300 times and was the first to see living cells. Chris Day (Talk) 12:33, 30 January 2007 (CST)

Leeuwenhoek did not invent the microscope as such yet he was the first to use it as a science instrument, to study living organisms. His lenses did magnify up to 500 times. It took until 1800 for multi lens microscope could match that magnification. So inventor of the scientific microscope heis. Lenses in general were present - but not perfect for scientific purposes. Robert Tito 13:13, 30 January 2007 (CST)

Certainly you could credit him with the discovery of the first effective scientific microscope. It all depends on how you define scientific; ~30X or ~300X. Maybe scientific is casually defined as the first instrument capable of seeing living organisms. But is that even true? Much of this comes down to what van Leeuwenhoek chose to look at as much as how good his intsrtument was. I'm not trying to take anything away from van Leeuwenhoek his work speaks for itself and he was a true giant in biology. The living organisms in combination with sublime optics is the key here. Chris Day (Talk) 13:26, 30 January 2007 (CST)

Two column refs

David , i like the two column refs. Interestingly i can't see it using MAC with mozilla or safari. Chris Day (Talk) 12:53, 30 January 2007 (CST)

Might be a CSS issue on the Mediawiki end. I have the same problem. -- ZachPruckowski 13:16, 30 January 2007 (CST)