Michael Kuhn › Likes

Pawel Szczesny
Missed my stop on the way to work while browsing some interesting FF threads.
I would do this on a regular basis if FF worked on my cell phone. Fortunately it is slow and cumbersome. I've lost count of the number of times I've done the same thing with a book or printed pdf of a research paper. - Bill Hooker
Roderic Page
Slides from my talk @vbrant "Why aren't we there yet?" http://www.slideshare.net/rdmpage... #scriptlife
Did you mention that the TaxonId box is on >400 Wikipedia articles, despite opposition by one user? - Michael Kuhn
Richard Akerman
my oldest blog turns 10 this year, in May
Martin Fenner
RT @zotero: Zotero Standalone Alpha with support for Chrome and Safari now available! Part of #ZoteroEverywhere http://www.zotero.org/support...
Space Invaders: Why you should never, ever use two spaces after a period - http://www.slate.com/id...
(Tooshay) - Noel O'Boyle
Michael Nielsen
What are the Windows A: and B: drives used for? - http://superuser.com/questio...
Awesome. - Michael Nielsen
feel old... feel very old! - fred de masi
"So now you know what that Save icon represents." :-D Time for a new metaphor? - Mr. Gunn
My thoughts, too, Mr. Gunn. Only, I noticed for the first time that in Ubuntu, the save icon has been changed to a down arrow overlayed on a hard disk (although in gVim, Save All is still a set of floppies). But even that's a bad idea, because how many users actually know what a hard disk looks like, until they ask, "What is that save icon a picture of?" - Chris Lasher
Man I remember being excited when there was a second disc drive so you could both load software _and_ save files - Cameron Neylon
I was trilled at having a tape drive, like those you can use to tape music too... then I had not to retype the software again and again :) (But fair, that was before DOS, and not called A:\) - Egon Willighagen
and I still have stuff on floppies and a computer that can read them. ouch! - Kubke from BuddyFeed
Just after Christmas I was at a friend's place, and what did he have set up in his lounge room, but a working Commodore 64! Talk about a blast from the past... - Michael Nielsen
The C64 was my first introduction to computers, as far back as I can remember. - Mr. Gunn
Andrew Su
Can scientific data be "copyrighted"? I'm very confused by some of the data access restrictions being proposed by a consortium we're loosely involved in... Someone here will undoubtedly have some relevant links for a newbie?
I think that what can or cannot be copyrighted will depend on jurisdictions. It might not be a bad idea to look into WIPO's treaties (eg. WIPO Copyright Treaty) http://www.wipo.int/copyrig... and see whether those restrictions fall within the international treaty standards. Eg, in article 5 it is stated: "Compilations of data or other material, in any form, which by... more... - Kubke
Thanks for the links and info. But ugh... IANAL, and for good reason... </glazed_eyes> - Andrew Su
As RR says, the E.U. states and many other countries do have IP rights for databases, and sometimes for straight-up facts. Sometimes these are part of standard copyright, sometimes they're separate pieces of law. What the law does, and what most scientists and academics act like it does, are two totally different things in the U.S. Most scientists do act and think as if they have... more... - N. Ansi
Andrew, the problem is exactly that glazed eyes effect. Likely result of using copyright is that some of your data will not be "protected" somewhere, people get confused, good people then decide they can't use out and the nasty ones will use it anyway. Basically you aren't doing yourself any favors. If you must restrict uses then at least use a license designed for data - Cameron Neylon from Android
What Cameron says... See http://www.opendatacommons.org/license... and if that doesn't seem suitable enough, all you can do is to produce data _access_ agreement (which needs to be signed by someone, even via web form). I don't think you can effectively "own" the data if you decide to share it. - Pawel Szczesny
Thanks all. Cameron, the scenario you describe is the one I foresee too, and I think the leaders of this project will be surprised by the negative effects on data reuse. Now just wondering whether I want to venture into this particular pile of stinkiness... - Andrew Su
Konrad Förstner
Still not solved: "What if there were no hypothetical questions?" (George Carlin)
Jan Aerts
It's nice to see "well-designed", "extremely useful" and "very nicely-written!" in reviewer's comments :-)
Konrad Förstner
Cameron Neylon
BUT (and its a v big but!) we need to win battle to change licence terms to CC-BY. I know issue doesn't excite most but its important (2/2)
I'm not convinced that the attibution thicket of BY is a significantly smaller problem than the lack of clarity around what is C or NC use. If we assume that the majority of re-use is going to involve a small number of works at any one time, then BY is better than BY-NC. But BY is no better than BY-NC for large-scale, automated re-use, which in time may come to be the more important... more... - Bill Hooker
One other thing to consider -- I can't say where I heard this, but I am reliably informed that one of the reasons publishers cling to NC is that Big Pharma spends millions every year in purchasing reprints with which to influence medical decision makers. The fear is that under an attrib-only license that revenue would dry up. - Bill Hooker
Bill, the reprints argument is bollocks. They should be using trademark to protect that market not copyright. It's the wrong legal tool for what they're trying to protect (which is a business elements based on brand and layout, not the actual content) - Cameron Neylon
And you know that I believe ccZero is the best answer but I don't think we're going to win that one. And I think there is a standard enough citation mechanism and a clear shared understanding of what roughly speaking attribution is about that there is a reasonableness defence to vexatious litigation. NC is much less clear. The big problem for me is that NC says "you can't make money out... more... - Cameron Neylon
[deleted inital comment about Cameron's trademark argument, having remembered that IANAL and shouldn't try to play one on the internets] My first reaction is that the journals *do* want to protect content, since that's what the Pharma co's are using -- couldn't they simply strip off the protected marks, cite the source and not pay a cent enforceable by trademark law? - Bill Hooker
Yes, they could strip off the branding but what's the point of a Nature reprint without the Nature branding. That's what people want, particularly in business, the Nature brand associated with their work. Nature's biggest asset isn't the content, its the brand name and recognition. That's what they should be out there protecting. If that isn't enough then I'll accept one of a)... more... - Cameron Neylon
Cameron Neylon
PLoS (and NPG) redefine the scholarly publishing landscape - http://cameronneylon.net/default...
Nature Publishing Group yesterday announced a new venture, very closely modelled on the success of PLoS ONE, titled Scientific Reports. Others have started to cover the details and some implications so I won’t do that here. I think there are three big issues here. What does this tell us about the state of Open Access? What are the risks and possibilities for NPG? And why oh why does NPG keep insisting on a non-commercial licence? I think those merit separate posts so here I’m just going to deal ... - Cameron Neylon
"redefine" ... ?? - Egon Willighagen
You'd prefer "re-shape" perhaps, or do you just want a hyphen? - Cameron Neylon
Cameron, thanks a lot for the thoughtful analysis. I left the discussion of the non-commercial out of my post as I knew you would cover that. For me there are two really interesting questions: a) how do you define the relationship between the various journals from the same publisher (NPG or PLoS), e.g. do you allow cannibalism by Scientific Reports? And b) what publisher develops the best workflow for this kind of journal, hopefully bringing down the article processing charges. - Martin Fenner
How does BMC Research Notes relate to Scientific Reports and PLoS ONE? Is this the third big player in this market? - Martin Fenner
sorry... partly linking words in the wrong way... I saw NPG next to redefine, and with their new experiment fresh in my mind... so, I'm fine with 'redefined' for the set of these type of journals... - Egon Willighagen
BMC Research Notes has been pitched somewhat differently. In a sense all the BMC journals are actually one as they are running on the same system but they have editorial and brand independence. I think there is an argument for merging many of them to bring costs down but I'm not the one making the decisions. - Cameron Neylon
In terms of how it relates to other NPG journals I think that's one of the big risks they are taking here. In particular how will it effect the society journals they currently run which make up a nice bit of income? I can see some cannibalism from Nature Comms but it depends a lot on how (or whether) they run a trickle down system. I'm not sure of the long term viability of a four-tier approach at NPG, three-tier I could kind of see working - Cameron Neylon
I think that talk of a tier system breaks down with outlets like PLoS ONE or Scientific Reports. With such high volumes of papers with explicitly variable subjective 'worth' they just don't fit into a system of tiering. Unless that is you somehow arbitrarily force them to restrict there activity to a specific 'tier' which hasn't been the case with PLoS ONE and there is no indication will be the case for Scientific Reports. (N.B. My Personal Opinion) - Chris Surridge
Looking into the future: what we need now is a front-end in which we can search, discover and sort all the new OA papers, annotate, share, bookmark, discuss, etc. Soon we will have ORCID, massive access to full-text publications and the social technology to develop the tool to handle the literature we've all been discussing about here for years. With such a tool, container label would become entirely irrelevant. - Björn Brembs
Chris, I agree over the long term but in the short to medium term the prestige game is still an important one. People definitely want to get into the top journal they can. And they also want speed. I think there are real risks for the ecosystem NPG have built up, but am unsure how it plays out. NPG have managed to obfuscate somewhat on the issue of "levels" with all of these journals... more... - Cameron Neylon
I've carefully avoided Scholarly Kitchen for a while - but I'm curious now if they will give this NPG journal as much crap as they give Plos one. I'm guessing no. (sorry for the feedjack) - Christina Pikas
+1 Christina!!! - Björn Brembs
Re Björn 's "what we need now is a front-end in which we can search, discover and sort all the new OA papers, annotate, share, bookmark, discuss, etc." - that is the idea behind the WikiRepository part of http://www.science3point0.com/coasped... , the other being a WikiJournal (both collaboratively editable and semantically enhanced). Will talk about that on... more... - Daniel Mietchen
Christina wins the thread. Someone let me know when they put out their piece trashing Scientific Reports. - Mr. Gunn
@Bjorn, Daniel, for me the front end is distributed aggregation. Pick and choose what you want with generic systems and approaches, because by the time this plays through its much more than just papers... - Cameron Neylon
The goal should probably be to have open standards allowing aggregation. Once these are there, it doesn't matter much whether the aggregation takes places after a search query has been launched (your distributed variant), or before (the somewhat central variant I was alluding to, or even at the publisher or journal level, as we have it now). My motivation to play around with things like... more... - Daniel Mietchen
Yep, agreed with that. Although I think with all these demonstrators we also need to look forward to the how of integration (or standardisation if you prefer). There may be some options we should rule out because it won't be possible to standardise around them, and open source is obviously to be preferred here. - Cameron Neylon
Noah Gray
New NPG open access pub for 2011: Scientific Reports. Technically-sound work, no impact threshold: http://www.nature.com/press_r... /via @grace_baynes
what do you know .. a PLoS ONE clone. nature precedings rejection rate must still be high then. - Pedro Beltrao
These guidelines sound vaguely familiar? "Manuscripts judged to be technically sound will be sent for formal review. At this point the Editorial Board Member has two options: - The Editorial Board Member may choose to contact one or more referees who are not associated with Scientific Reports to conduct the peer review - The Editorial Board Member may choose to conduct the peer review themselves, based on their own experience and expertise" - Pedro Beltrao
I think I'm developing a reputation at NPG. Every time anyone there sends me any announcement or points to a press release it always starts: "I know you won't like the non-commercial licence...but..." - Cameron Neylon
This is where Nature tries to have their cake and eat it, too -- they are launching their first real scientific journal, where "impact" is not judged (guessed at), but you can bet they are still going to push the idea that it's somehow better because of the Nature brand. This is why I have been hesitant to laud or support other NPG initiatives like Digital Science: if you are a... more... - Bill Hooker
Yeah, first trash PLoS One and then copy them, that's how you build credibility! - Björn Brembs
Am I supposed to say something? (ducks) - Bora Zivkovic
GUYS!!! You never invite me to the party. I don't check this that often so if you're going to have some fun over here, could *someone* just check the "reply" box for their comment to give me an alert? Pretty please? - Noah Gray
don't you get e-mail alerts when someone comments on your stuff? - Bora Zivkovic
@Cameron, your reputation at NPG WRT to non-comm licenses only extends to me, so fear not :-) but Graham clearly had the same thought (as have others) so I can't be too far wrong.., - Grace Baynes
@Björn Brembs To my knowledge NPG as a business has never "trashed" PLoS ONE. I'm aware that Nature editors have written some critical pieces, but they are editorially independent and we can't influence either way. Please let me know if I'm wrong here, we're not in the business of trashing others. - Grace Baynes
@Grace See my blog post of this morning for a more nuanced view. The single liner was tongue-in-cheek for the long-timers here :-) - Björn Brembs
It does NPG no credit to cower behind "editorial independence". You print it, you own it. - Bill Hooker
@Björn thanks for pointing to your blog post. I've posted a comment over there. - Grace Baynes
@Bill, I'm not cowering, and stand by my editorial colleagues and what they write.@noah Apologies for hijacking this comment thread. - Grace Baynes
Just to be clear, previous pieces deemed critical of PLoS ONE were put forward by the Nature News team and editors, not the manuscript editors. And indeed, editorial independence is extremely important, regardless of whether one agrees with one's colleagues. - Noah Gray
"deemed critical" -- what is that, Nature Newspeak? Unpack editorial independence a little for me, please: is Nature forced to publish anything Declan Butler writes? Or if, having chosen to publish an opinion piece (by DB or anyone else), should they be expected to bear the consequences? I don't understand the point about Nature News rather than manuscript editors. - Bill Hooker
Manuscript editors have no bearing on the news editors who have no bearing on the manuscripts, with neither suffering any pressure from the business/financial side to do anything. But all parts of the company deal with the consequences of what is published, whether or not they agree with specific aspects. That's "editorial independence." Doesn't get much more simple, bro. If you don't... more... - Noah Gray
Plenty of people, including me, did take it up with the news team at the time (see comments here: http://www.nature.com/news...). But here we are talking about Grace's claim that "NPG as a business has never "trashed" PLoS ONE". You may not be able to comment on that, but Grace just did. So, even if Butler can publish in NN anything he decides to, you've said... more... - Bill Hooker
Yes, and the consequences include listening to your disenchantment and criticism being expressed here, which I have. And here I am, accepting both. As for your questions, I thought I made my points clear in the previous comment. Have a great weekend. - Noah Gray
Pierre Lindenbaum
Thierry Legault - Partial solar eclipse *AND* transit of the Space Station from Oman - http://legault.perso.sfr.fr/eclipse...
Thierry Legault - Partial solar eclipse *AND* transit of the Space Station from Oman
and some really nice solar activity... look at that spot down right :) - Egon Willighagen
Deepak Singh
If You Didn't Blog It, It Didn't Happen - http://dashes.com/anil...
I agree - Deepak Singh
How to Survive a Slashdotting on a Small Apache Server | mockyblog - http://mocko.org.uk/b...
Deepak Singh
Cameron Neylon
Comment on Can a journal make a difference? Let’s find out. by Cameron Neylon - http://nsaunders.wordpress.com/2010...
I think my comment is longer than Neil's original blog post... - Cameron Neylon
Comment incidentally is an attempt to explain why ORC has charges and why they are what they are... - Cameron Neylon
Attila Csordas
:)no stat analyses&discuss. of prev exp work RT @wellcometrust UK prim school children publish in peer-reviewed journal http://wellcometrust.wordpress.com/2010...
Bosco Ho
Woohoo! Winter solstice.
@neil, are you playing tricks on me? - Bosco Ho from email
to people living in england, the weather in australia is a cruel trick of fate. - Bosco Ho
I guess it would be wrong to complain the weather is too hot then? - Kubke
Mr. Gunn
RT @anildash: Really feels like all of the most inspiring work of the early Web 2.0 era is gone. Time to start building again.
delicious is the site that popularized the concept of tags. We owe them all a huge debt of gratitude. - Mr. Gunn
@Neil, I tried following/snooping for suggestions on Simpy and Delicious, and just got overwhelmed. The killer app there is filtering, I think. (Haven't tried on Diigo or Pinboard yet.) - Bill Hooker
I followed a few people in delicious, but found FF to be much more useful for this. - Michael Kuhn
I do. Just following Pete Skomoroch on delicious was worth it - Deepak Singh from iPhone
I found real value in people's delicious bookmarks on friendfeed, less so on Delicious itself but I frequently use a search mode on both delicious and citeulike where I bookmark something myself, see who else has bookmarked it, look for the tags they use, then look for things tagged the same way in their library. Excellent way of checking you've got good literature coverage. - Cameron Neylon
I can't help thinking citeulike (et al) are a much more useful application of the concept because of the expertise of the users and the value of the objects being bookmarked. The metadata generated by their actions is clearly important. The social value comes from the whole web and these type of services win by making everything available as URLs etc. - Kevin Emamy
Agreed, the more focussed content helps surface the value more quickly...tho also the need to do that literature triaging is much more relevant to the research community than the general web - Cameron Neylon
Neil: I do. It's my favorite source of social links. Like Deepak, I find people like Peter Skoromoch fascinating to follow. - Michael Nielsen
I sometimes bookmark something to see who else bookmarked it, how they tagged it, and if they bookmarked anything else interesting. - Mr. Gunn from YouFeed
Don MacAskill
Huzzah! @Dropbox (indispensible pure magic file sync) v1.0 ships! Selective Sync!! Congrats to @drewhouston and team! http://blog.dropbox.com/?p=581
Bora Zivkovic
RT @RosieRedfield: I've just posted a strictly scientific critique of Dr. Wolfe-Simon's new Q&A. http://rrresearch.blogspot.com/2010... http://ironlisa.com/gfaj.... #arseniclife
Pedro Beltrao
Response required : Nature editorial - http://www.nature.com/nature...
quote : "Blogs and online comments can provide valuable feedback on newly published research. Scientists need to adjust their mindsets to embrace and respond to these new forums for debate." - Pedro Beltrao from Bookmarklet
Chris Miller
"Perl – The only language that looks the same before and after RSA encryption." -- Keith Bostic
Unreadable? - Egon Willighagen
:p pff, I will not be forced to indent my code ! :) - Pedro Beltrao
And Perl is the only language that has both "white" and "black" magic. :) - Pawel Szczesny
David Bradley
The changing weights of the chemical elements - http://www.usgs.gov/newsroo...
For the first time in history, a change will be made to the atomic weights of some elements listed on the Table of Standard Atomic Weights of the chemical elements found in the inside covers of chemistry textbooks worldwide. - David Bradley
John Resig
Using the Google Cr-48 for Coding: http://ejohn.org/blog... (My review of the new Chrome OS laptop.)
Antony Williams
Encyclopedia of Life curates Wikipedia’s species articles http://blog.wikimedia.org/blog...
Giovanni Dall'Olio
Roderic Page
Viewing scientific articles on the iPad: cloning the Nature.com iPhone app using jQuery Mobile - http://iphylo.blogspot.com/2010...
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