“Open Access” at Bentham Science Publishers ?

January 2, 2018
0e1fe58

This caught my attention.

As did this.

Bentham1

So, having found an example of an “Open Access” (apparently CC-BY) paper at Bentham, as a reader, I have to comply with the following legalese when clicking on “Download”.
It gets worse.
When clicking on “Rights & Permisison” tab for this paper, more legalese….
Bentham2
Something fishy going on here.
Maybe something to do with a true source conflict.

And

PLEASE READ THESE END USER TERMS CAREFULLY

These end user terms (“Terms”) apply between you (“you”) and BENTHAM SCIENCE PUBLISHERS LIMITED of Executive Suite Y-2, PO Box 79127, Saif Zone, Saif, Sharjah, United Arab Emirates (“Bentham Science”) for the articles made available via the Website http://www.eurekaselect.com (each an “Article”).

These Terms shall at all times be read subject to applicable law. Bentham Science licenses Articles accessed by you via the Website to you on the terms set out in these Terms, and (if applicable) subject to any commercial terms otherwise applicable as between you and Bentham in respect of your use of or access to the Website, and by so accessing you agree to be bound by these Terms. Bentham Science or its licensors remain the owners of the Article (including any intellectual property rights in the same) at all times, and no right, title or interest in any Article is transferred to you by way of the Terms; you are simply granted a limited right to use the Article as per the terms set out in these Terms. If you do not agree to these Terms, you should immediately cease accessing Articles via the Website.

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Copyright can be confusing. Please make it less confusing !

December 18, 2017

copyleftcopyright image CC logo

copyright 1

Just stumbled across a paper licensed under an Academic Free License (AFL) 3.0.

I don’t recall seeing such a license before. My gut reaction from the name suggested this might be similar to CC0/Public Domain.

The wording however is not as straightforward as one might think…

confused

Academic Free License (“AFL”) v. 3.0This Academic Free License (the “License”) applies to any original work of authorship (the “Original Work”) whose owner (the “Licensor”) has placed the following licensing notice adjacent to the copyright notice for the Original Work:

Licensed under the Academic Free License version 3.0

1) Grant of Copyright License. Licensor grants You a worldwide, royalty-free, non-exclusive, sublicensable license, for the duration of the copyright, to do the following:

a) to reproduce the Original Work in copies, either alone or as part of a collective work;

b) to translate, adapt, alter, transform, modify, or arrange the Original Work, thereby creating derivative works (“Derivative Works”) based upon the Original Work;

c) to distribute or communicate copies of the Original Work and Derivative Works to the public, under any license of your choice that does not contradict the terms and conditions, including Licensor’s reserved rights and remedies, in this Academic Free License;

d) to perform the Original Work publicly; and

e) to display the Original Work publicly.

2) Grant of Patent License. Licensor grants You a worldwide, royalty-free, non-exclusive, sublicensable license, under patent claims owned or controlled by the Licensor that are embodied in the Original Work as furnished by the Licensor, for the duration of the patents, to make, use, sell, offer for sale, have made, and import the Original Work and Derivative Works.

3) Grant of Source Code License. The term “Source Code” means the preferred form of the Original Work for making modifications to it and all available documentation describing how to modify the Original Work. Licensor agrees to provide a machine-readable copy of the Source Code of the Original Work along with each copy of the Original Work that Licensor distributes. Licensor reserves the right to satisfy this obligation by placing a machine-readable copy of the Source Code in an information repository reasonably calculated to permit inexpensive and convenient access by You for as long as Licensor continues to distribute the Original Work.

4) Exclusions From License Grant. Neither the names of Licensor, nor the names of any contributors to the Original Work, nor any of their trademarks or service marks, may be used to endorse or promote products derived from this Original Work without express prior permission of the Licensor. Except as expressly stated herein, nothing in this License grants any license to Licensor’s trademarks, copyrights, patents, trade secrets or any other intellectual property. No patent license is granted to make, use, sell, offer for sale, have made, or import embodiments of any patent claims other than the licensed claims defined in Section 2. No license is granted to the trademarks of Licensor even if such marks are included in the Original Work. Nothing in this License shall be interpreted to prohibit Licensor from licensing under terms different from this License any Original Work that Licensor otherwise would have a right to license.

5) External Deployment. The term “External Deployment” means the use, distribution, or communication of the Original Work or Derivative Works in any way such that the Original Work or Derivative Works may be used by anyone other than You, whether those works are distributed or communicated to those persons or made available as an application intended for use over a network. As an express condition for the grants of license hereunder, You must treat any External Deployment by You of the Original Work or a Derivative Work as a distribution under section 1(c).

6) Attribution Rights. You must retain, in the Source Code of any Derivative Works that You create, all copyright, patent, or trademark notices from the Source Code of the Original Work, as well as any notices of licensing and any descriptive text identified therein as an “Attribution Notice.” You must cause the Source Code for any Derivative Works that You create to carry a prominent Attribution Notice reasonably calculated to inform recipients that You have modified the Original Work.

7) Warranty of Provenance and Disclaimer of Warranty. Licensor warrants that the copyright in and to the Original Work and the patent rights granted herein by Licensor are owned by the Licensor or are sublicensed to You under the terms of this License with the permission of the contributor(s) of those copyrights and patent rights. Except as expressly stated in the immediately preceding sentence, the Original Work is provided under this License on an “AS IS” BASIS and WITHOUT WARRANTY, either express or implied, including, without limitation, the warranties of non-infringement, merchantability or fitness for a particular purpose. THE ENTIRE RISK AS TO THE QUALITY OF THE ORIGINAL WORK IS WITH YOU. This DISCLAIMER OF WARRANTY constitutes an essential part of this License. No license to the Original Work is granted by this License except under this disclaimer.

8) Limitation of Liability. Under no circumstances and under no legal theory, whether in tort (including negligence), contract, or otherwise, shall the Licensor be liable to anyone for any indirect, special, incidental, or consequential damages of any character arising as a result of this License or the use of the Original Work including, without limitation, damages for loss of goodwill, work stoppage, computer failure or malfunction, or any and all other commercial damages or losses. This limitation of liability shall not apply to the extent applicable law prohibits such limitation.

9) Acceptance and Termination. If, at any time, You expressly assented to this License, that assent indicates your clear and irrevocable acceptance of this License and all of its terms and conditions. If You distribute or communicate copies of the Original Work or a Derivative Work, You must make a reasonable effort under the circumstances to obtain the express assent of recipients to the terms of this License. This License conditions your rights to undertake the activities listed in Section 1, including your right to create Derivative Works based upon the Original Work, and doing so without honoring these terms and conditions is prohibited by copyright law and international treaty. Nothing in this License is intended to affect copyright exceptions and limitations (including “fair use” or “fair dealing”). This License shall terminate immediately and You may no longer exercise any of the rights granted to You by this License upon your failure to honor the conditions in Section 1(c).

10) Termination for Patent Action. This License shall terminate automatically and You may no longer exercise any of the rights granted to You by this License as of the date You commence an action, including a cross-claim or counterclaim, against Licensor or any licensee alleging that the Original Work infringes a patent. This termination provision shall not apply for an action alleging patent infringement by combinations of the Original Work with other software or hardware.

11) Jurisdiction, Venue and Governing Law. Any action or suit relating to this License may be brought only in the courts of a jurisdiction wherein the Licensor resides or in which Licensor conducts its primary business, and under the laws of that jurisdiction excluding its conflict-of-law provisions. The application of the United Nations Convention on Contracts for the International Sale of Goods is expressly excluded. Any use of the Original Work outside the scope of this License or after its termination shall be subject to the requirements and penalties of copyright or patent law in the appropriate jurisdiction. This section shall survive the termination of this License.

12) Attorneys’ Fees. In any action to enforce the terms of this License or seeking damages relating thereto, the prevailing party shall be entitled to recover its costs and expenses, including, without limitation, reasonable attorneys’ fees and costs incurred in connection with such action, including any appeal of such action. This section shall survive the termination of this License.

13) Miscellaneous. If any provision of this License is held to be unenforceable, such provision shall be reformed only to the extent necessary to make it enforceable.

14) Definition of “You” in This License. “You” throughout this License, whether in upper or lower case, means an individual or a legal entity exercising rights under, and complying with all of the terms of, this License. For legal entities, “You” includes any entity that controls, is controlled by, or is under common control with you. For purposes of this definition, “control” means (i) the power, direct or indirect, to cause the direction or management of such entity, whether by contract or otherwise, or (ii) ownership of fifty percent (50%) or more of the outstanding shares, or (iii) beneficial ownership of such entity.

15) Right to Use. You may use the Original Work in all ways not otherwise restricted or conditioned by this License or by law, and Licensor promises not to interfere with or be responsible for such uses by You.

16) Modification of This License. This License is Copyright © 2005 Lawrence Rosen. Permission is granted to copy, distribute, or communicate this License without modification. Nothing in this License permits You to modify this License as applied to the Original Work or to Derivative Works. However, You may modify the text of this License and copy, distribute or communicate your modified version (the “Modified License”) and apply it to other original works of authorship subject to the following conditions: (i) You may not indicate in any way that your Modified License is the “Academic Free License” or “AFL” and you may not use those names in the name of your Modified License; (ii) You must replace the notice specified in the first paragraph above with the notice “Licensed under ” or with a notice of your own that is not confusingly similar to the notice in this License; and (iii) You may not claim that your original works are open source software unless your Modified License has been approved by Open Source Initiative (OSI) and You comply with its license review and certification process.

Quite a lot of text right ?

copyright

After a quick search, the AFL license dates back to 2002 and was released in the same era as the launch of the Creative Commons ones.

The wording (human-readable summary) as below of the Creative Commons CC0/Public Domain one is much more easier to understand.

public domain

Chatting with the Guardian Science Podcast – a Pod Delusion Special

September 12, 2017

pod delusion extra

Originally posted here September 9, 2011. The audio file no longer works. Thankfully, I found a copy on my hard drive, hence this post.

Ahead of last week’s Science Online conference in London, Graham Steel and James O’Malley sat down with Alok Jha, Mo Costandi and James Meikle from the Guardian to discuss science reporting and related issues.

Topics tackled include churnalism, linking to papers, and the changes in the landscape of science journalism over the last couple of years.

03:09 – 13:27 Discussion about the background of the Guardian’s Science Weekly Podcast
13:28 – 17:44 How much science literacy can you assume in your audience when reporting on science?
17:55 – 32:07 Churnalism.What is it and how common is it in terms of Journalism and Blogging?
32:10 – 36:10 Including links to Science Manuscripts in online news articles
36:11 – 42:15 George Monbiot’s Guardian article “Academic publishers make Murdoch look like a socialist”
42:16 – 52:01 The change in the landscape/ecosystem of science blogging over the last 12 months or so
52:07 – 52:44 The use of social media during the recent riots in London and elsewhere
52:50 – 58:37 World’s first clinical trial of stem cells to treat strokes is set to move to its next phase

Talk on preprints at ReConEvent

August 28, 2017

At ReConEvent in June this year, we were very keen to attract a speaker to provide a talk for us on preprints. Of the three speakers we asked, all were keen to come (one from the USA, the others from the UK) but none of them were able to come on the day in question. Since this is a subject that I have been closely following for many years now, we decided a month before that I would deliver it myself. This event is now in it’s 5th year and I’ve never given a talk at it before so felt the time had come.

I chose the title as “Preprints: a journey though time(yes, this talk did contain a few Doctor Who gags) which I hope was self explanatory. I spent roughly 4 weeks (on and off) putting my slides together and rehearsed it several time in advance and timed it at 12 minutes. Twitter was a good venue to get ideas/feedback on the content.

preprint journey

We had a number of possible uncoference ideas (this was one of them) and it was delivered in the breakout room. As we had two cameramen this year, thankfully the talk was recorded and as matters stand, is the most viewed video from the event.

Preprints: a journey though time from Graham Steel

SLIDES

Last Slide – Further Reading

¨Preprint FAQ

¨The Rise of Preprints

¨The selfish scientist’s guide to preprint posting

¨Ahead of the curve: embracing preprints

¨The Role of Preprints in Journal Publishing

¨The Rise of Preprints in Physics, Mathematics, and Computer Sciences

¨The arXiv of the future will not look like the arXiv

//platform.twitter.com/widgets.js

Since this session had an allocated time of ~35 minutes, this meant there was time for a general discussion in the remaining time which was mostly preprint related.

 

“We’re Librarians”

July 16, 2017

RLC

When blogging, I tend to leave the title until last (as I did here). I chose this one as it reminded me of a title I used before but in a different setting – “We’re Scientists”

On July 15th 2017, Radical Librarians Collective (RLC) had a meet up here in Glasgow. These have been taking place annually around the UK since 2013, but this was the first one north of the border.

There is no central committee running RLC hierarchically. The Collective grew organically out of  conversations between like-minded library workers, and its membership continues to be fluid and evolving. You don’t have to be a library worker to be part of the Collective: RLC thrives on collaboration and open discussion so everyone is very welcome to contribute in whatever way and to whatever extent they are able.

The format of the event was an unconference setting, was free to attend and was held at the Glasgow Women’s Library in Bridgeton in the East End of Glasgow.

glasgow-womens-library-collective-architecture-scotland_dezeen_1568_2

This slideshow requires JavaScript.

Being a free to attend event, not all who signed up came along on the day, but most did, ~40 attendees. The format for the day was clear and informative. Being an unconference, a rough schedule was put in place in advance and several pitches were made.

The event began.

Bridgeton4

Having not been to an RLC event before, I was impressed at the level of detail that had been thought out in advance “to mitigate barriers to engagement within the group”. SOURCE

One thing that initially took me by surprise (but swiftly understood why) was that Chatham House Rule was in place for the meeting. One is aware of the rule but has only been to one event before (2010) where this applied.

The Cost of Open Access ?

In this instance however, tweeting was permitted providing that attendees did not associate things said to who said them. All complied with this. The # for the day was #radlib17 and here are all the related tweets.

The actual topics for the sessions unfolded.

After a welcome and introductions, the first main session was on trade unionism and putting the radical before the librarianship.

 

A week prior to the event, I put in a pitch myself:-

Maybe something about ‘Big Deals’ and how to get out of them ? There has an increasing movement against them of late.

Just a suggestion for a discussion.

I was pleasantly surprised that this was actually selected and a 30 minute discussion took place. This was kicked off (as informally agreed on the day) by a voluntary member of the group, Prof Charles Oppenheim, myself followed by a general discussion.

Some of the topics that may have come up (in no order):-

Recent cancellations of “Big Deals” in Europe and beyond.

FOI requests

Cost of journal subscriptions by Scottish Universities

Lawson S and Meghreblian B. Journal subscription expenditure of UK higher education institutions [version 3; referees: 4 approved]. F1000Research 2015, 3:274
(doi: 10.12688/f1000research.5706.3)

Sci-Hub

I think I am allowed to say that I made the closing remark, but I am not permitted to say what it was (Chatham House) but I may have pointed to some of the words on a t-shirt…

librarians

After a short lunch period, a workshop/cryptoparty session on internet security was had.

The event concluded at ~15:50 and as we had to vacate the building by 16:00, off we went having left our area in the same way in which we arrived.

Almost all of us then walked round to Bridgeton station and trained it back to Glasgow Central.

A somewhat brisk (was pishin’ it down at times) walk up Renfield Street to The Flying Duck for dinner/drinks etc.

flying-duck-optimised

I buggered off early but I understand there was some karaoke !!!!!!

Extracts of The Library of Alexandra

June 7, 2017

Carl1

On June 6th 2017, in a series of tweets, Carl Malamud @carlmalamud  unearthed a very interesting entity. Carl describes himself on Twitter as:-

Archivist. Usually Civil Servant. Founder of . Open Source America’s Operating System. It’s not just a good idea, it’s the law.

 

Carl Malamud is the President and Founder of Public.Resource.Org. The author of 8 books, Malamud was previously founder of the Internet Multicasting Service, a nonprofit that started the first radio station on the Internet and was responsible for making the SEC EDGAR database available. He is the recipient of the Berkman Award from Harvard, the Pioneer Award from the EFF, and the Bill Farr Award from the First Amendment Coalition.

SOURCE

And he concludes his thread with:-

In a subsequent tweet, he confirms that he will be taking this further:-

Carl1

I have since updated the Reception section of the Wikipedia page about Sci-Hub to reflect this.

 

Preprints – who to follow…

May 15, 2017

COS logo

I’ve touched upon the Center for Open Science previously on this blog. Looking back and ahead – Centre for Open Science

preprints

The following tweet from Brian Nosek @BrianNosek Executive Director at Center for Open Science @OSFramework was the conduit to this post.

A few tweets later

And thus, Preprint Explorers was created in real time. https://twitter.com/OSFramework/lists/preprint-explorers (now deleted) Another copy may follow 😉 (And indeed it did)

During this period, I thought about creating a list on here, and in no order (irrelevant)…

Conflict of Interest Statements (COIS) will now appear on PubMed Abstracts for all papers where indicated in publication.

April 20, 2017

pubmed image

New York University nutrition researcher Marion Nestle has been tracking industry-funded studies on her blog: 156 of 168 reported results that favored the funders’ interests. Annette Elizabeth Allen

This post was prompted by the following tweet:-

The link in the above tweet takes you to

Too many studies have hidden conflicts of interest. A new tool makes it easier to see them.

PubMed, the Google of scientific search, is now publishing funding information in its abstracts.

Great post by Julia Belluz @juliaoftoronto

My immediate response on Twitter

The screenshot in Julia’s post comes from….. PubMed PubMed Updates March 2017

Of the four changes mentioned, this is the most significant.

pm_update_fig1

The one example given by PubMed is from an Open Access (OA) paper indexed in PubMed Central (PMC) (additional arrow added).

PubMed COI

“PubMed will include conflict of interest statements below the abstract when these statements are supplied by the publisher”

Emphasis mine.

Generally speaking in terms of published research papers, COIs are largely hidden towards the end (if at all). They are vitally important IMO but this is the first time I’ve seen one indexed upfront in PubMed. Going back to a key point in Julia’s post:-

We strongly urge … all journals listed in PubMed to provide information about funding sources and other possible competing interests in all abstracts. To facilitate research, the “competing interest” section should be fully searchable. Thus, PubMed would advise users about the entity or entities that funded the study and whether (a) the authors reported no competing interests; (b) the authors reported the competing interests; (c) the article did not include a competing-interests disclosure statement; or (d) the journal did not provide disclosure of funding sources or the authors’ other competing interests.

pubmed pharma

SOURCE

In short my question is, will traditional/legacy/subscription based publishers make such important information freely available or remain hidden behind their paywalls ?

+++UPDATE 1+++

I asked my long term trusted contact at NCBI/NIH if they could confirm if these will appear widely or just on OA papers like the one mentioned.

They advised “I believe it’s on papers where indicated in publication”

+++UPDATE 2+++

I did a check on 22nd April to see if this change had been fully implemented. The following randomly picked papers were checked to see if COIs were mentioned in the Abstracts on PubMed. No mention made. Having read through the full texts of these, COIs appear in all of them. Clearly, still work to do for the PubMed team.

https://www.ncbi.nlm.nih.gov/pubmed/27249641
https://www.ncbi.nlm.nih.gov/pubmed/26631378
https://www.ncbi.nlm.nih.gov/pubmed/25246643

Extraordinary Everyday Lives #053 Open Science

April 16, 2017

ORIGINAL SOURCE c/o WAYBACK MACHINE

Update: A shorter and hopefully clearer version salvaged from Mikes analog backup recording has been posted and feds should now be getting this clearer file.

Update: Apologies for audio quality, some interference gremlins snuck in somewhere. We are looking at fixing it up somewhat and will republish the audio as soon as that’s done.

The Extraordinary Everyday Lives Show #053 Open Science
Thurs 24th July 2008

>>>>>>>>>>>> MP3 <<<<<<<<<<<<<<<<<<

This show is all about the intersection of Technology and Human desire. This year Dave and I have been focusing on deepening connections with those we subscribe to via RSS. Having a chat on a podcast is a remarkable way of doing that we have found. Agenda is loose guide only, we are very stream of consciousness, no edits, no script kinda guys.


New intro music this show. Courtesy of Graham, one of our guests. I remixed it a bit for the intro and play the full song, Wake Up Now, after the discussions.

Open Science

Rough chronological talking points:
-mike had nothing more than a vague idea such a movement would exist prior to starting work at a University in April.
-his RSS reader provided some clues to a trail which I followed Graham Steel was one of the first to respond to my thinking out loud
-how graham and mike hooked up
-richard discovered it after posting an experiment on his labrats blog, and people got in touch.
-two sides open scientific publication & open notebook scientists
-trust and sharing of unpublished latest work
-tension between competition and openness
-openness outwards facing and inclusionary of wider community sharing of scientific data
-paradigm shift involvement with and giving something back to community
-blogging science
-use of podcasts big uptake in unis
-richard is attending a Science Blogging event at the Royal Institute in London on Saturday 30th August
www.nature.com/natureconferences/sciblog2008/index.html. One of the science communications team at USyd interviewed me (richard) this morning about this conference. Very interesting: theyre really keen on the idea here. Im also going to an Open Science meet at Southampton two days after the London meeting, organized by Cameron Neylon.
-guys will try to record and live blog the london event
-whats this about? http://blog.openwetware.org/scienceintheopen/2008/07/21/the-full-web20-experience-my-talk-tomorrow-at-iwmw-in-aberdeen/
www.viddler.com/explore/CameronNeylon/videos/1/
-discussion about how to capture the esence of a event with blogging, podcasts etc. immediacy.
http://www.youtube.com/results?search_query=%22open+science%22&search_type=&aq=f
-going to use one of grahams songs for intro to this show http://www.macjams.com/song/34800 Wake Up Now
http://www.music20book.com/ Gerds book
-posters in 2nd Life http://www.flickr.com/photos/mikeblogs/195285627/
-mike talks about science in the sl community. specific uses of 3d environment.what are they good for in science? rf. mike crawling thru a molecule. [dnw]
-Knol somewhere between closed and open science use? http://knol.google.com/k/knol# (A knol is an authoritative article about a specific topic.)

Graham Steel http://twitter.com/McDawg

Networking between us public, science bloggers, scientists, researchers, physicians, Journals etc.

Nature Network http://network.nature.com/profile/steelgraham
Public Library of Science (PLoS) blog http://www.plos.org/cms/blog
Open Access Directory wiki http://oad.simmons.edu/
MacJams Music Blog http://blog.macjams.com/?p=223
Personal blog http://mcblawg.blogspot.com
Do Bloggers Add a New Dimension to Conferences? http://scienceblogs.com/clock/2008/01/science_blogging_conference_vi.php


Richard Grant (twitter: rpg_twit skype: rpg7sky AIM/iChat: rpg7aim)

Nature Network http://network.nature.com/blogs/user/rpg
University of Sydney http://blogs.usyd.edu.au/labrats/ Richards open science stuff
Personal blog http://rg-d.com/BioLOG/


LINKS and Random Stuff


The Royal Institution


http://www.science.usyd.edu.au/outreach/

http://www.oar2008.qut.edu.au/ Open access & research meeting in Brisbane towards the end of September. Some impressive names.
On the subject of technology and human desire, check out this presentation from Prof David Wishart in Canada. http://www.scribd.com/word/full/2159511?access_key=key-29c44pnl25896imfykd1 I mashed it a wee bit.

This just in:
http://dx.doi.org/10.1016/j.tree.2008.05.004
Over the past few years, blogging (‘web logging’) has become a major social movement, and as such includes blogs by scientists about science. Blogs are highly idiosyncratic, personal and ephemeral means of public expression, and yet they contribute to the current practice and reputation of science as much as, if not more than, any popular scientific work or visual presentation. It is important, therefore, to understand this phenomenon.

Acknowledgements

Intro music, Wake Up Now, by steck, via macjams.com.

Image: Culture Tubes, www.flickr.com/photos/10775233@N00/107326169

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Looking back and ahead – Centre for Open Science

March 13, 2017

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Follows a series of tweets from Brian Nosek @BrianNosek Executive Director at Center for Open Science @OSFramework

 

 

 

 

 

 

 

 

 

 

 

 

And finally….