Archive for the ‘about mendeley’ Category

Upcoming Features: Improved importers and folder monitoring

Monday, November 17th, 2008 by Rob

We have been working on improvements to the importing of information from your existing libraries and documents into Mendeley for our next release.  Highlights include:

Automatic import of PDF files from selected folders:

The feature most requested by our current Mendeley users is support for importing from whole folders (rather than having to select individual files) and automatically monitoring folders for new PDFs and any other format supported by Mendeley.

The next release will include this feature across all 3 platforms (Windows, Mac, Linux)

Improved display of time since import:

In citation and table view, the time since a document was imported is now shown and you can now sort the document list by this field.  The ‘Recently Added’ folder now sorts by date added by default.

Smoother import:

The user interface is now more responsive during large import operations and the total import/automatic extraction progress is now shown in a single progress bar at the bottom of the screen.

Improved Bibtex import and export:

  • We now remember the citation key and document type from the imported Bibtex library and use it when exporting modified documents back to Bibtex, regardless of whether Mendeley has its own equivalent document type.
  • Better handling of the various author, editor and translator name formats supported by Bibtex
  • Support for cross-references and @string entries

Improvements to the RIS and EndNote importers and exporters:

Mendeley is now more tolerant in its input handling of these filetypes and is able to import documents to Mendeley and then export back to that format again with improved fidelity.

If you have any questions or comments about importing into or exporting data from Mendeley then let us know!

Interface development and shadow sculptures - essentially the same thing

Thursday, November 6th, 2008 by Victor

I think I learned something today! As a non-software engineer, I was always puzzled beyond measure when I asked our developers to change just a minor interface detail - such as, “shift this icon up a few pixels, change the color of this frame” - and was told that this would take days upon days of work.

Today, Rob explained to me what the reason was. An interface element that you see on the screen, e.g. a toolbar, might look like it’s drawn up from a single, coherent piece of code. In reality, though, it could be cobbled together in the background from many different parts of the code that don’t have anything to do with each other. Thus, changing one pixel on the screen could require a rewrite of two huge portions of code to make them fit together.

So I said, “ah - now I get it. It’s like shadow sculptures!”. If you look at this picture, I think you’ll understand my point:

Shadow sculpture by Tim Noble and Sue Webster

If you’re a software engineer, of course this is old news. But I found it an interesting analogy! Nevertheless, as Mike pointed out in the previous post, our upcoming release (beta 0.6.0) has absolutely shiny, beautiful, well-structured code under its hood when you shine a light on it!

Web development + 1

Saturday, October 18th, 2008 by Paul

We are happy to announce yet another addition to our web team:

——

Pankaj Naug is yet another strong addition to the Mendeley web team. It took him more than a month to write this text since he likes writing code more than writing about himself.
 
Pankaj finished his bachelor in engineering in India in 1998, followed by a diploma in advanced computing. He has worked at various companies in India and the UK before joining Mendeley. Some of his projects were in education and e-commerce, and he even created an own MVC-framework. He is very happy to work at Mendeley and enjoys the dynamic start-up work environment - he just has to get used to all the Nerds around him but he does his best.

An excellent Science Blogging, Soton Open Science Workshop, and Science in the 21st Century Conference Adventure, Part II

Friday, September 26th, 2008 by Victor

Long time no blog, indeed. I had wanted to write more about the numerous workshops and conferences I attended, but I didn’t get around to it because we’ve been very busy here at Mendeley HQ. Among other things, we’re planning a new release of Mendeley Desktop soon. Without giving too much away, it will include a few long-awaited and highly-requested new features. Stay tuned!

So I’ve been looking for a way to sum up my recent travels. With total disregard for Blaise Pascal’s famous quote “I would have written a shorter letter, but I did not have the time”, I concluded that Haikus might be a solution. Here goes:

In Soton I sleep
on Ben’s futon which fails, my
talk is all woozy

Said futon

Listening to Yaroslav’s talk

Moving on - my Science in the 21st Century haiku:

Waterloo WiFi
breaks during the demo yet
enthusiasm wins

Chad Orzel on Newtonian vs. Galileian science - our former landlord Michael Palin making another unexpected appearance

Collective mind-mapping exercise devised by Alex Pang

Panel with Steve Weinstein, Harry Collins, David Kaiser, Lee Smolin and impressively bescribbled blackboards

In short, I had a marvelous week at the Perimeter Institute. Thanks to Sabine for organizing such a great conference, to Mark and Eva for the many inspiring conversations, to Jen and Michael for inviting me over to dinner, to Chad, Simeon, John and Cameron for the nice evening at the brewery, to Katy for offering to help us develop data visualizations, to David and Paul for sharing their insights into the current US presidential election (and Paul giving me one of his Analog SF magazines so I’d have something to read on the plane), to Gerry for sharing his thoughts on social networking (and looking like Albert Einstein), and to Hassan for inviting me to contribute an essay about reputation systems in science to his upcoming book.

Putting the roof terrace to good use

Thursday, August 28th, 2008 by Victor

We had comparatively nice weather (i.e., it didn’t rain) in London yesterday - so we seized the chance and organised a Mendeley team BBQ on the roof terrace of our office! Luckily for us, we didn’t set the building on fire, and no one fell off the roof. Here are some impressions:

Paul being happy while stealing plants for decoration:

Paul becoming even happier and pointing at things:

Smoke signals:

Pankaj, Steve and Falk discussing physics and metaphysics:

More happy Paul:

Julia, Aaron, Ben and Britton Street:

Ben apparently not moving as much as the others:

Fin!

And just in case you’re thinking, “these kids should do less BBQs and more software updates”, we’ve got you covered! Tomorrow we’ll release Mendeley Desktop beta version 0.5.8 with plenty of bugfixes, speed and stability improvements. Happy Paul will blog about it in more detail.

A new Knight joins Mendeley’s round table

Tuesday, August 26th, 2008 by Paul

We are proud to introduce Robert Knight - yet another boost to our development team. It’s not that we didn’t enjoy the company of a certain other knight who said “Ni” (and from whom we rented our previous office):

Still, we think Robert is a much better fit to our team. Ni!

——

Robert Knight joins Mendeley as a software engineer working on Mendeley Desktop. He graduated with a degree in Computer Science from the University of Southampton in June 2008. In his spare time, Robert is a contributor to the KDE project and develops the Konsole terminal. In the past he also wrote the BlueIDE development environment for DarkBASIC and contributed to KSpread.

PRESS RELEASE: Research-Sharing Start-Up Mendeley Launches with Support of Last.fm Chairman and Skype’s Former Founding Engineers

Wednesday, August 13th, 2008 by Victor

FOR IMMEDIATE RELEASE
August 13, 2008

Mendeley develops software for managing and sharing research papers as well as a website for discovering research trends and connecting to like-minded academics. The founders’ vision to create a “Last.fm for research” excited Skype’s former founding engineers, who became investors, and former Last.fm executive chairman Stefan Glänzer, who is now executive chairman of the company.

London, UK - When Mendeley’s founders started writing their PhDs, they wondered why there wasn’t a more convenient way of managing and sharing their collection of research papers. So they set out to develop a free research tool themselves, which is launching into public beta today.

Mendeley Desktop, a software client application available for Windows, Mac and Linux platforms, automatically extracts metadata, full-text and cited references from PDF files, builds up a personal research library, and offers sophisticated searching, tagging, and filtering functionality. It lets researchers share, synchronize and annotate their digital libraries collaboratively. Data from Mendeley Desktop is exchanged with Mendeley Web, an online research network where users can back up and access their library database, discover the most widely read papers in their academic discipline, and connect to like-minded scientists and researchers. “As the database of Mendeley Web grows, you will be able to view statistics about emerging research topics in every academic discipline, and readership statistics for each individual paper” explains Victor Henning, one of Mendeley’s co-founders. “Soon we will also include a recommendation engine. Basically, it’s like a Last.fm for research.”

This caught Stefan Glänzer’s attention. As seed investor and executive chairman, he helped Last.fm grow into the world’s largest social music network with over 20 million users. A few years earlier, he himself had been in academia, having financed his PhD through work as a DJ. “I wish I’d had a tool like Mendeley back then” says Mr. Glänzer. “There are striking similarities between the concepts: Based on its Audioscrobbler software, which helps users share and discover music, Last.fm was able to create the world’s largest open music database. Based on Mendeley Desktop, which helps users manage, share and discover research papers, Mendeley could achieve the same for academia.”

After joining Mendeley as executive chairman, Mr. Glänzer brought the team in touch with the former founding engineers of Skype, who had recently invested in academic publisher Versita through their investment fund ASI. Mendeley’s software won them over. “There are plenty of websites that want to become ‘the Facebook for researchers’” explains Eileen Broch, ASI’s investment director. “Mendeley, however, is not just another social network. It’s a truly valuable integration of software and web technologies that solves some of researchers’ day-to-day problems – which is why we decided to invest.”

About Mendeley: Mendeley develops software for managing and sharing research papers as well as a website for discovering research trends and connecting to like-minded academics. The company was founded in 2007 by Paul Föckler, Victor Henning and Jan Reichelt and is based in London, UK.

Screenshot 1: Mendeley Desktop is free academic software for managing and sharing research papers.

Screenshot 2: Mendeley Web lets researchers access their papers online, discover research trends and connect to like-minded scholars and academics.

For further information contact Victor Henning (victor.henning@mendeley.com), Tel: +44-207-2531595, or visit www.mendeley.com.
###

The long night of bugfixing and other mysterious phenomena

Wednesday, August 6th, 2008 by Victor

Let’s get the bad news out of the way first. I won’t be able to travel to the AMA Summer Conference. At this time tomorrow, I should have been at the beach of San Diego with Michael and Thorsten and a nice cold beer, but it was not to be. My cough from the viral infection hasn’t completely disappeared yet, and a weeks’ travel to California would have worsened it again… what a major bummer!

However, after a month of working from home, I have returned to the office. And as promised earlier, here’s a brief guided photo tour:

Exihibit A shows a room full of software engineers.  They occupy the west wing. They’re all so talented that they have little halos around their heads, but you can’t see them in this picture due to the backlight from the window. True story!

Exhibit B: The east wing. This is where we non-software engineers gather (notice the puny monitors and machines).

Our meeting room at lunchtime. Paul’s arm stretches out inconspicously, stealing someone’s food (or so I presume).

Our kitchen. Jan.. trying to sell me a coffee machine?!

Me in my corner, trying to take a break by hiding behind a book. Fittingly, it’s titled “Hidden Dimensions: The Unification of Physics and Consciousness“. Incredibly fascinating stuff! I’ll probably write about it on this blog later.

Outside our windows, enveloping darkness has settled in, and thus the long night of bugfixing has begun. I have witnessed a mysterious phenomenon: After dark, wherever large groups of software engineers congregate, large quantities of pizza boxes spontaneously materialize out of thin air.

An excellent EuroScience adventure, Part II

Saturday, July 26th, 2008 by Victor

After writing so much about the other fun speeches, sessions, and things to do at the ESOF2008, I didn’t manage to talk about our own session, “Euroscience’s Interactive Workshop: Development of a virtual network custom designed for scientists”, which took place on Monday afternoon.

The sessions was started off by Professors Peter Westh and Roberto Poli, who each presented their vision for an interdisciplinary network for researchers. In their view, ontologies and semantic knowledge will play a key part in establishing a useful network that is not merely a “Facebook for scientists”, but helps to connect researchers through highlighting common areas of interest or - as Prof. Westh emphasized - possible new applications of existing knowledge.

That, of course, was music to our ears. We’ve talked about our “Mendeley = Last.fm for research” vision before on this blog, but the EuroScience workshop was the perfect venue for tossing the idea around a bit further. After all, Last.fm has managed to create the largest ontological classification (and the largest open database) of music in the world, by aggregating the musical tastes of its 20 million users and then data-mining it for similar musical genres, artists, and songs.

So our presentation was aimed at exploring how these principles could be applied to research. You can find an abridged version below! I tried my best at voiceover narration, but doing it in front of my computer at midnight just doesn’t turn out as lively as standing in front of an audience:

After the talk, we got great feedback from the audience. The panel moderator, Jens Degett, even wondered whether we just might have solved the major problem of Open Access - the researchers’ lack of participation: With Mendeley, researchers have an increased incentive to post their articles online, because it enables them track the evolution of their readership in real-time!

One of the audience members who came up to us after the presentation was Anders Norgaard, a Ph.D. student from Denmark who had some cool suggestions for future features. We also talked about open sourcing Mendeley Desktop, and I mentioned to him that we had three KDE developers on our team. This is the dialog that ensued:

Anders: Oh, really? What are their names?

Me: Well, there’s Mike Arthur…

Anders: Mike Arthur? I know him, he’s quite famous in the KDE scene!

Me: …and Fred Emmott…

Anders: Fred Emmott? The guy who’s doing Slamd64?!

Me: …yes, and Robert Knight will be starting next Monday…

Anders: Robert Knight?! He’s famous, too! How did you manage to get those guys?

Well, the credit goes to Mike. I knew that we had brilliant engineers on our team, but I was clueless that they were actually famous… Mike, Fred, Robert - I tip my hat to you guys!

An excellent EuroScience adventure, Part I

Monday, July 21st, 2008 by Victor

Well, what can I say! The EuroScience Open Forum 2008 in Barcelona has turned out great so far. Due to its considerable greatitude and excellent greatishness, Jan decided not to let me have all the fun by myself and joined me yesterday.

On the downside, the heat and travel stress didn’t exactly help me get rid of my still-persisting cough/throat inflammation. I was barely able to sleep again for the first two nights in Barcelona, and I will need some more days rest at home when I return to London. Nonetheless, we attended some very inspiring sessions and received enthusiastic feedback on our presentation today (more on that in a later post) - let me recapitulate.

Saturday, the most interesting session was on “Open Science” or “Open Notebook Science”, on which Prof. Peter Murray-Rust from Cambridge gave a very spirited talk…

…followed by a not-so-spirited talk given by he-who-shall-not-be-named and in which every slide looked like this:

Anyhow, “Open Notebook Science” is a fairly recent idea which has gained more and more exposure in the past few months. The basic premise is that researchers should not only share their publications through Open Access outlets, but also freely publish their raw data alongside it so that it can be validated, re-purposed and aggregated.

This, of course, entails some problems: Academic careers and tenure decisions depend on publications, so how can you incentivise researchers to lay open their data before they’re certain that they have “wrung” all possible publications out of it? I believe that our “Last.fm for research” model, i.e. the chart-like tracking of which papers are being widely read, which authors are up-and-coming etc., could also be extended to raw data - thus giving credit to people who have created the raw data that others are successfully using.

Two other highlights yesterday and today were the keynote speeches by Prof. Marcus du Sautoy from Oxford and by Physiology/Medicine Nobel laureate Dr. Richard J. Roberts. Both described how they had discovered their love of science and the fields they wanted to dedicate themselves to. Little known facts:

Prof. du Sautoy originally wanted to become a spy (to get a nice black gun like his mum, who had worked for the foreign office) and thus tried to learn many different languages. By his own admission, he failed miserably because he did not find languages to be logical enough. Fortunately for him, Mathematics - and especially Symmetry, his field of expertise - offered him a way of describing and understanding the world in more logical terms. Finally, despite his obsession with symmetry, he had this wonderful quote from the 14th-century Japanese Essays in Idleness:

In everything [...] uniformity is undesirable. Leaving something incomplete makes it interesting, and gives one the feeling that there is room for growth… Even when building the imperial palace, they always leave one place unfinished.

This reminded me strikingly of the Law of Closure in Gestalt psychology which describes how the mind will try to complete figures if they are unfinished - hence deliberately leaving something incomplete will engage the mind’s creativity.

Today, then, Dr. Roberts spoke about his way from unruly, almost-expelled-from-school teenager to molecular biologist and Nobel laureate.

Dr. Roberts had actually wanted to become a professional snooker player - back in the 1960s, he was West England snooker champion. That was also when he received what he described as one of his most profound life lessons:

During a snooker tournament, he had sunk an incredible “lucky shot” - but then failed to make the next one. After the game, an old man came down from the audience and said to him:

Listen, if you sink a lucky shot like that, you have to concentrate twice as hard on your next shot. Everyone can be lucky, but if you get lucky - don’t feel bad, instead work extra hard to take advantage of it.

Seems to have worked out alright for him! After the talk, I hopped onto the stage to give Dr. Roberts a brief pitch of Mendeley, since he’s now actively involved in the Open Access movement. I’m sure that he gets loads of requests like these, but if we’re lucky, who knows - he might just find our idea interesting enough to give us some feedback.

Finally, here are two pictures of me wearing a brain helmet, looking at my brain activity (and oddly, not seeing any?!):

Phew. I should stop writing now. Must sleep. Will tell more of our exploits later. Adios!