Posts Tagged ‘XML’
Thursday, April 18th, 2019
In a previous post, I looked at the Findability of FAIR data in common chemistry journals. Here I move on to the next letter, the A = Accessible.
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Tags:Academic publishing, automatic processing, Chemical IT, Data management, Digital Object Identifier, EIDR, FAIR data, Findability, Identifiers, Information, Information architecture, Information science, Knowledge, Knowledge representation, metadata, mining, Open Archives Initiative, RDF, Records management, representative, standardized communication protocol, Technical communication, Technology/Internet, Web design, Written communication, XML
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Saturday, February 16th, 2019
The title of this post comes from the site www.crossref.org/members/prep/ Here you can explore how your favourite publisher of scientific articles exposes metadata for their journal.
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Tags:Aaron Swartz, Academic publishing, API, Business intelligence, CrossRef, data, Data management, Elsevier, favourite publisher, Identifiers, Information, Information science, Interesting chemistry, Knowledge, Knowledge representation, metadata, mining, ORCiD, PDF, Pre-exposure prophylaxis, Publishing, Publishing Requirements for Industry Standard Metadata, Records management, Research Object, Scholarly communication, Scientific literature, search engine, social media, Technical communication, Technology/Internet, text mining, Written communication, XML
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Monday, May 29th, 2017
As the Internet and its Web-components age, so early pages start to decay as technology moves on. A few posts ago, I talked about the maintenance of a relatively simple page first hosted some 21 years ago. In my notes on the curation, I wrote the phrase “Less successful was the attempt to include buttons which could be used to annotate the structures with highlights. These buttons no longer work and will have to be entirely replaced in the future at some stage.” Well, that time has now come, for a rather more crucial page associated with a journal article published more recently in 2009.[1]
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References
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H.S. Rzepa, "Wormholes in chemical space connecting torus knot and torus link π-electron density topologies", Phys. Chem. Chem. Phys., vol. 11, pp. 1340-1345, 2009. http://dx.doi.org/10.1039/b810301a
Tags:Applet, Chemical IT, compression algorithm, computing, Cross-platform software, HTML, HTML element, Internet Journal, Java, Java applet, Java platform, jmol, Markup languages, Open formats, publishers site, publishers systems, technology moves, Technology/Internet, the Internet Journal, Web browser, web technologies, Web-components age, XML, XSLT
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Thursday, May 25th, 2017
It is a sign of the times that one travels to a conference well-connected. By which I mean email is on a constant drip-feed, with venue organisers ensuring each delegate receives their WiFi password even before their room key. So whilst I was at a conference espousing the benefits of open science, a nice example of open collaboration was initiated as a result of a received email.‡
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Tags:animation, Chemical IT, chemical reactions, City: Cupertino, Company: Cupertino Elec, Company: Firefox Communic, Computer Hardware - NEC, computing, detective, Digital media, Drip, Electronic documents, Electronic publishing, Email, HTML, Imperial College, Linux, operating system, Password, Person Location, Steven Kirk, Technology/Internet, XML
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Sunday, March 5th, 2017
Living in London, travelling using public transport is often the best way to get around. Before setting out on a journey one checks the status of the network. Doing so today I came across this page: our open data from Transport for London.
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Tags:API, chemical databases, Chemical IT, City: London, Company: TfL, Government, Greater London, Local government in London, London, Passenger Transportation Ground & Sea - NEC, PDF, Public transport, Route planning software, search engine, Sustainable transport, Technology/Internet, Transport, Transport for London, travel apps, travel data, XML
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Thursday, February 2nd, 2017
Almost exactly 20 years ago, I started what can be regarded as the precursor to this blog. As part of a celebration of this anniversary,[1] I revisited the page to see whether any of it had withstood the test of time. Here I recount what I discovered.
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References
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P.W. May, S.A. Cotton, K. Harrison, and H.S. Rzepa, "The ‘Molecule of the Month’ Website—An Extraordinary Chemistry Educational Resource Online for over 20 Years", Molecules, vol. 22, pp. 549, 2017. http://dx.doi.org/10.3390/molecules22040549
Tags:10.5517, Advertising & Marketing - NEC, chemical context, Chemical IT, chemical markup language, City: London, Commercial REITs - NEC, Company: Chime, Company: Eastman Kodak, Company: First Industrial, digital cameras, Digital Object Identifier, food additives, Historical, HTML, Imperial College, industrial strength HTML editor, Java, JavaScript, manufacturing factory, mauveine using molecular modelling software, Person Attributes, Photographic Equipment, Technology/Internet, validation tool, Web, web archaeology, web server, XML, year old Web pages
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Wednesday, March 16th, 2016
At the ACS conference, I have attended many talks these last four days, but one made some “connections” which intrigued me. I tell its story (or a part of it) here.
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Tags:Archive formats, Chemical IT, chemical structure, ELN, Nuclear magnetic resonance, PDF, research data management, spectroscopy, suitable processing software, XML, Zip
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Monday, September 8th, 2014
In the beginning (taken here as prior to ~1980) libraries held five-year printed consolidated indices of molecules, organised by formula or name (Chemical abstracts). This could occupy about 2m of shelf space for each five years. And an equivalent set of printed volumes from the Beilstein collection. Those of us who needed to track down information about molecules prior to ~1980 spent many an afternoon (or indeed a whole day) in the libraries thumbing through these weighty volumes. Fast forward to the present, when (closed) commercial databases such as SciFinder, Reaxys and CCDC offer information online for around 100 million molecules (CAS indicates it has 89,506,154 today for example). These have been joined by many open databases (e.g. PubChem). All these sources of molecular information have their own way of accessing individual entries, and the wonderful program Jmol (nowadays JSmol) has several of these custom interfaces programmed in. Here I describe some work we have recently done[1] on how one might generalise access to an individual molecule held in what is now called a digital data repository.
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References
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M.J. Harvey, N.J. Mason, and H.S. Rzepa, "Digital Data Repositories in Chemistry and Their Integration with Journals and Electronic Notebooks", Journal of Chemical Information and Modeling, vol. 54, pp. 2627-2635, 2014. http://dx.doi.org/10.1021/ci500302p
Tags:Chemical IT, Digital Object Identifier, XML
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Monday, December 2nd, 2013
This is one of those topics that seems to crop up every three years or so. Since then, new versions of operating systems, new versions of programs, mobile devices and perhaps some progress?
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Tags:chemical data, Chemical IT, chemical semantics, chemical structure diagrams, chemical structures, desktop operating systems, mature technology, mobile devices, much current software, operating system, operating systems, veritable word processor, Word, word processor, XML
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Friday, July 8th, 2011
As a personal retrospective of my use of computers (in chemistry), the Macintosh plays a subtle role. (more…)
Tags:Apple computer, Appletalk, Australia, chemical, Chemical IT, copy-editor, ethernet, Eudora, Fibre optic, GBP, hand-drawn chemical diagrams, Historical, IBM, laser printer, Mac OS X, Macintosh, megabit network, mouse pointing device, multigate routers, operating system, Pirelli, Pittsburgh, proper network, Royal Society of Chemistry, stereographics device, telephone negotiation, Tim Berners-Lee, Webster multigate routers, XML
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