Books

Thu, 23 Mar 2006 16:21:35 +0100

Help Us by buying books

We get a small percentage of the money you will spend on the books listed here provided you buy directly after you click the link. If you're going to buy one of these books, please do so via these links. There will be no charge on you, the price remains the same, we just get paid from Amazon. Thank you!

Open Access, Scholarly Publishing, Digital Libraries

Training Courses

Tue, 28 Feb 2006 12:45:26 +0100

The HyperJournal Association offers hands-on training courses on HyperJournal. So far we offer 2 types of courses:

Creating and managing a Journal with HyperJournal (This course is for a non-technical audience).
Installing, configuring and customizing HyperJournal.

The following is a list of past and upcoming courses. If you want us to organize a course at your site, please contact us at info@hjournal.org

17 Feb 2006, Pisa, Italy. Both courses in Italian.
- Program.
- pictures and training stuff (slides and exercises)
Upcoming: Late april 2006, Italy, city to be defined (do you want to host a course? write us at info@hjournal.org)

Italian translation of the user manual

Tue, 21 Feb 2006 16:44:39 +0100

An italian translation of HyperJournal 4 Dummies. A beginner's guide to HyperJournal has been released today. The italian version "HyperJournal 4 Dummies. Una guida per principianti" can be downloaded from the documentation section of the web site.

Translating HyperJournal

Sat, 30 Apr 2005 01:43:48 +0200

HyperJournal uses a smarty configuration file to handle translations. A config file is loaded at the beginning of each template:

{config_load file="$lang.cfg"}

The HyperJournal's smarty templates contains some identifiers that are substituted with a localization string before the output is sent to the browser.

There is a localization file for each language which contains the translations of all the identifiers of hyperjournal. The name of the localization file is the ISO 3166-1 alpha-2 country code (lowercase) followed by .cfg (e.g. en.cfg for english, it.cfg for italian) and the file is placed in the i18n directory.

Creating a localization file and adding a new language

To localize HyperJournal you need to create a cfg file and place it in the i18n/ directory, hyperjournal will then load your localization file and the new language can be selected in control panel-->journal. It's suggested to use an existing localization file and modify the identifier's values to match your language.

Anatomy of a localization string

Do not forget that you cannot place carriage returns into localization strings (they must be one line long).

HTML character entities

All accented and special characters must be escaped with HTML character entities. Some characters must be escaped to avoid conflict with XHTML markup: angle brackets (< and >), and ampersands (&). In addition, there are a few other characters that must be escaped, such as non-breaking spaces ( ), angle quotes (« and »), curly apostrophes (’) and curly quotes. For more information about the W3C's best practices involving character encodings and character entities, see the following references:

Caution: Be sure to save your localization file using an utf-8 encoding!

Citation Extraction: extracting text from PDF/PS: result table

Fri, 22 Apr 2005 16:05:53 +0200

Citation Extraction: extracting text from PDF/PS

Wed, 27 Apr 2005 12:12:03 +0200

I candidati

pdftotext (from xpdf v 3.00) (GPL)

$ pdftotext articolo.pdf

Non conserva alcuna informazione sul layout, a parte i fine pagina (^L), eliminabili con l'opzione -nopgbrk. Tutte le linee ed i paragrafi vengono stampati di seguito.

$ pdftotext -layout articolo.pdf

Viene mantenuta una certa quantità di informazione relativa al layout (fine linea, ma non fine paragrafo, e indentazione). Rimane comunque difficile identificare le note a piè pagina.

pdftohtml 0.36 (GPL)

$ pdftohtml -nomerge -noframes articolo.pdf

Restituisce un HTML senza paragrafi con un'informazione sul layout del documento paragonabile a quella di pdftotext -layout. Infatti non preserva nemmeno le differenti dimensioni del testo.

$ pdftohtml -nomerge -noframes -c articolo.pdf

Restituisce un HTML "complesso". Il layout del PDF è ricreato il più accuratamente possibile, ma tramite posizionamento assoluto di ogni riga e immagini di fondo ad ogni pagina. Estratto dall'output:

<DIV style="position:absolute;top:669;left:191"><nobr><span class="ft2">BIBLIOGRAFIA </span></nobr></DIV>

<DIV style="position:absolute;top:700;left:191"><nobr><span class="ft2"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:234"><nobr><span class="ft2">B</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:246"><nobr><span class="ft3">INKOFSKI</span></nobr></DIV>
<DIV style="position:absolute;top:731;left:312"><nobr><span class="ft2">,</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:317"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:321"><nobr><span class="ft2">F.</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:336"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:340"><nobr><span class="ft2"></span></nobr></DIV>
<DIV style="position:absolute;top:735;left:349"><nobr><span class="ft3"> </span></nobr></DIV>

<DIV style="position:absolute;top:731;left:353"><nobr><span class="ft2">B</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:365"><nobr><span class="ft3">UCCINO</span></nobr></DIV>
<DIV style="position:absolute;top:731;left:420"><nobr><span class="ft2">,</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:425"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:429"><nobr><span class="ft2">G.</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:446"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:451"><nobr><span class="ft2"></span></nobr></DIV>
<DIV style="position:absolute;top:735;left:460"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:464"><nobr><span class="ft2">P</span></nobr></DIV>

<DIV style="position:absolute;top:735;left:474"><nobr><span class="ft3">OSSE</span></nobr></DIV>
<DIV style="position:absolute;top:731;left:509"><nobr><span class="ft2">,</span></nobr></DIV>
<DIV style="position:absolute;top:735;left:513"><nobr><span class="ft3"> </span></nobr></DIV>
<DIV style="position:absolute;top:731;left:518"><nobr><span class="ft2">S. et al. (1999), <i>
A frontal </i></span></nobr></DIV>
<DIV style="position:absolute;top:762;left:191"><nobr><span class="ft4"><i>parietal-circuit 
for object manipulation in man: evidence from an </i></span></nobr></DIV>
<DIV style="position:absolute;top:793;left:191"><nobr><span class="ft4"><i>fMRI study</i>, 
Eur. Journal of Neuroscience, 11, 3276-3286. </span></nobr></DIV>

ps2ascii 8.01 (from GhostScript package) (GPL)

$ ps2ascii articolo.pdf > articolo.txt

Non preserva nulla del layout, ma riconosce i paragrafi marcandoli con 2 newline. Peccato che su certi documenti lo fa e su certi fallisce.

pstotext 1.9 of 2003-01-09

$ pstotext articolo.ps > articolo.txt

Non divide i paragrafi.

$ pstotext -bboxes articolo.ps > articolo.txt

Restituisce una riga per ogni parola, con la bounding box della parola. Esempio:

   147     359     225     373  BIBLIOGRAFIA

   173     320     224     334  BINKOFSKI,
   228     320     236     334  F.
   240     320     245     334  --
   248     320     292     334  BUCCINO,
   296     320     306     334  G.
   309     320     314     334  --
   318     320     348     334  POSSE,
   351     320     359     334  S.
   364     320     371     334  et
   375     320     385     334  al.
   389     320     421     334  (1999),

PreScript 0.1 e 2.2

Sono disponibili qui. Il convertitore di testo sembra dividere abbastanza bene i paragrafi (con newline), ma non sa gestire caratteri accentati e qualunque tipo di carattere speciale. Il convertitore html non è degno di nota, fa più o meno quello che fa pdftohtml in modalità normale.

ps2html_beta

Ho scaricato ps2html_beta da questo sito.

Ottime promesse (riconoscimento addirittura delle note a piè pagina). Ma bisogna farlo funzionare. Invece non funziona, probabilmente perché è un programma del 1999. Dà un errore nell'invocazione di GhostScript.

Test esaustivi e risultati

Ho provato 10 casi di utilizzo dei precedenti programmi su un insieme di 5 documenti PDF diversi per modalità di creazione (rendering PDF da documenti DOC, documenti TeX ecc.), per contenuto (note a piè pagina piuttosto che bibliografia) e per struttura (ce n'era uno su due colonne). La conversione in PostScript, quando necessaria, è stata fatta con il programma pdftops.

Ecco la tabella dei risultati.

Conclusioni

Ok, finora la combinazione migliore sembra essere:

pdftohtml -nomerge -noframes -c per estrarre il testo, le informazioni sul dimensioni dei caratteri e sul posizionamento;
prescript html per separare i paragrafi e per gestire il testo su più colonne.

Tutti questi tool sono rilasciati con licenza GPL.

Autonomous Citation Indexing: Bibliography

Tue, 28 Feb 2006 14:55:52 +0100

Citeseer

Citeseer è un archivio di articoli nell'ambito dell'informatica, che mantiene e aggiorna automaticamente il grafo delle citazioni presenti negli articoli.

Citeseer è capace sia di citation extraction che di citation matching.

Un'introduzione al sistema con una descrizione dei principi usati per il riconoscimento delle citazioni è qui.

Un'introduzione più approfondita è Steve Lawrence, Kurt Bollacker, C. Lee Giles, Indexing and Retrieval of Scientific Literature (1999) . Un articolo che descrive più in particolare l'architettura e gli algoritmi usati da CiteSeer è Kurt D. Bollacker, Steve Lawrence, C. Lee Giles, CiteSeer: An Autonomous Web Agent for Automatic Retrieval and Identification of Interesting Publications (1998) . In quest'articolo è descritto abbastanza bene l'algoritmo usato per stabilire se più citazioni si riferiscono allo stesso articolo.

L'algoritmo usato per il citation matching è descritto in Autonomous Citation Matching (1999) .

Citation extraction project page

Fri, 06 Oct 2006 18:27:14 +0200

Citation extraction works transforming various document formats (PDF, PostScript, DOC) in an internal rapresentation, and then extracting the citations from the document text.

Extracting text from PDF/PS.

Here's a repository to gather statistics about documents collected from the Internet. Data from these documents will serve to improve the algorithms and to test their effectiveness.

Autonomous Citation Indexing

Tue, 26 Apr 2005 15:03:41 +0200

Autonomous Citation Indexing for HyperJournal will add to the software two features in the submission of the articles: citation extraction and citation matching.

Definitions

Citation extraction: Retrieval of all the bibliographic references from a non-structured document. Typically documents contain references in a separate section (the Bibliography) or in the footnotes.
Citation matching: Mapping a bibliographic reference to the resource it points to. This is done by comparing relevant information about the reference against the base of known bibliographic entries.

These are to be thought as separate tasks; a separate project page is maintained for each of the two:

Citation extraction project page.

A bibliography consisting of commented articles about existing work is here.

Features

Wed, 13 Jul 2005 10:29:39 +0200

Version 0.3

Graphic design which is user-friendly and easily customisable
Dynamic contextualization
Automatic Backup
Anonymous article submission
Anonymous on-line peer-review
Category and number management
An unlimited number of scientific and editorial committees
A plurality of permitted file formats (which can be restricted according to your needs): XML, HTML, LateX, MsWord, PDF, PS, Jpeg, gif, png.

Forthcoming features (version 0.4)

Compliance with the Open Archive OAI-PMH protocol
A customisable editing-publishing stage
Conversion of XML or LateX articles into in HTML or PDF version.
Entirely modifiable style sheets for visualizing and printing articles.
Validation and article conversion tools for registered users.

Hyperjournal Overview

Dynamic Contextualization

Dynamic Contextualization is a P2P tool, based on semantic web technologies, which allows readers to visualize, while reading an article, all the articles quoted by and all those quoting the one they are reading.

How to Help

Sat, 18 Feb 2006 18:07:59 +0100

HyperJournal is a collaborative, open source software development project. As such, we welcome contributions from other developers.

We'd like to note, however, that you don't need to be a programmer to contribute. Here is a list of other ways in which you can help:

Download the Brochure, print it out and distribute it to your friends and colleagues!!!
Send us your translations of the documentation, user interface or this site
Submit bug reports
Let us know in the mailing list or at info (at) hjournal (dot) org what you find most confusing about the software, or which parts of the user interface could be improved, so we can make it easier to use
Submit suggestions for making the documentation clearer in the mailing list or to info (at) hjournal (dot) org.
Suggest improvements or useful features. We recommend posting them to the mailing list, so others can have a chance to add their input
Write additional documentation / user guides
Drop a line and let us know how the software is being used and where
Help us advertise the software by telling others in your industry or organization about it. More users means more potential contributors.

Demo

Mon, 15 Oct 2007 14:22:53 +0200

The Demo is temporarily off-line due to server change. We apologize for the inconvenience. The demo will be available as soon as possible.

Bugtracker

Fri, 06 May 2005 11:10:47 +0200

To submit bugs and suggestions on how to improve hyperjournal use the bugtracker. The bugtracker login page is at http://85.39.151.139/hj_bugtrack/ Thank you!

Developers

Fri, 06 May 2005 11:08:04 +0200

Code, Code Documentation, Developers Tutorial:

Translating HyperJournal
CVS web access
API Beta Documentation

Data Base schema (images are in .emf format) [html]
Use cases, Class Diagrams, Interaction Diagrams [html]
G. Tummarello et al., Contextualization Engine description [PDF]

Howtos

Sun, 14 Nov 2004 19:20:12 +0100

In this page you find some preliminary Howtos:

Documentation Howto [it - en]
Collaborate: guidelines [it - en]
Tools for writing Documentation [it- en]

Caso	Programma	Versione	Licenza	Input	Output	Lettere accentate	Fedeltà	Separa paragrafi	Separa pagine	Spazi e indentazione	Dimensione carattere	Corsivo, grassetto	Testo su più colonne	Posizione assoluta elementi	Modalità di esecuzione, file prodotti
1	pdftotext	xpdf v 3.00	GPL	PDF	plain	Sì (ISO-8859), ma non per TeX	Può perdere caratteri	No, mette tutto di seguito, anche i titoli	^L	No	No	No	Testo in ordine sequenziale, ma pu fare confusione	No	Produce un file txt: nome.pdf -> nome.txt
2	pdftotext -layout	xpdf v 3.00	GPL	PDF	plain	Sì (ISO-8859), ma non per TeX	Può introdurre righe spurie e spazi nelle parole	No, li separa solo se verticalmente e uniformemente separati (non affidabile)	^L	Sì	No	No	Viene mantenuto il layout a colonne	Approssimata (plain text con layout)	Produce un file txt: nome.pdf -> nome.txt.
3	pdftohtml -nomerge -noframes

HyperJournal Web Site - Documentation