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795 lines
26 KiB
795 lines
26 KiB
This file presents a summary of the main fixes and enhancements.
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See the 'ChangeLog' or the commit messages on SourceForge for a detailed
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history:
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<http://refbase.svn.sourceforge.net/viewvc/refbase/>
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Following sites list the refbase commit messages in chronological order
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(allowing you to follow the refbase development progress):
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<http://cia.vc/stats/project/refbase/>
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<https://www.ohloh.net/projects/refbase/commits>
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refbase-0.9.7
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-------------
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[DATE]
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Changes
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---------
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Security:
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- Prevent refbase use when 'install.php' or 'update.php' are still present (a good practice anyway, but it works around CVE-2015-6008, CVE-2015-7381, CVW-2015-7382, and CVE-2015-7383 until we replace install.php with something better)
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- Verify that referer is on the same site (fixes CVE-2015-6012 and partially addresses CVE-2015-6007)
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- Prevent HTML injection attacks in more user-editable fields (fixes CVE-2008-6400 and CVE-2015-6010)
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- Whitelist for XSL files (fixes CVE-2015-6011)
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General:
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- PHP7 compatibility
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- Revise SQL files to meet new requirements of MySQL
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- Allow logged-in users to search locations
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- Increase default # of responses from 5 to 10
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Miscellaneous:
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- A lot of improvements to the MediaWiki plugin, including support for localization, HTTP AUTH, and MySQL/PDO
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Bug fixes
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-----------
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- Fixed localization of type field in list view
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refbase-0.9.6
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-------------
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[28-FEB-2013]
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Feature additions
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-------------------
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Interface:
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- Support for clickable links in cite_html
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Localization:
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- Localized user login
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- Localized duplicate manager
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- Localized query manager
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- Added Russian localization
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- Added Japanese localization
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Changes
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---------
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Security:
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- Restrictions for non-admin users of search.php to prevent SQL injection
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- quote_smart in query_modify.php
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General:
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- Removed functions deprecated in PHP 5.3.0
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- Add parameter 'approved' to show.php
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- Unify styling of show.php
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- Re-arrange user detail fields by importance
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Import:
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- RIS import changes to follow the current spec
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- File imports are improved by removing a BOM, if present
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- Import of Endnote tagged files without requiring bibutils
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- PubMed is now preferred over CrossRef for importing DOIs
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- Improvements to CrossRef imports
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- Improved import of references exported by refbase
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- Minor improvements for RefWorks, Medline, and other formats
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Export:
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- COinS are now encoded as UTF-8, regardless of database encoding
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- Change MODS export of theses to use the marcgt genre authority
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Bug fixes
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-----------
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- Fixed encoding special characters in MODS exporter
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- CSS positioning fo quickSearch
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- Fixed import of RIS tag "CP"
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- Fixed file uploads to subdirectories that don't exist
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- Timezone fixes in PHP 5.1 and above
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refbase-0.9.5
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-------------
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[19-Nov-2008]
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Feature additions
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-------------------
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Import/Add Records:
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- New resource types: Abstract, Conference Article, Conference Volume, Magazine
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Article, Manual, Miscellaneous, Newspaper Article, Patent, Report, Software
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- Import from Endnote XML and SciFinder
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- Direct import from arXiv IDs, DOIs and OpenURLs
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- Direct upload of references from Bookends <http://www.sonnysoftware.com>
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Search/Display:
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- Improved interface:
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- Redesigned main page, page footer/header & forms on results pages
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- Quick Search form now always available in the page header
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- Search suggestions for text entered by the user
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- Forms on results pages can be hidden
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- Search results can be browsed & searched in three different views:
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List view, Citations, Details
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- Additional record info (keywords, abstract, etc) and links to cite
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or export the record can be displayed underneath each citation
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- OpenSearch support (which e.g. enables Firefox & IE users to search refbase
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directly from their browser's toolbar)
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- Initial support for searching & managing of duplicate records
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- New query history with links to any previous search results
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- New customizable "main fields" search option that allows to search across
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multiple fields at once
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- New option to customize the default number of records per page
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- Results can be dynamically included in foreign web pages
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Export/Citation:
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- New export formats: ADS, Atom XML, ISI Web of Science, OAI_DC XML, SRW_DC XML,
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Word XML
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- New citation styles: AMA, APA, Chicago, Harvard (3 variants), MLA, Vancouver
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- Output of citations in LaTeX bibliography (.bbl) format
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- Cite, group or export ALL found records (instead of just the selected ones)
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- For PDF output, US letter is now supported as page format
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- The 'headerMsg' URL parameter adds a header to any of the citation formats
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- Upon export, links to corresponding files are now included if the export
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format and user permissions allow so
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Localization:
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- Added chinese localization
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Command Line Clients:
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- Added support for all new export formats
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- Added new options that allow to append found records to a local BibTeX or
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MODS/SRW XML file (if they don't yet exist in that file), and update existing
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records in that file if their modification date on the server is more recent
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- Added new option to extract citation IDs from a file and retrieve matching
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records from refbase (supported file types: .aux, .bbl, .bib, .enw, .ris,
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.tex, (MODS|SRW|Endnote) .xml)
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Miscellaneous:
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- Added a refbase extension for MediaWiki which allows to place a serial number
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within <refbase>...</refbase>' markup tags; metadata for the reference is
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retrieved from refbase and marked-up according to a MediaWiki citation template
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- Added support for the sitemaps.org protocol which allows for better indexing
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by search engines
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- Added unAPI support for the new export formats 'atom', 'oai_dc' and 'srw_dc'
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Changes
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---------
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Security:
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- Introduced measures to better prevent cross-site scripting (XSS) attacks
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- For security reasons, HTML tags are now stripped from the 'headerMsg' URL
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parameter; string formatting can now be done using the refbase markup syntax
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Installation/Update:
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- Improved support for PHP installations running with 'safe_mode=On'
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Import/Add Records:
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- The 'edition' field now accepts string values
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- After any add/edit/delete action, refbase now includes a link to the last
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multi-record search results list in the feedback message if the previous query
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resulted in a single record; Along with other changes, this obviates
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'receipt.php'
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- When importing multiple records, ALL records are now imported by default
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- Improved UTF-8 handling on import so that e.g. a best-effort conversion is
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done for UTF-8 data which are imported into a latin1-based database
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- When importing (or exporting) RIS records, the type of thesis (such as
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"Masters thesis" or "Ph.D. thesis") is now taken from (or exported to) the
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'U1' field (as is supported by Bibutils v3.35 or greater)
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- Upon import, if the given URL actually is a DOI prefixed with
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<http://dx.doi.org/>, we'll extract the DOI and move it to the 'doi' field
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- Improved recognition of PubMed resource types
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Search/Display:
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- refbase now remembers many more search & display options while navigating or
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refining the results list
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- Changed the HTTP transfer method in most forms from POST to GET; this helps to
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avoid warnings about re-sending POST data in some browsers (such as Firefox)
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- When linking to particular records via 'show.php', one can now use consecutive
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serial number ranges as values of the 'records' URL parameter; examples:
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<show.php?records=123-131> or <show.php?records=123-141,145,147,150-152>
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- One can now specify 'creation-date' as value for the 'citeOrder' parameter in
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'show.php' URLs (or the '--order' option of the 'refbase' CLI); this allows to
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sort records such that newly added/edited records get listed top of the list
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- One can now specify 'Mobile' as value for the 'viewType' URL parameter (or the
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'--view' option of the 'refbase' CLI); this will return results in simple HTML
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suitable for mobile devices or any postprocessing
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- Refined layout of 'user_receipt.php'
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- Added many CSS attributes (id/class names) to HTML output where appropriate;
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this allows to easier refine the CSS styling of the refbase interface
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Export/Citation:
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- By default, export via the refbase GUI is now enabled for anonymous users
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- By default, the SRU formats SRW_DC XML and SRW_MODS XML are now transformed to
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HTML via XSL stylesheets
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- MODS XML exports include file links that Zotero is able to download
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- Renamed the Bibutils 'xml2word' command line tool to 'xml2wordbib' according
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to the name changes in Bibutils v3.40; note that if you're using a Bibutils
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version prior to Bibutils v3.40, you must revert this change in file
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'export/bibutils/export_xml2word.php'
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- The citation output options (previously located in the results footer) have
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been moved to the Display Options form of the results header in Citation view
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Admin settings:
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- The admin can now define any of the supported views (List view, Citations,
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Details) as the default view
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- For each view, the admin can now define whether the results header & footer
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should be displayed open or closed by default, or whether they should be
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entirely hidden from the interface
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- The admin can now customize the list of fields that are displayed by default
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in List & Details view; similarly, the list of fields that are available in
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dropdown menus of the results header can also be customized
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- The admin can now define 'accesskey' values which allow for keyboard
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navigation of the main parts of the refbase interface
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- The '$databaseBaseURL' in 'ini.inc.php' is now auto-generated by default
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- The refbase logo image files have been updated to the new refbase logo, and
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the logo URL path & dimensions can now be customized easily via 'ini.inc.php'
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- The session/temp dir path can now be specified explicitly in 'ini.inc.php';
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this allows you to define a custom directory path that's used on your server
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to save session data and to write any temporary files
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Localization:
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- Improved internationalization and added many additional localization strings
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- Changed or merged some localization strings to allow for better translations
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to languages such as Spanish or Chinese
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Miscellaneous:
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- Underline fontshape markup is now supported in various import and citation
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formats as well as in refbase markup (use: '__underlined text__')
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- For the "Extract citations" functionality, refbase now checks whether the
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extracted serial numbers and cite keys exist in the database and report any
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missing record identifiers
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Bug fixes
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-----------
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- Fixed bug that prevented correct directory creation/renaming and/or file
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upload on some platforms
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- Fixed 'preg_match()' compilation errors when importing BibTeX records into a
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refbase UTF-8 database
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- Worked around an error in Internet Explorer when importing single records via
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the web interface
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- When importing PubMed MEDLINE source data, refbase now extracts author
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information from the 'AU' field if the 'FAU' field is not available
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- refbase now converts Endnote XML text style markup into appropriate refbase
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markup
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- Upon RIS import, refbase now makes sure that HTML encoded source data (such as
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'ä', 'ö' or 'é') get decoded before import
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- Fixed an issue were it wasn't possible to correctly import (or cite) records
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which contained non-ASCII characters in author's given names
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- Records of unrecognized resource type were omitted upon citation output; fixed
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- When outputting to LaTeX or RIS, curly brackets are now escaped to avoid
|
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incorrect output
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- Fixed an error when exporting data to ODF XML and when the user-specific
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fields were missing from the SQL query
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refbase-0.9.0
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-------------
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[27-Oct-2006]
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Feature additions
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-------------------
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Installation/Update:
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- Searches path and common locations for supporting binaries
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<http://install.refbase.net>
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Import/Add Records:
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- Import from Endnote, Reference Manager (RIS), RefWorks, BibTeX, MODS XML,
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ISI Web of Science, PubMed (MEDLINE or XML), Cambridge Scientific Abstracts
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and COPAC (with automatic detection of bibliographic format)
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<http://import.refbase.net>
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- Import of multiple records
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- Import from a file or from PubMed ID
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- Automatic file renaming and creation of subdirectories via placeholders
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<http://placeholders.refbase.net>
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- Command line client to batch import records <http://cli.refbase.net>
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Search/Display:
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- Improved query API with short, permanent links to records
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<http://linking.refbase.net>
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- SRU/W (Search & Retrieve via URL) web service <http://sru.refbase.net>
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- OpenURL support <http://openurl.refbase.net>
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- Embedding of COinS metadata within HTML pages <http://coins.refbase.net>
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- UnAPI support <http://unapi.refbase.net>
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- Command line client to search & retrieve records <http://cli.refbase.net>
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- "Show All" link
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- Links that display all records which were added/edited since a user's last
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login
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- "is within range" and "is within list" searching of numeric fields
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- French localization
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Export/Citation:
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- ODF XML export for use with OpenOffice.org <http://openoffice.refbase.net>
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- Formatted citation export (RTF, PDF, LaTeX, Markdown, ASCII)
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- Automatic generation of user-specific cite keys and text citations
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- Sort by resource type (i.e., peer-reviewed publications, monographs, book
|
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contributions, theses, etc) when outputting citations
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- Better transliteration between character sets
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|
|
Changes
|
|
---------
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|
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- Masking of fields which may contain e-mail addresses to prevent spam
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|
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- The number of records that are returned by default can now be customized
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|
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- Improved localization support
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|
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- Better quoting of MySQL queries (user-inputted data can contain slashes and
|
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quotation marks)
|
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|
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- refbase will now work independent of the 'magic_quotes_gpc' setting in your
|
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PHP configuration file 'php.ini'.
|
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|
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- Improvements in session management
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|
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- Search queries may be submitted via GET rather than POST
|
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|
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- The admin can now control which links shall be displayed in List view and
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Citation view
|
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|
|
|
|
Bug fixes
|
|
-----------
|
|
|
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- Improvements in protection against disallowed searches
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|
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- Fixes to MODS XML export
|
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|
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- Short opening tags have been replaced with '<?php' for compatibility
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|
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- The user-specific language setting is now honoured correctly
|
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|
|
- The contents of the 'file' field will now only be revealed if the user has
|
|
permission to view/download files
|
|
|
|
- refbase now issues a correct error message if the size of the uploaded file
|
|
exceeds 'post_max_size'
|
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|
|
|
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|
|
|
|
refbase-0.8.0
|
|
-------------
|
|
[05-Apr-2005]
|
|
|
|
Feature additions
|
|
-------------------
|
|
|
|
Installation:
|
|
|
|
- New 'update.php' script and 'update.sql' to update refbase-0.7 to 0.8.0.
|
|
|
|
- 'install.php' and 'update.php' both work on Windows servers.
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|
|
|
Export/citation:
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|
|
|
- Export to MODS XML: refbase can output records in MODS format, a bibliographic
|
|
XML standard developed by the Library of Congress:
|
|
<http://www.loc.gov/standards/mods/>
|
|
|
|
- Export to Endnote/Bibtex/RIS: refbase supports export of records to common
|
|
bibliographic formats by use of bibutils:
|
|
<http://www.scripps.edu/~cdputnam/software/bibutils/>
|
|
|
|
- User-specific cite keys: The new user-specific field "Cite Key" allows users
|
|
to specify a custom identifier for each record. Cite keys will be supported
|
|
in export formats (MODS XML & Bibtex) and text citations as well as when
|
|
generating reference lists.
|
|
|
|
Adding/editing/deleting of records:
|
|
|
|
- Unicode support: You can now set the default character set to 'utf8' (Unicode)
|
|
when installing refbase on MySQL 4.1.x or greater. This provides support for
|
|
double-byte languages.
|
|
|
|
- RSS support: Users can now track queries using RSS, i.e. users are able to
|
|
convert any query into a dynamic RSS feed and subscribe to it using their
|
|
favorite news aggregator. The feed will display all newly added records
|
|
matching the users query.
|
|
|
|
- Print view: Added a print-friendly view which eases printing or copying of
|
|
records.
|
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|
|
- Includes an Endnote style file and PHP script to ease the manual batch import
|
|
of bibliographic records.
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|
|
- Started localization: Provided core structure to support web interfaces in
|
|
different languages. Note that the localization feature isn't finished nor
|
|
enabled yet and will be available in a future release.
|
|
|
|
Admin features:
|
|
|
|
- User-specific permissions: The admin can now assign access rights individually
|
|
for each user. Permission settings are provided for basic actions like
|
|
add/edit/delete records or file upload/download as well as other features like
|
|
import, export or cite.
|
|
|
|
- Reference types, citation styles and export formats can be enabled/disabled by
|
|
the admin for each user individually. The user, in turn, can choose which of
|
|
the enabled types/styles/formats shall be visible.
|
|
|
|
- User- and criteria-specific file downloads: Download links can be made
|
|
available to either everyone, logged-in users only or on a user-specific
|
|
basis. In addition, you can optionally specify a condition where files will
|
|
be always made visible.
|
|
|
|
- The admin interface now allows to group particular database users.
|
|
|
|
User customization:
|
|
|
|
- User-specific groups: Users can now add records to user-specific groups. A
|
|
drop-down menu on the main page (or any search results list) provides quick
|
|
access to all records belonging to a particular group.
|
|
|
|
- Saved queries: It is now possible to permanently save any search query
|
|
together with the current display settings. Saved queries can be easily
|
|
recalled or edited from the main page.
|
|
|
|
- Link records: A new user-specific field ("Related") enables users to link
|
|
records to other records in the database. Links can be either static (by
|
|
explicitly linking to particular record serials) or dynamic (by entering
|
|
queries like "author:lee; title:ecosystem").
|
|
|
|
|
|
Changes
|
|
---------
|
|
|
|
- The MySQL database used by refbase has undergone some significant changes.
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Please use the 'update.php' script to update any old refbase MySQL database.
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- refbase will now work independent of the 'register_globals' setting in your
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PHP configuration file 'php.ini'.
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- Links to particular pages/features will be only made visible if the user has
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appropriate access rights.
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- Re-designed the "Search within Results" form.
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- Users can now choose on every search results page which fields and how many
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records shall be displayed.
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- Logged-in users can now use user-specific cite keys (instead of serial
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numbers) as record identifiers when generating a reference list using
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'extract.php'.
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- Citation style and export format definitions now reside in individual files
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(within the 'cite/' and 'export/' sub-directories, respectively) and are
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managed via MySQL tables. This enables users to develop custom styles and/or
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formats.
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- Added support for fields 'keywords', 'notes', 'marked' and 'language' within
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the admin interface.
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- Custom CSS style sheets can be specified within 'ini.inc.php' to change the
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visual appearance of the served web pages.
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- You can now define (in 'initialize/ini.inc.php') what will be searched by
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script 'library_search.php'.
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- Added variables to the database configuration file ('initialize/db.inc.php')
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which allow to use custom names for the refbase MySQL tables.
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- Renamed the v0.7 'Export' feature to 'Cite' to better reflect its purpose and
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to make room for the new export capabilities.
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- Include files and configuration files were moved to separate sub-directories.
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- refbase now tries harder to prevent a malicious user from hacking the database
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by use of a custom SQL query.
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- A lot of internal code re-structuring.
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Bug fixes
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-----------
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- When adding records, entered values will be reloaded correctly if an error
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occurs.
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refbase-0.7
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-----------
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[11-Jan-2004]
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Feature additions
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-------------------
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Installation:
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- Provided a web interface ('install.php') as well as a MySQL dump file for
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installation. This should make it a lot easier to setup the database. Besides
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the database structure, the MySQL dump file includes a temporary admin user
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and twelve sample records.
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User customization:
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- The database now offers six user-specific fields. These fields are stored
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individually for each user within a separate table. You can use these fields
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to store personal information for a particular record (for example your
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personal keywords or notes). These fields are only provided to logged-in users
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and can't be viewed by other users.
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- After login, a 'Show My Refs' form will allow you to easily display all of
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your own literature. This form also offers a quick way of searching your own
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literature by your personal fields (such as your personal keywords or notes).
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Display features:
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- Provided display support for rich text (like italics, super-/subscript or
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greek symbols) within the title, keywords and abstract fields by use of a
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configurable, extensible and human readable markup syntax.
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- A direct download link to any file that's associated with a particular
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record will be shown to logged in users.
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- By default, exported records will now feature a 'show details' link to the
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right.
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- Export output can now optionally list records in blocks sorted by year.
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- Provided support for custom header messages within database queries: by
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including the 'headerMsg' parameter within query URLs it is now possible to
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include any information string within a link. As an example, a query URL
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pointing to articles written by a particular author can now include the
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appropriate author information (e.g. "Articles by Matthias Steffens:") which
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will show up as a header message on every results page.
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User management:
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- 'Search within Results' functionality now also works when managing users.
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- It is now possible to delete any non-admin user via the user management
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interface.
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- Two new fields will store information about the date & time of the last login
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as well as the total number of logins for a particular user.
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Admin features:
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- The admin user is allowed to execute custom SQL statements other than SELECT
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queries (according to his GRANT privileges). This will enable him to make
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batch changes to the database.
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Adding/editing/deleting of records:
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- Added record announcement capabilities: If a new record has been added to the
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database a short email announcement can be sent to a mailing list email
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address.
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- Provided some magic that figures out what do to depending on the state of the
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new 'is Editor' check box and the content of the 'author', 'editor' and 'type'
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fields.
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- Introduced a new field 'thesis' which enables you to specify the type of
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degree ("Bachelor's thesis", "Master's thesis", "Ph.D. thesis", "Diploma
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thesis", "Doctoral thesis" or "Habilitation thesis") that was achieved by a
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publication.
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- Provided support for online publications by the introduction of two new
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database fields: 'online_publication' & 'online_citation'. If the field
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'online_publication' is set to 'yes' by marking the appropriate checkbox, the
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export view will display the doi number as well as any string that was entered
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into the 'online_citation' field.
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- Introduced a new field 'contribution_id'. By marking the appropriate checkbox
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within the 'record' form your institutional abbreviation will be added to the
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contents of the 'contribution_id' field. This serves as an easy method to tag
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all those records that were published by your own institution.
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- 'record.php' now enables you to upload a file that's associated with a
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particular record entry. If the root directory where your files will be stored
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(specified in 'ini.inc.php') contains a sub-directory whose name matches the
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string provided within the 'abbrev_journal' field (after converting the string
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to lowercase and stripping all characters but ascii letters) the uploaded file
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will be placed inside that sub-directory. As an example, if you've created a
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sub-directory named 'polarbiol' within your files root directory, any uploaded
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file will be copied to that sub-directory if its accompanying record contains
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the string 'Polar Biol.' within its 'abbrev_journal' field.
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- Depending on the value of the 'locationSelector' drop-down, the user's name
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and email address will be added/removed from the 'location' field
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automatically.
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Changes
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---------
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- The format of the MySQL tables has changed (added & renamed some fields and
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changed some field types). You'll need to update your table definitions in
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order to use this version! See the online documentation for further help:
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<http://sourceforge.net/docman/?group_id=64647>
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- File 'db.inc': Removed 'root' as default value for '$username' (the use of a
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separate mysql user with more restrictive permissions is highly recommended).
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- Non-admin users will be only shown their own call number information. This is
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done to ease data entry and to prevent non-admin users from messing with other
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user's call number information. The data entered by the user will be
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automatically completed with the user's correct call number prefix.
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- Instead of deleting data, deleted records will now be moved to the 'deleted'
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table. Data will be stored within the 'deleted' table until they are removed
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manually. This is to provide the admin with a simple recovery method in case
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a user did delete some data by accident.
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Bug fixes
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-----------
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- Fixed a (potentially disastrous) security hole where non-admin users were
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allowed to execute custom queries other than SELECT queries.
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- When adding/updating a record the fields 'created_date', 'created_time',
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'created_by', 'modified_date', 'modified_time', 'modified_by' will be set
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correctly now.
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- Similarly, when adding/updating a record, the calculation fields
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'first_author', 'author_count' and 'first_page' will be setup correctly now.
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- Modifying the SQL query of a particular search result now also works properly
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for details and export view.
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The following known issues have been fixed:
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- If you clicked on login/logout within the first of any query results pages
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before clicking somewhere else, you did get an 'Error 1065: Query was empty'.
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- Export as 'Text Citation' didn't work properly on records that were added via
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the web interface.
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refbase-0.6.1b1
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---------------
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[30-Jun-2003]
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- Fixes a bug which made it impossible to setup the first user of the database.
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- A user management interface is provided to admins.
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- Users can now change their password later on.
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- Variable settings from 'ini.inc.php' are now honoured correctly.
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- Provided a search form that shows up on the main page after successful login
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which will allow a user to easily search his *own* literature only.
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