NEW in Version 12.0.7 (November 24, 2013)
• UI update completed
Major changes in preferences, minor tweaks elsewhere.
• Scan Pages 5 documents
Bookends is unable to directly scan saved Apple Pages 5 documents, which have an undocumented file format, no APIs, and limited AppleScript support. However, if you have a document open in Pages 5, you can use Biblio -> Scan Open Apple Pages Document to scan it. The scanned document will be saved in Pages '09 format, which Pages 5 will automatically open and convert to its native format. Note that the bibliography will not be automatically added to the scanned document, but will be in the clipboard. After the scan, scroll to where you want the bibliography to appear (usually at the end) and press Command-V (Edit -> Paste).
• Improved small cap handling in bibliographies
When small caps are used in bibliographies, Bookends will output them to your word processor in sizes relative to the style sheet font size settings, as is already the case for citations. This works with Word, Nisus Writer Pro, and Mellel (version 3.2.7 or later).
• Placing a comma at the end of the Date field will cause Bookends to output it without parsing
• Bug fixes and improvements
Fixed a cosmetic bug where the left edge of a color label was too far to the right when showing attachment icons was turned off in preferences. Fixed a bug that prevented cited pages in an author-date citation from being displayed in Nisus Writer Pro. Fixed a bug that caused bibliographies to be omitted from scanned RTF files. Autocomplete works again when editing a field with a term list in the concise view. Fixed a number of bugs that interfered with metatypes. Fixed a bug in small caps where the last initial of a name might be output as a small cap instead of a true cap if the surname was output first. Fixed a bug that prevented small caps from being displayed in scanned citations if cited pages were used. Fixed a bug in hanging indents in scanned Nisus Writer Pro bibliographies. Pasting a bibliography copied from the Bibliography Window into a word processor document will once again appear with a hanging indent if specified in the format. Fixed a bug that could cause unwanted punctuation to be output before “et al.” when a reference was cited more than once. Fixed a cosmetic bug where color of a notecard being edited would revert to white if the library window lost and then regained the focus. All Greek letters are now correctly converted to their capitalized form when displayed in small CAPS or ALL CAPS. Fixed a rare problem with syncing pdfs with accented characters in their names with Bookends On Tap.
NEW in Version 12.0.6 (November 2, 2013)
• Updated user interface
Includes changes to the library, online search, standalone reference, and Inspector windows.
• Updated the Google Scholar parser to deal with changes made by Google
• New formatting option: surname in small caps
• Improved small cap handling in Word and Nisus Writer Pro citations
When small caps are used in citations, Bookends will output them not in absolute point numbers but in relation to the style sheet font size settings.
• Rename Attachments has been added to the library window right-click menu and Action pop-up
This option is available when the first reference selected has attachments, and will apply to all selected references that have attachments. To rename just the attachment you are viewing in the display pane, use the Action pop-up menu or a right click on the attachment (if Use WebKit to display pdfs is unchecked) and choose "Rename Attachment…"). You can also rename attachments in bulk with Refs -> Global Change -> Rename Attachments.
• When using an APA format, if the editors name is the first item output its surname/first name order will be that set for authors
This only applies to APA formats, which Bookends detects by the presence of the 3 letters “APA” at the beginning of the format name.
• The h-index option in Online Search has been removed
• Turn off automatic check for updates on launch
This option, which is on by default, can be turned off in preferences, General tab. If Bookends was purchased from the Mac App Store this option is disabled because Apple has its own update notification system.
• Curly brackets will be removed from fields imported with the BibTeX filter
This requires that you check Convert from TeX in the BibTeX tab in preferences.
• A Google Scholar advanced search will be noted as such in the Online Search window
• The color palette for reference labels has been updated
Completely new installations of Bookends will show these colors. If you are an existing Bookends users, you can install this new color palette by clicking Set To Default button under the color display in preferences (Lists tab).
• Display the contents of attached TaskPaper documents in the display pane and the Attachment Inspector
• Removed support for Microsoft Word 2004 and X add-ins
If you need to use these old versions of Word, write to Sonny Software and request the corresponding add-ins and/or templates.
• Bug fixes and improvements
The attachment icon in the reference list is now displayed properly on Retina-enabled machines and when sorting by a column with numeric entries, such as Ref #. Fixed a bug in journal glossaries where short journal names were not being output when called for. Fixed a bug that prevented periods in journal names from being removed if the journal name was not in an enabled glossary. Fixed a bug where repeated citations with a secondary order could have "et al." output twice. Fixed a bug where cited pages would be output in italic if the preceding text were italic in Word and Nisus Writer Pro scans. Fixed a bug where scanned footnotes would use the bibliography default size. Fixed a problem where using a watch folder would result in very high CPU activity. When the insertion point is in the live search field, clicking on a reference will immediately give the list the focus. Fixed a rare bug where a translator's name could be output as dashes if the author's name was. Fixed an error message that could be thrown when clicking on a group folder that contained a smart group returning no hits. Fixed a bug when outputting formats in plain text where metacharacters in quoted text (e.g. ++ and ^^) were ignored and they were output as is. Bibliographies in Nisus Writer Pro documents once again use the default bibliography font. Fixed a bug in scanning that prevented hanging indents to be automatically added for Nisus Writer Pro and Pages documents. Fixed a bug in bibliography sorts by first author and then date. Fixed a number of bugs with metatypes. BibteX fields beginning with protected characters (in curly brackets) will not be truncated. Fixed a bug in scanning Nisus Writer Pro documents that contain pictures. Fixed a bug in scanning Word and NWP where unicode characters would be mangled in unmatched citations. Fixed several issues concerning the use of “Idem” when scanning. Cited pages once again work with Author-Date citations. Fixed a bug that prevented the library window Action pop-up menu Copy Text To…hierarchical menu from working when text was selected in the browser. Fixed a bug in Bookends On Tap sync where multiple keywords would considered as a single keyword. Fixed an error that occurred when adding or removing a virtual tag with a right-click. Fixed a bug that prevented a right-click on the pdf proxy icon in Bookends browser from importing the pdf or web archive being viewed. Fixed a bug that prevented cited pages from being added to "ibid." citations.
NEW in Version 12.0.5 (September 28, 2013)
• Updated user interface
• Bookends will import attachments from the watch folder even when it is in the background
• A new option to include or remove page ranges in footnotes that use Cited Pages
The default behavior is to remove a specified page range when Cited Pages are present. Set this option in the Cited Pages section of the format.
• If a format calls for the short title and that field is empty, the full title will be substituted
• Empty lines created by doing a Find/Replace in the Authors, Editors, and Keywords fields will be automatically removed
• A new menu item and keyboard shortcut for enter/exit full screen
View -> Enter Full Screen (Control-Command-F). This menu item will not appear if you’re running Bookends on Snow Leopard, which doesn’t support the full screen view.
• Hits -> Prev/Next shortcuts have been changed to [ ] (so Option-Command-F switches focus to Live Search again)
• If a journal glossary is enabled it will be used for the Book Series Title field as well as the Journal field
If the glossary entry matches, it will be used as entered in the glossary. If no match is found, the usual title capitalization rules set in the format will be used.
• If Cited Pages contain non-numeric characters other than a space, dash, or en dash, Bookends will not try to adjust an ending page number as specified in the format
This means that nonstandard or complex cited pages will be output as entered.
• The text font for any converted order in a pre-12.x format that has styled text will be set to Arial
This is important because in Cocoa only fonts that have italic and bold faces will show these variations (e.g. avoid fonts like Geneva and Lucida Grande). The font in the order field is not used when creating a formatted reference, but the face (bold, italic, and/or underlined) is.
• Bug fixes and improvements
Fixed a bug that would cause APA citations to always use just the first name plus et al. the second time a reference was cited. Fixed the enlarged field view so that it is the same text style but 2 points larger than the normal field. Fixed a bug with the watch folder feature where Bookends would have very high CPU use when in the background. Fixed a bug that could cause an error to be thrown when a watch folder pdf was damaged. Fixed a bug that caused an error with watch folders when renaming the pdf according to a format. Fixed a bug that would cause an error to be displayed if you changed the reference in the standalone reference window with a right-click. Fixed a bug that could cause an attached pdf downloaded with the library browser to contain two periods in the name. Fixed a bug that could cause an error when entering large amounts of text in the Notes field. Fixed a bug that could cause Bookends to output an author or author/title for a citation even when directed not to and the field had styled text. Fixed a bug that caused an error when removing styled text from a field with a right-click in the standalone reference window. Fixed a bug that could cause an error to be thrown when styled text data was incomplete. Fixed a problem where styled text saved in a format's notes field would appear as naked RTF when the format was next opened. Fixed bugs in scanning with metatypes. When generating initials from an authort’s name, accented capital letters will be included. Superscripted characters in scanned citations will appear properly. Fixed a bug that caused cited pages to be output twice when an en dash was used between the starting and ending page number. Fixed a bug that prevented Bookends from creating a correct reference when using “Replicate as Book Chapter” in the standalone reference window. Fixed a formatting bug where Bookends would obey the setting for "last author at end" even when "use et al." was unchecked. Fixed a bug that could cause a return character to be inserted in a veriified Mellel citation that was preceeded by a metacharacter. Fixed a situation where an error could be thrown when clicking on a folder in the groups pane. Fixed incorrect application of smart quotes that appeared before or after other punctuation marks. The library window pane settings are now saved when you quit Bookends without closing the window first. Fixed a bug in APA 7th where only the first and last authors were output if there were more than six. Fixed a problem with generating large bibliographies during a Nisus Writer Pro scan. Fixed a bug in which a trailing period in a series titles was stripped out when formatting. Fixed a error that could be thrown if you closed the library window while doing a PubMed search.
NEW in Version 12.0.4, Mac App Store Only (September 3, 2013y)
• Fixed a bug that could cause a crash when doing a live search within the library
NEW in Version 12.0.3 (August 4, 2013)
• Introducing watch folders
When a new file is detected in a watch folder, Bookends will attach it to a new empty reference and, if a file is a pdf and Bookends can locate a doi for it, import the metadata from online sources. The file will be moved to the default attachments folder and renamed according to the specifications in preferences. If the metadata cannot be found, the title of the new reference will contain the name of the original file, prior to renaming. Watch folder settings apply to individual libraries, so different libraries can watch different folders. Settings are managed in File -> Import From Watch Folder -> Configure. You must tell Bookends what folder to watch, whether Bookends should watch for just PDFs, and if any imported attachments should be added to a particular group. Once a valid folder has been specified, Bookends will begin watching. You can stop (or restart) watching with File -> Import From Watch Folder -> Stop/Start Watching. Bookends will temporarily suspend watching when it is not the active application or the library window is moved to the background, and will resume when brought to the front. Note that if a file in the watched folder can't be moved (e.g. you don't have read/write privileges), Bookends will stop watching, as it will if the watch folder is renamed, moved, or deleted. To avoid distracting updates to the UI while you are working, newly added references will not be displayed until the list is refreshed naturally (for example, by clicking the group All). An exception is that if you are importing to a group and that group is selected, the reference list will be updated in real time.
• Improved online metadata detection when attaching a pdf
When you drop a pdf on a library window, Bookends first looks for a doi in the pdf. If none is found, Bookends will search PubMed for a reference that matches the initial text of the pdf. If a single match is found, Bookends will retrieve the doi from PubMed. This allows Bookends to find more references online. One example would be a preprint of a paper submitted to a journal that was accepted (and is now on PubMed), but the pdf you have doesn't contain the doi.
• Greatly speeded up opening and saving the enlarged field view for fields with styled text and the standalone Notes field
• For APA formats, an & will be replaced with "and" when author names are placed in front using the ^ metacharacter and there are 2-5 authors
• New option for Cited Pages
In the Cited Pages portion of a format, you can tell Bookends to "Move leading punctuation inside of a preceding quote". This means that if a cited page is separated from the rest of the citation with a comma or a period and the preceding text ends with a single or double quote mark, the punctuation in front of the cited pages will be moved inside the quote: "The Example," p. 14. If unchecked, the same citation might look like this: "The Example.", p. 14. The former (the default) is standard for American English, the latter for British English.
• Select references that have orphaned attachments
• If a specific field is selected in Live Search, its name will be displayed underneath
• Updated formats for American Society of Microbiology journals
• When disambiguating citations by title, if quotes are called for Bookends will use the form of smart quote selected in preferences
If none is selected, English will be used. This is primarily used by the MLA format.
• Navigation through the hits is available in the library window
These functions are available in the Hits menu. Note that the order of the hits is arbitrary (e.g., it might be the order of citations in a scanned document), usually not the same order as the sorted reference list.
• The keyboard shortcut for Hits -> Next has been changed to Command-Option-F
This avoids a conflict with the OS X Universal Access Zoom shortcut.
• Bug fixes and improvements
Fixed a bug that could cause problems with fields with returns and styled text when converting a database to Bookends 12. The author settings in a format's second order are honored again. Editors names will not be replaced with --- if the format calls for the authors names to be replaced in consecutive works by the same authors and editors, unless the reference is an Edited Book. Fixed a bug that could cause references to be sorted in the bibliography even when not called for when scanning a Mellel or Nisus Write Pro document. Fixed a bug that prevented citation disambiguation by author initials, names, or short title from working. Fixed a bug with journal glossaries where the full name was not substituted for the short name when the short name was not found. Fixed a bug that would cause the standalone reference window to appear when using Hits -> Go To Hit # when the library window was in front. Fixed a problem where reference copied to the clipboard with Copy Formatted could not be pasted into some applications. Notecard headers now appear in the correct color.
NEW in Version 12.0.2 (July 20, 2013)
• Correct APA formatting for two authors in front of a citation
When scanning with an APA format, if there are two authors in a citation and they are to be placed in front, " and " instead of " & " will be used to separate them. This occurs when the temp citation begins with the ^ metacharacter and the name of the format begins with the letters APA.
• Spotlight searches for exact matches can be performed by surrounding the search text with quote marks
• If you drop a pdf on a static group, the group will be selected
• You can batch import pdfs into a static group by dropping them onto the group name
• The pdf image in the Attachment Inspector can no longer be dragged and dropped
• The Inspector window is now a floating palette
• The results of an advanced PubMed search will be labeled as such in the Online Search window
• If a specific field is selected in Live Search, its name will be displayed underneath
• Bug fixes and improvements
Fixed a bug that could cause unwanted styles to be applied to punctuation in a formatted reference. Fixed a bug that could insert repeated cited pages in a scanned Mellel citation. Fixed a Word and NWP scanning bug that would cause Bookends to think two citations were back-to-back and combine them if the intervening text had no spaces and was entirely in Unicode. Fixed a highlight that wouldn't go away after dropping a pdf on a static group. Database Maintenance operations now work on libraries that have an ampersand (&) in their names. Fixed a bug that caused a delay when double-clicking on a pdf in the Attachment inspector. Fixed a bug that would cause all but the last reference in a bibliography grouping (i.e. under one number) to lose styled text. Fixed a bug that would cause the authors to be formatted incorrectly in a bibliography after dashes were used to replace repeated authors. A comma at the end of a title once again means that no special casing will be applied to that title. The bibliography for a scanned text file is now properly placed in the clipboard. Fixed a bug that caused Global Change -> Change Field to malfunction. Fixed a bug that caused text entered in the Concise View to sometimes be bolded. Fixed a rare bug where under certain conditions the font size of the title in a formatted reference would be incorrect. Fixed a bug that could cause citations in a group to be sorted by author incorrectly. Refs -> New is enabled when the standalone reference window is in front. The keyboard shortcut preference setting for Paste vs. Paste and Match Style is remembered between launches. References with titles containing returns will be displayed correctly in the single column view. Fixed a bug in syncing with Bookends On Tap where one might have to repeatedly move the mouse or press a key to get the sync to progress. Fixed a bug in the Bookends On Tap where some edited pdfs on the Mac were not transferred to the iOS device when subsequently synced. The BibTeX conversion of several accented characters has been fixed. Fixed a bug in the AppleScript handlers that respond to requests by DevonThink and Tinderbox in which an error was reported if the library name began with a number. Fixed a bug where a reference transferred from one library to another by drag and drop would not be synced with Bookends On Tap. The Greek letter ∆ is once again output correctly. Fixed a bug in dropping multiple pdfs on a library window with the Hits group selected.
NEW in Version 12.0.1 (July 4, 2013)
• Many functions are faster, including scanning documents and outputting XML
• For Book Chapters, the format's title case setting will be applied to the Volume field as well as the Title field
• Bookends will ignore a colon pasted into the Rename field by the user when attaching a file
• Attachments will be exported when File -> Export References -> Export Attachments Too is checked and a bibliography format is used
• Improvements in syncing pdfs with Bookends On Tap (requires BOT 2.1 or later)
• The Autocomplete Paper sheet is resizable
• Bug fixes and improvements
Fixed a bug that prevented the secondary order field from being used when an in-text citation or footnote was cited more than once. Fixed a bug that prevented scanned footnotes from displaying styled text. Fixed a bug where cited pages were not being included when creating citations from notecards. Importing a reference into DevonThink Pro using the Bookends template works again. Fixed a bug that caused the Editors to be omitted when replicating an Edited Book as a Book Chapter. Fixed a formatting problem where the punctuation between last and first names wasn't honored when the full name was output. The menu Edit -> Copy Formatted text is properly restored after removing the selection from a notecard. Fixed a bug that prevented keywords from being output in formatted references. Fixed a bug that could cause an entry in a Term List to be shown in RTF. Styles assigned to punctuation in the format are now conserved when a reference is formatted. A Return character in a format will once again be output even if the field in front of it is empty. Fixed several bugs that prevented citation disambiguation by a letter appended to the year from working when scanning. Improved the handling of styled text so that italics and bold text in a reference field will adopt the default bibliography format font more reliably. The "Go To Ref" button in the ambiguous citation window that can appear during a scan works again. Fixed a bug that caused the text in the find field in the find/replace dialog to disappear when exiting the field. Fixed a bug that prevented Bookends from scanning long Mellel documents. Fixed a bug that prevented Bookends from inserting the bibliography in scanned RTF files. The text enlarge/decrease buttons for the web view in the Online Search window work again. Emptying a field in the concise view will no longer cause an error. Fixed a bug where "et al." would sometimes be preceded by a comma even if none was specified in the format. Worked around a situation in which .doc or .html attachments had problems with text encoding that could cause an error message. Fixed tabbing between fields in the Autocomplete Paper sheet. Citations in scanned Pages documents once again include cited pages and quoted text. Printing references works again. Fixed a bug that could cause an error when scanning and using metatypes. Fixed a bug in the formatter where two $ in a row would cause Bookends to consider the rest of the order field as quoted text. Fixed a bug that could cause an error when doing a drag and drop copy of references from one library to another. Returns are now shown properly in scanned LibreOffice documents. Fixed a bug that caused styled text to be removed from references after a Rebuild. Fixed a bug that could in some cases cause a question mark to be output after a unicode character in a scanned Word or NWP document. Fixed a situation where a closing quote mark could be omitted in a citation containing cited pages. Imports from the Online Search window will now work with databases whose extensions are hidden in the Finder. Hanging indents work properly for unnumbered bibliographies. Fixed a bug in hits list sort.
Version 12.0 released (June 15, 2013)
New or Improved:
• Import references and pdfs from the Web while in the library window
The browser pane has the same features as Bookends browser in the Online Search window. Use the green proxy icon to import references and pdfs (if they can be identified) from Web pages that include PMIDs, DOIs, or whose references are encoded as COinS. Use the browser paper clip button to attach any pdf or Web page that you can navigate to.
• Updated database engine with journaling (protects against database corruption)
When run, Bookends will create a temporary copy of your database with the same name but with the extension .journal. When the database is closed, this temporary database will be deleted. However, if the program crashes the temporary file will remain, and when you next open the database any data that was lost or corrupted because of the crash will be restored. You can manually delete the .journal file, but if you do it will not be available to ensure the integrity of the database when it is opened again.
• Spell checking
Use the Edit menu or right-click in a reference field in the editing pane. Set fields you want to be spell checked automatically in preferences.
• Multi-level Undo/Redo
• Improved library window toolbar
A right-click in the toolbar gives you several options: Icons and Text, Icons Only, and Text Only.
• Advanced PubMed search lets you limit the results to a particular language (e.g. English)
• Improved detection of DOIs on Web pages
• Improved sorting of citation groups
If the sort is by author, Bookends will ignore punctuation between the last authors and "et al.". In rare cases, such additions could cause the sort to be out of name-order.
• New formatting option "cap SURNAME"
First names(s) will not be modified.
• New formatting option "titles in SMALL CAPS"
Bookends will preserve any capitalized letters in their normal size and the rest will be output as small caps.
• Improved author capitalization
For author capitalization options, the text between the last two names, if any, is output as entered in the format except for small CAPS, in which case it is output as all small capitals.
• Remove styles from text in reference field with a right-click
Use Global Change if you want to do this on multiple fields and/or multiple references.
• Open attachments in the application of your choice with a right-click
Open attachments in the Finder's default application, Preview, Acrobat Reader, Skim, or PDFPen with a right-click on the reference in the library window or by using the Action pop-up menu.
• New Help menu option: Show Bookends Folder in Finder
This will take you to the Finder and open the folder ~/Library/Application Support/Bookends. This folder is the default location for your library (you may have selected another) and is where support folders and files that you may want easy access to are located.
• In the Edit Bookmarks window you can specify which Web page should be automatically opened by Bookends browser
This only applies to the Online Search window. The browser in the library window always automatically opens the URL of the selected reference.
• File -> Open Location
This is enabled whenever a window has a browser open, and will move the focus to the URL field.
• Right-click on a column in the reference window to select a different field to display
This will update Preferences as well. If you want to add or remove columns (not just change the heading), you must use Preferences, List tab.
• Easier creation of new references from multiple attachments
If you drag and drop more than one file on the library window (or a folder containing more than one file), a dialog will appear asking if you want to create a new reference for each one and import the metadata from the Internet, or if you want to attach them all to the selected reference.
• Type-ahead in Term Lists and the Groups pane
Go to a specific term or group by typing its first few letters. In the groups pane, the search is only for groups and folders whose names are showing.
• Bookends PDF attachments that were edited in Bookends On Tap and then synced with Bookends will be placed back in their original folder
• Super/Sub in bibliographies no longer will end the style when a space is encountered
You must terminate the super/subscript yourself: H|2|O and ^3^H..
• Reference exporting to versions of Bookends prior to 10 has been removed
Reference exported to versions 10-11.3.7 will contain text but not styled text information.
• The keyboard shortcut for duplicating a reference is Command-D
• "type" is now a reserved word in SQL searches
To perform an SQL search for a reference Type you must enclose this word with square brackets: [type]
• For the GUID AppleEvent, multiple refs will be separated by a return (ASCII 13), not a null character
This is because RTF does not allow null characters.
• Command-M will minimize the front window
Command-Option-M is the new shortcut for Mark/Unmark references.
• If the short title field is empty it will be treated as such when formatting
Previously, the full title was used in this instance.
• Window -> Attachments replaces the Window -> Groups menu
• Import/export of EndNote 7 XML schema no longer supported
Import/export of XML files compatible with EndNote 8 or later (including all X versions) is supported.
• Quick Font toggle
• Show Clipboard
• There is no keyboard shortcut for deleting a reference being viewed in the standalone reference window
Use Refs -> Delete. When viewing references in the library window, use the Delete key to delete references with a confirmation dialog, or Command-Delete to delete without confirmation.
• If you are upgrading to Bookends 12, the first time you run it any existing custom formats will be moved to ~/Library/Application Support/Bookends/Custom Formats Before Bookends 12
You can use these older, non-upgraded formats, if you need them with your pre-Bookends 12 version of Bookends.
• When converting an older Bookends database to version 12, all reference field text will be set to black
• Bug fixes
Fixed a bug that would result in an error message if you dragged text onto a library window and selected Bookends Tab-Delimited File to import it. Fixed a bug that caused an error if you invoked Copy Formatted while a field was being edited. Fixed a bug in which a pdf shown in the reference pane was not removed when the selection changed and no reference was selected. Fixed a bug that prevented AppleEvent searches for escaped characters from finding the correct references. Fixed a bug that would cause an error to be thrown when doing an Autocomplete Paper with the Term List window open. Fixed several bugs in the formatting of metatypes in scanned documents. Fixed a bug that would yield incorrect hits when doing a boolean OR Find that was limited to references in the Hits List. Meaningless punctuation marks at the beginning of a temporary citation will be removed from the scanned citation. Fixed a bug that could cause an error to be thrown when scanning a .odt (LibreOffice) document.