NEW in Version 10.5
•
Note streams and notecards
The
contents of the Notes field can be divided into virtual
notecards that can be displayed and manipulated separately.
Create a stream in the Notes field by separating individual
notes with two Returns (a single empty line between the
notes). In the List View window you can show the note
stream by clicking on the Note Stream icon at the bottom
right or by appropriate menu/contextual menu. Each notecard
will be displayed in a scrolling list. Use the + button (or
Shift-Enter) or the - button (or the Delete key) to add or
remove a notecard in the note stream list (hold the Command
key to avoid the warning dialog). Edit a notecard by double
clicking on it or selecting it and pressing Enter. Save the
edited notecard by clicking the Close button or pressing
Enter. To abort press the Cancel button (bottom right) or
press Escape. Reorder notecards by drag and drop. Copy a
notecard's contents along with a temporary citation to the
reference with Edit -> Copy Note And Citation. You can
also drag and drop the notecard with the Option key held
down into a word processor window. If you use Copy Citation
or Copy Note And Citation and the notecard begins with
cited pages (@ followed by the page(s)), Bookends will
include the cited pages in the temporary citation. For
example, if the notecard is "@7 This is my note.", Bookends
might create a temporary citation like this: {Smith, 2009,
#123432@7}. If you are using Copy Note And Citation, the
cited pages will be removed from the beginning of the note.
A contextual menu that let's you access many of these
functions with a right click, as well as select any
URIs/email addresses in the notecard. You can even paste a
“hypertext link as text” from one reference into a notecard
of another and right-click to navigate between them. If you
drag and drop text from a pdf or any application onto the
notes stream, Bookends will create a new notecard for it.
Set the font, font size, and color for notecards in
Preferences.
•
Use EZProxy with Bookends browser and reference surfing
If
your institution uses EZProxy you can access restricted web
sites even if you are off campus. Enter the EZProxy URL in
Bookends Preferences (Internet tab)—it must end in %@ or it
won’t be recognized. To start an EZProxy session, open
Online Search and either perform a search in Bookends
browser or with Google Scholar or PubMed (not JSTOR or Web
Of Science, which require ip authentication) and then click
on the Web toggle icon to surf references. You will be
asked for your name and password, and then taken to the
article's web site. You can navigate to the article's pdf
and use the Import With PDF import option. For direct
download of pdfs from these sites (that is, without using
Bookends browser/reference surfing), you still require ip
authentication. If you leave the proxy space (the URL
doesn't include the proxy information), you can start it
again by clicking in the URL field and pressing Return, or
press Option-Command-L. Note: EZProxy is for HTML-based
access. It will not allow you to perform direct searches of
restricted sites—you need to be on campus or have a VPN
client for that.
•
Live e-mail address links in the concise view
Clicking
on such a link will open your e-mail client and insert the
address. In the reference window, right-click on a field
containing an e-mail address to display it in a contextual
pop-up, preceded by "mailto:". Selecting this will open
your e-mail client as well.
•
Display files inside an attached folder in the Attachment
Inspector
•
Import references/pdfs from the Online Search window with a
right-click contextual menu
•
Bookends will strip any trailing non-letters from names
when importing
•
Updated Bookends browser JSTOR data detector
•
Show all chapters in the same book
If
a Book Chapter is selected in the List View or shown in the
Reference Window, Refs -> Show With Chapters will show
all of the chapters from the same book. This already works
with Books, Edited Books, and Conference Proceedings.
•
Bug fixes
Fixed
a bug that could cause scanned citations in Mellel
documents to be incorrect. Dragging and dropping a
reference from the online search window onto a static group
once again adds the reference to that group. FIxed a bug in
which final citations in footnotes of scanned Pages
documents could appear more than once. Fixed a bug that
could cause an error when copying and pasting text from one
field to another. Fixed a rare bug that could cause an
error when scanning with a format that alphabetized grouped
citations. When moving a file to an attachments folder on a
server, a copy of the original will not be left behind.
Fixed a bug that caused an error to be thrown if you edited
a format with an unregistered copy of Bookends (i.e. the
demo).
NEW in Version 10.4.4
•
Scans will find citations in tables in Pages '09 documents
Scanning
already works with Pages '08 tables.
•
Browse to select subfolders in the default attacment folder
When
attaching a file, you have the option to select a subfolder
in the default attachments folder hierarchy with a "select
folder" dialog. This may be faster than using the pop-up
list if you have many subfolders and sub-subfolders. If you
select a folder outside of the default folder hierarchy,
you will receive an error message. If you create a new
folder with this dialog, make sure its name is unique in
the default folder hierarchy or Bookends may not be able to
find attachments in it.
•
Copy/paste smart groups
In
the List View, select a smart group and click on the Action
pop-up menu or right-click on the group list to bring up
then contextual menu option "Copy Smart Group". Chose the
Action pop-up menu or right click again and the option to
"Paste Smart Group" will appear. The smart group may be
pasted into the same database to duplicate it, or into
another database to copy it. If the group name is already
used, a number will be appended to the name of the pasted
version to make it unique.
•
Edited formats and filters are automatically moved to their
custom folders
If
you modify a filter or format, it will be immediately moved
to the corresponding custom folder in ~/Library/Application
Support/Bookends. This ensures that your modified filter or
format will be retained when you upgrade to a new version
of Bookends. If a filter or format with the same name is
already in the custom folder, the modified file will not be
moved.
•
The names of the static groups to which the references
belong will be shown in the manual remove dups side-by-side
comparison
•
Preferences -> Override system proxy settings
Bookends
normally accesses System Preferences to get your proxy
settings (if any). If you want Bookends to use a different
proxy setting from the rest of your applications, check
"Override system proxy settings" in Preferences (Internet
tab) and enter the proxy server address and port that you
want Bookends to use. This setting will be used by Online
Search but not by Bookends browser (reference surfing),
which always uses the settings in System Preferences.
•
Remove paths to arbitrary attachment folders
Bookends
stores the paths to any folder in which you have
attachments if they are outside of the default folder. On
occasion this can cause problems, for example a very long
pause as the Finder tries to locate a folder on a server
that is no longer available. In such cases you can clear
the internal list of paths with this option in Preferences.
Note that you will have to reattach one file for every
folder if you want to reestablish the path. This does not
apply to any attachments in the default folder or its
subfolders—they will always be found.
•
Bug fixes
Fixed
a bug that could cause scanned citations in Mellel
documents to be incorrect. Dragging and dropping a
reference from the online search window onto a static group
once again adds the reference to that group. FIxed a bug in
which final citations in footnotes of scanned Pages
documents could appear more than once. Fixed a bug that
could cause an error when copying and pasting text from one
field to another. Fixed a rare bug that could cause an
error when scanning with a format that alphabetized grouped
citations. When moving a file to an attachments folder on a
server, a copy of the original will not be left behind.
NEW in Version 10.4.3
•
Bookends can scan Pages '09 documents saved as flat files
(the default) or as packages
•
Automatic updating of Bookends works again if you have
Bookends 10.4.2 or later
•
Open URLs or URIs linking to other applications from within
Bookends
Right-click
on any field in the reference window that contains a
URL/URI to bring up a contextual menu containing that
hyperlink. This will allow you to, for example, use links
to items in DevonThink 2 and access them while you are in
Bookends. If the URI is in a field that normally contains
multiple lines of text (e.g. the Abstract field), it must
reside on its own line or Bookends won't recognize it.
Application URIs (e.g. to DevonThink 2) will also appears
as live links in the concise view pane.
•
Attachment subfolder hierarchy is cached
The
list of attachment folders/subfolders shown in the Attach
Dialog pop-up menu is cached after the first time the
window opens. If you have a complex attachment subfolder
hierarchy, this will make subsequent openings of the window
considerably faster. If you create a new subfolder, the
cache will be automatically updated. If you bypass Bookends
and add/delete an attachment subfolder the Finder, use the
menu item "Rebuild Folder List" to update the pop-up menu.
•
Send your documents to Bookends as pdfs to be
attached
A menu item "Bookends" will be added the Print -> PDF
pop-up menu of all applications. The “printed” pdf will
sent to Bookends, which will allow you to attach the
reference to the first selected reference or a new empty
reference (if the List View is in front), or to the
reference showing in the Reference Window (if it is in
front).
•
Bug fixes
Citations
in Pages and OpenOffice documents beginning with modifiers
such as *, %, and - are now processed correctly. Fixed a
cosmetic bug where editing a reference in the right pane of
the List View window would generate an error message if the
List View contained a Links column. The Attachment
Inspector now shows the the selected reference's
attachment, if there is one, when it opens. Fixed a bug
that affected the ability of the up and down arrows to
display all the relavent terms when using text autocomplete
in the reference window. The Online Search text search
field is no longer disabled when switching from a boolean
search to a Google Scholar search. Fixed a bug in scanning
an Apple Pages document with a format that uses year-only
to disambiguate two citations. The concise view scrollbar
resizes correctly when changing references in the List
View.
NEW in Version 10.4.2
•
Automatic updating (Sparkle) updated for Mac OS X
10.5.6
Bookends'
automatic updating was broken by the Mac OS X 10.5.6
update. A new Sparkle framework and the addition of
security features has resolved this problem. Note that it
is the Bookends update after 10.4.2 for which you will be
automatically notified.
•
Updated BibTeX format
The
BibTeX format has been modified to be compatible with the
conditional grouping feature introduced in Bookends 10.4.1.
•
Automatic book chapter links
When
using Refs -> Replicate As Book Chapter, the new
reference will be automatically cross-linked to the book
with a link type of "Book:Book Section".
•
Sort by label
In
the List View window, the action pop-up menu or a
right-click on the reference list has a Sort By Label
option. The sort is descending, so unlabeled (uncolored)
references are listed at the end, and there is a secondary
sort based on the first column (usually Authors).
•
When you rename an attachment in Bookends, the suggested
new name will reflect your settings in Preferences (e.g.
Author Date, or based on a format)
•
Bug fixes
Fixed
an error that could be generated when scanning with a
custom citation format that called for the references in
groups to be sorted by date. Fixed a rare error that could
interrupt the scan of a Pages document.
NEW in Version 10.4.1
•
Reference cross-links (links)
Establish
relationships between references with the Links Inspector.
The selected reference in the List View (or the open
reference window) will be made the "parent" and appear in
an image well above the linked list. To add a link, drag
and drop one or more references from the List View (or the
unique ID in the reference window) onto the Inspector link
list. Choose a link relationship with the parent (e.g.
Review and Work Reviewed) as well as add comments.
Double-click on a linked reference or the parent reference
to select it in the List View. Use the checkbox next to the
reference to add or remove the reference from the Hits
List. If you have viewed more than one parent, forward and
back arrows let you scroll through the viewing history. You
can define up to 20 link relationships in Preferences and
indicate which is to be used by default (if any). You can
see which references have links, and how many, by selecting
"Links" as a List View column in preferences. The reference
window has a Link icon which will be enabled if the
reference has links. Click on the enabled icon to open the
Link Inspector and make this reference the parent.
•
Control format output with conditional groups
You
can tell Bookends to use the information in a given field
in the formatted reference, and if that field is empty to
use another field. "Conditional groups" are enclosed by
curly brackets, and the conditional fields are separated by
the caret, ^. You can place as many conditional separators
as you want, and you can include punctuation and quoted
text in the conditional statements. For example, if you
wanted the title output in quote marks, and if no title was
present the journal name output, and if neither are present
the publishers name preceded by the label "Published by",
you could use this construct: {"t"^j^`Published by `u}. The
logic is: if there is a title output it in quote marks, if
there is no title output the journal name, if there is no
journal name output the words "Published by " followed by
the publisher's name. If there is more than one field in a
conditional group, *all* must have data or that group will
be ignored.
•
If a format order begins with an editor (e.g. an Edited
Book), Bookends will punctuate the editors’ names as
specified for authors
•
Bibliographies will be placed at the end of scanned RTF
file after the first scan
If
you are doing a rescan of an RTF document and retain hidden
citations was enabled, the bibliography will be placed
wherever you had previously moved it. Subject
Bibliographies are placed in the clipboard, to be pasted
into the scanned RTF file after opening it in your word
processor.
•
Word RTF documents can be rescanned
You
can choose to "Retain hidden citations" when you scan an
RTF file. If you do, you can rescan the document and
Bookends will incorporate any changes you have made and
generate new final citations and a bibliography. Note: this
option only works with RTF files created by Microsoft Word.
If you open and save the scanned RTF file with another word
processor (e.g. Nisus Writer, Mellel, etc.) the hidden
citations will be discarded.
•
Unscan a Word RTF document
You
can unscan Word RTF file that you have previously scanned
with "retain hidden citations" enabled. The result of the
unscan will be an RTF file in which final citations and the
bibliography have been removed and temporary citations have
been restored. Note that you can rescan without doing an
unscan first.
•
Attachments can be placed in an unlimited number of
subfolders in the default attachments folder
To
create new subfolders, when adding an attachment select the
"parent" folder from the folder pop-up menu and then select
"New Folder". The default subfolder (if any) will be saved
and restored per database (that is, you can configure
different databases to use different default attachment
subfolders).
•
Rename attachments
You
can tell Bookends to rename an existing attachment. When
you do, any reference in the database that attaches that
file will be updated to reflect the new attachment name.
Note that this will break links to that attachment, if they
exist, for references in other databases. Rename attachment
can be invoked in the List Window action pop-up menu, by
right-clicking on the image of the attachment in the List
View attachment pane, or in the Attachment Inspector.
•
Reattach option
If
an attachment has been renamed in the Finder and Bookends
can no longer locate it, you can select "Reattach" from the
List Window action or a contextual menu that appears when
you click on the attachment pane. Once a file has been
reattached, the obsolete name will be removed from the
reference.
•
Improved Bookends' ability to correctly identify DOIs
embedded in pdfs
•
You can have grouped citations ordered by date when
scanning with a custom citation format
•
If the final citation contains no text before a cited pages
entry, any spaces or punctuation at the beginning of the
"before cited pages" text will be suppressed
•
Show books with their book chapters
If
the reference window in front, or the first selected
reference in the List View is a book, edited book, or
conference proceedings, the menu Refs -> Show With
Chapters will be enabled (in the List View you can also
right-click or use the Action menu pop-up). When selected,
Bookends will find and list the book and any chapters it
has (they are identified as such if they are of Type Book
Chapter and have the book's title in their Book Title
field).
•
Bug fixes
Fixed
a bug that could cause the scan of a Pages or OpenOffice
document to hang if there are cited pages in a citation and
no "before" cited pages punctuation entered in the format.
Fixed a bug where right-clicking on the proxy icon in
Bookends browser could return an error. Modified the JSTOR
data detector in Bookends browser to account for changes
made by JSTOR. Fixed a bug where pressing the Option key
would fail to identify smart groups that contained the
selected reference when the smart group specified which
other groups the reference belonged to. Fixed a bug
introduced in 10.4 where the name punctation for a custom
citation was taken from the format used for scanning, not
the custom format. Fixed a bug where double-clicking on an
attached folder could create a copy of the folder. Fixed an
SQL error that could occur when selecting an empty group
with the Attachment Inspector open. Fixed a rare occurrence
in Bookends Server that could result in incorrect parsing
of browser requests and a bug in handling of accented
characters in SQLQuery searches. Fixed a problem that could
cause an error when syncing a Mellel document containing
Bookends citations. Updated Amazon Online Search because of
changes at Amazon that caused the spinning wheel to
continue after finding and displaying less than 10
references. Fixed a bug where the pdf would not be
downloaded from the data detector if the reference didn't
appear in the List View window (i.e. a group was selected
or there was text in the live search box). Improved error
detection so that if you have designated a default
attachments folder and it no longer exists, you will
receive a intelligible error message when trying to move
attachments to that folder. Fixed problems in the creation
of MLA citations that could cause error messages to be
generated during a scan. Fixed a number of problems with
creating a new format when Bookends had been removed from
the Bookends 10 folder.
NEW in Version 10.4
•
Improved MLA citations
Resolve
ambiguous citations in a custom format by appending a
letter to the year or adding the author's initials/ full
name/short title until the citation is unique (the full
title will be used if there is no short title). The latter
is used in the MLA citation style.
•
Expanded format options
There
is one group of settings for author and editor punctuation
in a format (Name Punctuation tab), and the settings apply
to all Types. Author and editor names can now have
different settings.
•
Improved format definition window
The
window has four sections (tabs) to better distinguish the
options. Formatted examples are automatically shown and
updated as the format is modified.
•
Redesign of the boolean online search interface
The
boolean search fields and options appear in the main search
window, not a drawer, and a number of improvements have
been made in usability. Saved Amazon power searches from
older versions of Bookends will not work with this version
of Bookends and will need to be recreated.
•
Live feedback showing the groups to which a reference
belongs
Hold
down the Option key to highlight in yellow the groups
(static and smart) to which the selected reference belongs.
If more than one reference is selected, groups containing
all will be highlighted. The reference or group list must
have the focus when the Option key is pressed.
•
Autocomplete paper using ISI Web of Science
Requires
access privilges and ip authentication.
•
Automatically move attachments to the Trash when a
reference is deleted
The
confirm deletion dialog has a checkbox "Move attachments to
the Trash". Use this carefully, because it is possible to
have more than one reference, perhaps in more than one
database, attached to the same file. Note that this setting
is ignored when you remove duplicates or delete references
from the List View without the confirm dialog (that is,
with Command-Delete).
•
Perform boolean NOT live searches
Exclude
references containing given words by placing a dash (minus
sign) before a word in the live search textbox. For
example, "shakespeare -william" will find references
containing the word "shakespeare" but not the word
"william". The minus sign must precede each word that is to
be excluded.
•
Edit references from a remote location using Bookends
Server
You
can use a browser on any platform to edit references in
databases made available via Bookends Server. The syntax is
detailed in the User Guide.
•
Smart group searches can be restricted to references that
are or are not in
any
static group
•
References imported into Bookends by syncing with Papers, a
Mellel document, or by drag and drop from another Bookends
database are highlighted in the destination database
•
After online search, select references to import that are
not in your database
After
searching PubMed or Web of Science, right-click on the
reference list and tell Bookends to select just the
references that are not already in your database (the ones
you have will be highlighted in yellow). This is handy if
you want to quickly select and import the references you
don't already have.
•
Display names in the list view as surname-only
•
Use the keyboard shortcut Option-Command-I in Term Lists to
insert the selected terms into the corresponding field in
the selected reference
•
Window -> Minimize Window works with any window in the
Window menu
•
When attaching and autocompleting from Google Scholar based
on the doi, Bookends will retrieve the most complete
information available
•
Bug fixes
Fixed
an error that could arise when finding text in a reference.
Fixed a rare error in the Find dialog Spotlight search
where nonmatching references were found. Performing a Find
from a Term List no longer generates an error. Fixed a bug
where an ampersand in an attached file's name might not
show up in the Bookends attachment pop-up menu. Word 2004
scans work properly when the insertion point is in a
footnote when the scan is initiated (for users of older
versions, they must replace the old Bookends Word X
Template in Microsoft Office 2004 -> Startup -> Word
with the new one). Fixed some rare cases when virtual
groups could give incorrect results. Fixed a bug on Intel
Macs where colored text settings were sometimes not saved
correctly. Fixed an issue where an incomplete and invalid
doi could be obtained from an attached pdf.
NEW in Version 10.3.4
•
Scan OpenOffice 3 Writer documents
Bookends
can scan files saved in OpenDocument format (with the
extension .odt). Bookends will add the bibliography at the
end of the document or at a location of your choosing. If
set as your default word processor, Copy Citation will
switch to OpenOffice but you will have to paste in the
temporary citation yourself, because at this time
OpenOffice lacks AppleScript support.
•
Automatic downloading of pdfs works with more journals
Includes
PNAS and Cell Cycle.
•
Ambiguous citations in scanned Pages documents are shown in
context
•
Improvements in the sort “ignore” function
You
can specify that "words" ending in an apostrophe in the
first author's name or at the beginning of the title be
ignored when sorting bibliographies. This means, for
example, that if you were ignoring "L'", "L'enfant" would
sort with the "e"s.
•
Bug fixes
Bug
fixes: Importing BibTeX accented characters works with more
variations. The direction of the sorting arrow in the
"Added" column in the list view is now correct. Fixed a
problem where printing references could result in a crash
in Leopard. Fixed a bug where adding a new reference with
the list view window closed would make Bookends quit. Fixed
a problem in which footnotes in a scanned Pages document
could have incorrect sytled text offsets.
NEW in Version 10.3.3
•
Autocomplete Paper
When
you attach a pdf, Bookends will search it for a doi. If
present, and the paper can be located on PubMed or Google
Scholar, Bookends will offer to attach the pdf and then
import the reference automatically. If no doi is found,
Bookends will offer to attach the pdf to an new reference
and then autocomplete it. This option opens a dialog that
displays the pdf and provides several fields in which you
can enter information from the pdf (author, title, year,
etc.). A pop-up action menu in this dialog copies
selected text from the attached pdf to the search fields,
and in the case of authors or year will attempt to clean up
the raw text to a form suitable for submission to the
search engines. Bookends will use the information to
search PubMed, Google Scholar, or JSTOR, and give you a
list of the first 20 references that match. You can refine
the search, if necessary, until you find the reference.
Select it from the list, click on Import, and it will be
downloaded to your database and the attachment associated
with it. Note that you can also perform a Refs ->
Autocomplete Paper on any reference already in your
database that has a pdf or webarchive attachment.
•
Improvements in locating matching pdfs on the local hard
drive
•
One-click import of online search
results
In
the online search window the Import button will require one
click if only one database is open and you are not
reference surfing. Otherwise, the Import button will
present a pop-up menu allowing you to select the database
and/or whether to download and attach the current pdf/web
page.
•
Assign hypertext links to groups
Drag
and drop a group name to a compatible application (like
Scrivener, DevonThink, and TextEdit) or use the Edit ->
Copy Hypertext Link menu (which lets you copy the link as
plain text as well). Clicking on that link the application
will take you to the corresponding group in the open
Bookends database. When using a hypertext link to find a
reference or group in Bookends, the list view will be set
to show all references if it's not
already.
•
Improved remove duplicates
The
logic for automatic removal has changed slightly. Now if
two references have identical based on the match criteria,
Bookends will keep the one with more attachments. If the
number of attachments are the same, Bookends will keep the
one with the longer Notes.
•
Help -> FAQ… takes you to the Sonny Software FAQ
(Frequently Asked Questions) web page
•
Improved format Show Example
In
the format definition window, Show Example will use the
information in the selected reference if the Types match
(the reference Type and the Type selected in the format
window). If they don't match, Bookends will use default
reference information to create an example.
•
Bug fixes
Improved
conversion of smart groups from pre-10.3.2 databases to the
new format. When outputting as BibTeX, en dashes are
correctly converted to two hyphens (--). The modification
date is now updated when a reference is altered by a Global
Change operation. Fixed a problem with direct z39.50
searches failing to return accented characters correctly
even when the text encoding was set correctly. Changed the
escaped sequences for accented characters exports as BibTeX
to match those used when importing BibTeX. Fixed a rare
occurrence in which exporting references with a very large
field that contained the super- or subscript character
could cause a crash.
NEW in Version 10.3.2
•
Redesigned Find and smart group interfaces and more
flexible searches
Smart
groups saved by this version of Bookends cannot be read by
older versions.
•
Improved smart group searching of static groups
Smart
searches can be restricted to references that do or do not
belong to particular static groups.
•
Full-window integrated browser
In
the online search window, select Bookends Browser from the
pop-up menu to bring up the built-in browser in the entire
window.
•
JSTOR reference data detectors in the Bookends browser
This
means that you can use Bookends browser to navigate to
JSTOR if you have ip authentication or
username/password access and import references you find
into Bookends. The automatic pdf download from the browser
still requires ip authentication, but drag and drop import
and attaching of pdfs via the proxy icon will work with
username/password access.
•
JavaScript is enabled in Bookends browser
This
improves certain interactions on the Web of Science,
PubMed, and other sites. It is selectively turned off at
sites that are known to be problematic when JavaScript is
enabled. If you encounter a problem with JavaScript, please
contact us and provide the URL of the affected web page.
•
Database cache size settings have been moved to the .plist
If
you are upgrading from an older version of Bookends, the
database cache will be set to 8 MB regardless of what it
was previously. If you had changed that setting, you must
restore it in Preferences and then relaunch Bookends.
•
Download pdfs automatically from PLoS Biology
We have worked around an error on the publisher’s servers
that prevented this in earlier versions of Bookends.
•
Bug fixes
Fixed
a problem with some complex images in Pages that could
cause a crash when scanning. Fixed a Spotlight error that
could occur when looking for local pdfs for many files at
once. Virtual groups containing the Hits and Attachments
groups work properly. Fixed an error that could occur when
importing a COinS reference and the doi was not supplied.
Fixed a bug that could in some circumstances cause an
attachment to be assigned to an apparently random reference
instead of a new empty reference.
NEW in Version 10.3.1
•
Web page reference metadata detectors
When you use Online Search and reference surf to a web
site, Bookends will automatically detect the presence of
embedded reference metadata. You will be alerted by the
appearance of a green icon that, when clicked, will present
a list of the references. Check the references you want to
import (Bookends will offer to import the assocated pdfs,
too, if it can find them). Web sites that embed such
reference information include CiteULike
(http://www.citeulike.com), Copac (http://copac.ac.uk/),
and OCLC's Open WorldCat (http://www.oclc.org/worldcat).
These sites are automatically added to your Bookends
bookmarks list.
•
Embed reference metadata in Bookends
bibliographies
If
enabled in Preferences, Bookends will add COinS
(ContextObject in Span) reference information to
bibliography files generated as HTML, or bibliographies
that are delivered dynamically by Bookends Server. This
means that anyone who accesses bibliographies on your web
site or Bookends server will be able to see and download
the references if they are using a browser that can detect
COinS, for example Firefox
(http://www.mozilla.com/en-US/firefox/) and the free Zotero
plug-in (http://www.zotero.org/).
•
Automatic pdf download from Web of Science with one
click
Check
"Download pdf" in the Online Search window and use the
Import pop-up menu or drag and drop the reference(s) onto a
Bookends database window (access privileges required).
•
Open a reference's full text or pdf in the Bookends
browser
In
the Online Search window, double clicking on a reference
will open the reference's full-text (if available) in the
built-in Bookends browser (reference surfing). If you want
to open it in your default browser, hold down the Shift key
when double clicking. This works with PubMed, Web of
Science, Google Scholar, JSTOR, Amazon, and arXiv.
•
Use File -> Go To URL to access any web site in the
Bookends browser
When the Online Search window is in front, File -> Go To
URL will use the Bookends browser to display the web site.
Hold down the Shift Key to force the default browser to be
used.
•
Improved importing from Google Scholar
When using Online Search with Google Scholar, Bookends will
attempt to locate and import the most complete information
Google Scholar offers. If no additional information can be
found, Bookends will import the information available on
the web page. Note that if you import by drag and drop
(rather than with the Import pop-up menu) Bookends will
import the information from the web page. The Google
Scholar import filter is now obsolete.
•
The Online Search "download pdf" setting is remembered
between launches
•
Import references from a text file by dropping the file
onto the Bookends icon in the dock
•
Bug fixes
Fixed a bug where the online search window would open when
an automated PubMed search was performed. Fixed Amazon.fr
searches to ignore accented characters. Em dashes in
temporary citations are handled properly during a scan.
Improvements in unscanning Word 2008 documents. Fixed
several problems with scanning of Pages documents, one
which could cause the scan to abort with a error message.
Find/replace correctly finds the return character (¬) if
it's in the search string.
NEW in Version 10.3
•
Google Scholar Online Search
•
Download pdfs from JSTOR with one click
Check "Download pdf" in the Online Search window, then use
the Import popup menu or drag and drop the reference(s)
onto a Bookends database window (access privileges
required).
•
The Get PDF menu option searches a broader range of
sources
If the reference contains a PMID Bookends will search
PubMed. If there is a stable JSTOR link in the URL field
Bookends will fetch the pdf from JSTOR. If neither are
present but there is a an entry in the doi field, Bookends
will use that to locate the pdf.
•
Automatic download of a reference information from Google
Scholar when attaching a pdf
When attaching a pdf that contains a doi, Bookends will
search PubMed and then Google Scholar, and offer to import
the reference information if it is found on either site.
•
Automatic database synchronization (Auto
Sync)
In the Sync -> Configure menu you can tell Bookends to
sync your database automatically on database open, database
close, or both. Regardless of these settings, you can
always perform a manual sync whenever you want.
•
Improved handling of Ibid.
When Ibid is called for in a footnote, any cited pages
following will be suppressed if the previous reference used
the same cited pages
•
You can tell Bookends to create a Subject Bibliography when
initiating a document scan
•
The List View groups pane has a permanent listing named
Attachments
This group will show all references that have at least one
attachment.
•
Smart searches can be restricted to references in one or
more static groups you specify
•
DOIs will appear in the Concise View as active hypertext
links to the article
Requires access privileges.
•
Calculate an author's h-index (Hirsch number)
After performing an Online Search of the Web of Science or
Google Scholar, you can have Bookends calculate the h-index
of the selected references. A discussion of the h-index,
and its limitations, can be found here:
http://en.wikipedia.org/wiki/Hirsch_number
•
Copy Citation will work with Nisus Writer Express and Pro
on non-English systems
Requires NWE 3 or NWP 1.0.1 or later.
•
If BibTeX styling is selected for formatting, smart closed
quotes will be output as '' (two apostrophes)
•
Bug fixes
Dragging and dropping Safari proxy icons for links that
have "pdf" at the end onto a Bookends database window will
result in an offer to attach the pdf. Attaching files using
the reference window attach button work again. Remove
duplicates no longer makes mistakes when there is very
little text to be compared. Fixed a problem with JSTOR
where an empty reference would cause Bookends to hang.
Fixed several formatting issues with using Unicode "thin
spaces" in references. Fixed a bug when searching the local
hard drive for pdfs that would bring up the Online Search
window if more than one pdf matched. Fixed a problem where
the BibTeX enable checkbox in preferences was unresponsive.
When attaching a pdf and downloading the source from the
Internet, the rename option will be honored. Fixed a bug
that could cause the wrong reference window to come to the
front when replicating a reference in a group as a book
chapter. Modified the EndNote XML import parser so that a
journal full title, if provided, will be imported instead
of the secondary title. Fixed a bug where text entered in
the reference window drawer enlarged view might not be
saved.
NEW in Version 10.2.1
•
Reference surfing
Online Search contains a WebKit-based browser. After
searching for references on web-capable sites (such as
PubMed, Web of Science, JSTOR, arXiv, and Amazon) you can
toggle the reference view from Text to Web. The built-in
browser will take you to the reference on the web site,
where you can navigate to the full text article or pdf (if
available and you have access privileges). You can import
the reference information and web pages/pdfs directly into
Bookends with a click on the Import button. You can also
attach the web pages/pdfs to an existing reference by drag
and drop onto a Bookends database window (or save to disk
by dropping on the Finder). Right-clicking on the web proxy
icon brings up a contextual menu that lets you create a new
empty reference and attach a web page/pdf, or attach the
web page/pdf to a newly created Internet reference in which
the title, URL, and date and year accessed are
automatically entered. A URL field in the Online Search
window lets you navigate to pages at any site you choose,
where you can obtain pdfs or save the web pages. When the
Online Search window is in front and the URL field is
enabled, the File -> Go To URL menu will use the Online
Search browser instead of your default browser. Note: the
pdf download/import will not work if the Adobe or Schubert
pdf plug-in is installed.
•
Live web pages/pdfs in the List View
You can copy text from pdfs attached to references, and
hypertext links in attched web pages are live. A toggle in
the Action pop-up menu lets you display pdfs with WebKit
(links active, text selectable) or in the Bookends pdf
viewer (links inactive, text not selectable).
•
Copy selected text from an attached pdf/web page to the
reference
If you are using WebKit to display pdfs, select text and
use the Action pop-up menu to "Copy selected text to" any
field. If the field is authors or editors, Bookends will
attempt to parse the names, assuming that they are surname
last and separated by commas. Limitations: Bookends will
remove non-letters from the names (e.g. superscripted
numbers specifying footnotes), but will not remove
superscripted letters. Also, pdfs often have spurious
characters (often spaces) that you can't see but that are
copied to the clipboard. Bookends will not remove these.
•
Attach a file to a new empty reference
If you have pdfs with no corresponding reference
information, you can choose to have Bookends create a new
empty reference and attach the pdf to it.
•
Searching JSTOR works again
This was broken by changes made in the JSTOR gateway
•
A BibTeX @collection reference will be imported as an
Edited Book Type
•
Improved Change Case
Global Change -> Change Case -> Title Case will
uppercase words that begin with punctuation (e.g. quote
mark, bracket, etc.).
•
Color labels can be displayed and edited in the concise
view pane
•
Book images obtained from Amazon will always be the highest
quality available
•
Highlighting of a drag to a static group is much more
obvious
•
Import article numbers from Web of
Science
Some journals covered by the Web of Science use article
numbers instead of page ranges. These are now displayed in
the search window and imported to the Pages field in
Bookends (using the AP tag). The doi for such articles, if
present, will also be resolved properly.
•
Press Command-S to save an edited import
filter
•
Don't
Change Case can be applied to words containing
hyphens
This means that words like X-ray can be added to the Don't
Change Case list.
•
The virtual "issues" field can be used with the binding
command in a format
•
The User16 field for Journal Articles is now used to store
the PubMed Central ID number
This field has been renamed PMCID. The PubMed import filter
has been modified to import the PubMed field containing the
PMC into PMCID. If you have an older version of Bookends
and renamed the User16 field for Journal Article, your
label will be left intact.
•
Bug fixes
Fixed several problems with Word 2008, including failure to
remove an old bibliography when unscanning, unintended
substitution of accented characters that followed a
citation, and failure to recognize control characters like
% or * or unicode characters immediately after the opening
citation punctuation. Invoking the Word 2008 Scan and
Unscan AppleScripts works when the cursor is placed in a
footnote. Control-Command-1, 2, and 3 now corretly changes
the label in the reference window rather than changing the
tab selection. The items in an attached Mellel or Pages
document bundle will not be listed in the attachment pop-up
menu or in the list of subfolders in the attachment dialog.
Fixed a bug that prevented Bookends from importing an
existing bibligraphy if the references were preceded by
numbers. PDFs imported from a browser by drag and drop will
be renamed correctly. Fixed a problem in which a temporary
citation without a closing citation delimiter (such as a
curly bracket) would cause Bookends to abort a Pages scan.
Fixed a problem where scanning of some Pages documents
could result in truncated citations. Fixed an out of bounds
error that could happen when opening a database created
with a version of Bookends prior to 10.1.4 and selecting an
unused Type of 11 or higher when creating a reference.
Fixed a problem where replicating a book as a book chapter
would open the wrong reference window if the list view live
search box has text in it. Fixed a bug in which two
citations containing a year and distinguishing letter would
be incorrectly grouped when "Letters for repeated years"
was checked in the format. Fixed a bug in Online Search
where the filter in the Bookends/Import Filters folder
would be used even if there was a filter with the same name
in the Custom Import Filters folder. Fixed SRU search for
the British Library (broken in the last update by changes
made to accomodate JSTOR).
NEW in Version 10.2
•
Apple Pages '08 compatibility
Bookends can scan Pages '08 files and replace temporary
citations with final citations. Use the Biblio -> Scan A
Document menu, select a Pages '08 document, and then scan.
A new Pages document will be created, and after the scan is
completed it will be opened in Pages and the formatted
bibliography pasted in (either at the end or or a location
you have indicated by entering "" in the document). If
there is an AppleScript error during this phase, you can
still perform a manual paste to place the bibliography
where you want it. If the final citation contains styled
text (e.g. a superscripted number or a custom citation as
in a footnote), the font will be the default font for the
text element. You can change this for one or all elements
in the document by using the Pages '08 Styles drawer.
Although Bookends can scan Pages documents saved with track
changes active, the results may be unpredictable and it is
strongly recommended that you turn off track changes and
then save the document prior to a scan.
•
Scan RTF documents saved from Scrivener that have accented
characters
•
The enlarged view in the reference window has a Cancel
button
•
Copy/paste a bibliography honors hanging
indents
If a bibliography with a hanging indent was sent to the
Bibliography window, the hanging indent will be preserved
when you copy and paste it into a word processor.
•
Find/Replace in Term Lists finds terms with
punctuation
•
Files lacking file type metadata but having the extension
.cgi will be recognized as text files when you
import
•
Import to Hits List default behavior has
changed
In the Online Search window, if Import to Hits List is
checked Bookends will add the imported references to the
current hits list. If you want to have Bookends clear the
hits list first so that the hits list contains just the
more recently imported references, hold down the Option key
when clicking on Copy To button or dragging and dropping
the references to be imported.
•
The Nisus Writer Pro/Express "Scan a Doc" macro works on
non-English systems
This requires NWP 1.0.1 or NWE 3.0. Prior versions will
generate an error.
•
Shift-Command-O opens attached files when the reference
window is in front
•
A static group's name will temporarily highlight when a
reference has been added with Command-#
•
Bug fixes
Fixed a crash that occurred when formatting a references
whose journal name was > 255 characters. Fixed a problem
with the incorrect reference being copied when using the
Copy Hypertext Link menu with a format. dFixed a rare crash
that could occur when some pdfs were attached and checked
for the presence of a doi. It is once again possible to
undo a paste into an empty reference field. Fixed a rare
crash that could occur if an author's name had a comma
followed by numbers. Fixed an error message that occurred
when editing a reference in the list view while the Notes
field was displayed in one column.
NEW in Version 10.1.4
•
Term List enhancements
There is an action button that contains the following:
Insert, Find…, Save…, Replace…, Update, and a boolean
setting that tells Bookends what to display when multiple
terms are selected (AND/OR). Right-click in the term list
to see these options as well. The option "Replace" is the
same as performing a Global Change -> Find And Replace
on the entire database, but with fewer options. The
advantage it offers is convenience if you simply want to
correct a misspelling in a term or want to normalize the
spelling of a term, such as a journal name.
•
The minimum widths for the reference and list view windows
is smaller
This may useful if you are using a Mac with a small screen,
such as an iBook.
•
Ten more unused reference Types have been
added
The total number of Types you can assign is 20.
•
Spotlight searches in Leopard are
case-insensitive
This makes Spotlight searches in Leopard behave as they did
in Tiger.
•
Better handling of "Ibid." in footnotes
If Ibid. appears in a series of references in a footnote,
the trailing period will not be removed before the
separating comma or semicolon.
•
Boolean NOT searches are much faster
•
Phrases can be entered in the "Don't change case"
list
Bookends will accept phrases in the list of words whose
case should not be changed when using Sentence case or
Title Case. This means proper nouns like American
Revolutionary War Society can be entered and the case will
be preserved.
•
Search for references edited within a defined
interval
In the SQL/Regex search box enter the following
dateModified > datediff( now(), '01/01/1904 00:00:00',
'second' ) - (X * 24 * 60 * 60)
where X is the number of days prior to the present you want
to retrieve. For example,
dateModified > datediff( now(), '01/01/1904 00:00:00',
'second' ) - (7 * 24 * 60 * 60)
will find all references edited in the last week. This
includes references entered manually, as well, but not
references added to the database by importing and never
edited. This can be saved as an SQL smart search.
•
Pressing Command-M in a Term List will add/remove the
selected references to/from the hits
list
•
Bug fixes
Fixed a bug that caused incorrect subject bibliography
output if a format that didn't sort references was used.
Fixed a bug in subject bibliographies where styled text
runs could be correctly offset if there were non-ASCII
characters in the format. Fixed a problem in which scanning
Word 2008 files and not saving citations as hidden text
resulted in the bibliography not appearing at the end.
Fixed a problem with Word 2008 where some documents would
not unscan. Fixed a problem in Bookends Server that would
prevent the default.html page from being found. Fixed a
crash that could occur if the styled text information for a
reference was mangled. When a database is rebuilt, the last
modification date of each reference is retained.
Consecutive spaces in an custom citation format will be
reduced to one space, just as it is for bibliography
entries.
NEW in Version 10.1.3
•
Word 2008 compatibility
A Bookends hierarchical menu under the Word 2008 menu
Script icon contains five scripts: Find In Bookends, Go To
Bookends, Insert Citation, Scan Document, Unscan Document.
They provide the same functionality as the corresonding
options in the Tools menu of earlier versions of Word. You
can move these scripts out of the Bookends hierarchical
menu and/or rename them, and they will still work.
•
Update to future versions of Bookends automatically using
Sparkle
This means that updates will occur automatically and will
not require you to move files or folders manually.
•
Directly search Web of Science
You can search the ISI Web of Science via Online Search
(requires access privileges and ip authentication). You can
search any Web of Science database edition for which your
institution has a license: Science Citation Index, Social
Sciences Citation Index, Arts & Humanities Citation
Index, Index Chemicus, and Current Chemical Reactions.
•
Import PubMed references dragged and dropped from a
browser
This was broken in earlier versions by changes made in
PubMed.
•
Column width settings for Online Searches are remembered
between launches
•
Improved algorithm for correctly oriented pdfs that were
scanned in
•
Bug fixes
The unique id is preserved when a reference is exported to
a tab-delimited text file and then imported to a new
database. The Biblio -> Default Format menu now updates
correctly when formats are checked or unchecked in the
Formats Manager window. Performing an automated PubMed
search no longer generates an error. Fixed a bug where
adding/deleting Types in a format would fail. Fixed a
problem with MLA bibliographies where a letter would be
appended to the year if there were two or more citations
from the same author. Fixed a crash that occurred when
creating a formatted reference where a field had more than
32K characters. Fixed a crash that occured with using only
the Source parser to import references and the reference
was followed by a return character.
NEW in Version 10.1.2
•
Sync databases
Synchronize Bookends databases across a network or the
Internet. Sync can be configured to work for individuals
who use Bookends in more than one location as well as
groups that want to sync personal databases with a master
copy. Sync will keep references (additions, deletions, and
modifications) and groups up to date. Individual sync
options will be shown before they are performed and can be
denied on an ad hoc basis. Ancillary files, such as
attachments, must be synchronized separately.
•
Enabled formats and filters are remembered after a Bookends
update
The list of formats and filters you have enabled is stored
in preferences and won't be reset when you upgrade
Bookends.
•
Replicate As Book Chapter is enabled for Conference
Proceedings
•
Duplicating a reference is faster when the unique id is in
a numeric sequence
•
The date and time of duplication will be used as the date
added for duplicated references
•
Improved show example for formats
If the example drawer in the format window is open, it will
automatically update when you switch references in the List
View.
•
More versatile bibliography sorting
You can specify that citations in a group can be sorted or
not for both author-date and custom citation formats.
•
Improved Amazon searches
Bookends will remember the Amazon search category (Author,
Title or Keywords, etc.) between launches. Amazon searches
for 13 digit ISBNs work.
•
The ability to sort the physical order of references in the
database has been removed
•
Bug fixes
Fixed a bug that prevented non-pdf images from being
displayed in the list view. Updated the JSTOR import filter
so that it downloads references properly. Fixed a bug in
the info pane where pressing the return key in a field with
a term list would enter two returns. Fixed a bug in the
format examples where "Journal of Biological Chemistry"
would be used for the full title even if a reference was
selected. Double-clicking on a Bookends database with the
extension .bdb will open it in Bookends regardless of the
file type metadata. Retrieving a reference from PubMed when
attaching a pdf works in Leopard. The punctuation after the
last author that is ouput will be suppressed when using "et
al.".
NEW in Version 10.1.1
•
Perform online searches of SRU-compatible
libraries
New import filters have been added for JSTOR, British
Library, and COPAC. Simple searches treat spaces like a
boolean AND. To look for phrases, enclose them in quote
marks. If "boolean search" is selected, the entries in one
of the three fields are treated as if they are within quote
marks.
•
Perform online searches of arXiv
arXiv (http://www.arXiv.org) is a premiere open access site
for e-prints in physics, mathematics, computer ccience,
quantitative biology, and statistics.
•
Smart attachment folders
You can attach folders to a reference. Bookends will list
all the items in the attached folder and you can select any
to view, reveal in the Finder, etc. Any files added to the
folder in the Finder are automatically made attachments
(and if you remove a file from the folder it is no longer
treated as an attachment). Attachments in such a folder are
one level deep (that is, a subfolder in the attached folder
will be shown, but not any files in it). If you add/remove
files from an attached folder, the list view will need to
be refreshed to see the change (just click on the reference
is sufficient for this).
•
Searches ignore diacritics
For example, searching for "Schütz" will find both "Schütz"
and "Schutz". The exception is a Find search by character,
in which case searching for "ü" will not find "u". This
applies to all new databases you create. You must Rebuild
(Keep User Info or not) databases created with prior
Bookends versions to have diactric-insensitive searches.
•
More versatile example display in the Format
Manager
Clicking on the Example button will use the information
(authors, title, etc.) from the reference window (if open)
or the first selected reference in the List View (if open).
If neither are open, default example information will be
used. The example will update automatically when a
different format is selected. Pressing Command-E when the
formats manager is in front will toggle the example pane
open and closed.
•
Replicate as Book Chapter works with Book as well as Edited
Book
•
Sending attachments with e-mail works in Mac OS 10.5
(Leopard)
•
Hypertext links in the display pane in the Online Search
window are live
•
Improved handling of non-Roman characters in Live
Search
•
Improvements in Spotlight accuracy when matching references
with local pdfs in Mac OS 10.5 (Leopard)
•
Bug fixes
Fixed a bug where sorting on the Added column in the List
View could cause an SQL error. Fixed a nil object error
when editing a reference with the List View closed.
Bookends cleans up HTML entities from attachment names when
importing XML from EndNote 9. Fixed a bug where the
appearance of some pdfs would be incorect on PPC Macs. For
the unmatched or ambiguous list after a scan, the type
ahead function works even if an author's name begins with a
unicode (accented) character. Fixed a bug in subject
bibliographies where style runs in the first reference
could be offset incorrectly. Edit -> Special Characters
now works on Intel Macs. Fixed a bug that caused an error
when importing references from Bookends 7.x that had fields
with non-Roman characters and styled text.
NEW in Version 10.1
•
A highly configurable, interactive, and editable concise
view
Two views, Summary and All, let you view the fields you
want in the List View. These views are "live", meaning that
you can click on the fields to edit them, assign ratings,
go to linked URLs, and more.
•
Display up to seven columns in the List
View
•
Redesigned Import Filter and Formats Manager
windows
These windows have a unified look, with a list of
filters/formats on the left and the settings on the right.
•
Text in a reference window tab indicated with an
asterisk
In the reference window, an asterisk will be appended to
the Notes or Keywords tab caption if that field contains
text. This allows you to see if the field has information
while you are viewing the main tab.
•
PDF orientation corrected if necessary
The List View display pane will always show a pdf in a
readable orientation even if it was scanned in as a
vertical image.
•
PDF viewer will skip damaged pages
It will write a message to the Console telling you which
pages it couldn't read.
•
Improved DOI lookup from PDFs
Bookends works with more pdfs (for example those from PNAS
and J Exp Med) to locate the citation information on PubMed
when they are attached.
•
Automatic proxy server configuration
Bookends gets the HTTP proxy server and port information
(if any) from System Preferences. If you are using an
authenticating server, you still need to enter you user
name (id) and password in Bookends Preferences, Internet
tab.
•
Smarter Global Change
When doing a Global Change -> put after, if the word
being inserted begins with a return character, the return
will be suppressed if the receiving field is empty.
•
Include the list of static groups a reference belongs to in
a formatted reference
•
Upload to Refbase using either XML or RIS
output
•
Replicate as book chapter is enabled when the List View is
in front
•
Bookends will offer to move format or filter you delete to
the Trash
•
Improved BibTeX escaping of reserved and accented
characters
•
References exported as XML retain full links to
attachments
This means that if you import these into EndNote 9 or later
the attached files will retain their links.
•
Bug fixes
Bookends will recognize attachments with the extension
".htm" as html files. Fixed a bug where Find PDF on the
local drive would result in a list of possible hits but no
pathnames visible. Fixed a bug where a new, not upgraded,
Bookends Preference file would list duplicated column
options for the List View. Fixed a bug where accented
characters in the subject bibliography subject lists were
not rendered properly. Fixed a bug where importing styled
text from an EndNote 7 XML export file could cause an error
on Intel Macs. Fixed a bug where a find/replace restricted
to a field in the main tab could also finding matching text
in a drawer field. Fixed a bug where the new name of a
renamed SQL smart group wasn't shown. Fixed a bug where
sorting by date added didn't work. Fixed a rare bug where a
global change -> insert for a large number of references
could corrupt the database. A cosmetic bug in which the
List View fields could be drawn on top of one another after
a rebuild was fixed.
NEW in Version 10.0.3
•
View attachments in a tab in the reference
window
A pop-up menu at the bottom of the window lets you switch
between multiple attachments. A contextual menu lets you
manipulate the attachments.
•
More versatile display of attached files
Bookends can show the textual contents of attachments of
many different file types: .doc (Microsoft Word), Mellel
(XML), RTF, RTFD, Nisus Writer, and HTML. The display
contains the main body of the text only (no text styles or
images, and in the case of Mellel no note streams or
footnotes). The Bookends Spotlight search will find text in
these attachments if they are in the default attachments
folder (or subfolders). Note that to find Mellel file
attachments you must have installed the Mellel Spotlight
plug-in. PDFs and images can be zoomed up to 300%.
•
Improved Remove Duplicates
If two duplicates are indistinguishable, the older one (the
one with a lower sequential number) will be marked for
deletion. The manual verification shows duplicate
references side by side. Only fields that have information
(in either reference) will be shown, and any fields that
differ will be highlighted in red. Field names will be
preceded by a clickable symbol. When clicked, a dialog
containing that field from both references will allow you
to copy/paste or drag and drop text from one to the other,
so that you can merge the reference information into one
reference and then mark the other for deletion. Navigation
arrows let you move amongst duplicate pairs, or you can
click on particular references to examine.
•
Compare references
If more than one reference is selected in the List View,
you can use Refs -> Compare References to view the first
two selected references side-by-side in a new window. Only
fields that have information (in either reference) will be
shown. In this window you can move between references using
a stepper control or enter the numbers of the references
you want to compare. You can mark/unmark the references in
this window to add/remove them from the hits list, and
assign ratings. Field names will be preceded by a clickable
symbol. When clicked, a dialog containing that field from
both references will allow you to copy/paste or drag and
drop text from one to the other.
•
Show PubMed references you already have
When doing an online PubMed search, Bookends will highlight
in yellow any retrieved references that are already in your
database (determined by matching PMIDs). The database must
be open. If more than one database is open, Bookends will
examine the database nearest to the Online Search window.
•
Bookends will refuse to open a database located in the same
folder as itself
This is done so that users won't inadvertently delete their
databases when replacing the older with the newer Bookends
Folder when upgrading Bookends.
•
Switch to a linked word processor with a menu
command
•
Don't clean up consecutive spaces in formatted
references
This format option tells Bookends to allow runs of spaces
in a formatted reference. This is useful, for example, for
formats like RIS that require two spaces between each field
tag and the following hyphen.
•
Z39.50 Default connections assume returned text is encoded
as UTF-8
•
Deleting a reference in the reference window has been
simplified
•
You can delete references when a smart group is
selected
•
The List View window title is the name of the
database
•
Bug fixes
Fixed several cosmetic bugs where the width of the keywords
or notes field in the main tab could be wider than the
reference window, or the width of the keywords field in the
second tab could be too narrow. Multiple OpenURL servers
are now shown correctly in the list view contextual menu.
You can now open attachments with long names via the
display pane contextual menu. Fixed a problem where
incorrect styled text data could result in a nil object
error. Fixed a bug where creating a new reference when
there was text in the live search box and one of the
columns contained reference numbers would open a new
reference window with text already entered from another
reference. Edited styled text with unicode characters in
the Notes field tab is saved correctly. Fixed a bug where a
Mellel verify scan using a format with styled text to
replace temporary citations would result in the RTF
formatting commands being embedded in the citation object.
Changes to the pdf zoom value using the contextual menu are
now saved.
NEW in Version 10.0.2
•
Configurable display of keywords and
notes
The reference window can be configured to display the notes
or the keywords in the main tab (set in Preferences).
•
Scan .rtfd documents exported from Pages
'08
This means that even if you have graphics embedded in your
Pages file it can be scanned by Bookends (export it from
Pages as "rtf"). Note that graphic placement may be altered
by exporting/importing as rtfd, and certain metadata such
as track changes and comments will not make the round trip.
•
Lookup from DOI
If the selected reference has a doi, this menu option will
open your browser and go to the address pointed to by the
doi resolver at http://dx.doi.org/.
•
Update references listed on Pubmed
If the selected reference(s) has a PMID entry (either in
the drawer or in the URL field), selecting the menu Refs
-> PubMed -> Update From PubMed will fetch the
reference again from PubMed. If the information in any
field you are importing differs from the current entry, the
newer information will replace the old. Fields that aren't
identified in the PubMed import filter will be untouched.
This is useful if you import pre-publication reference
information from Pubmed and want to update the record once
the paper is published. It also means that if you enter
just the PMID, Bookends can download the entire reference
for you.
•
Choose the application to open an attachment
on-the-fly
Open an attachment in any application that can handle it by
dragging and dropping the image from the display pane onto
the application icon in the Dock or in the Finder.
•
Manipulate an attachment even if its contents cannot be
displayed
You can drag and drop, open with a double-click, or right
click to open a contextual menu a attachment the display
pane whose contents cannot be displayed (e.g. a Word .doc
file).
•
Improved list view updating
If the reference Type is shown in a List View column, it
will be updated immediately if the Type is changed in the
reference window.
•
Rename local pdfs on Find & Attach
If this Preferences option is checked, Bookends will rename
the pdfs found with Get PDF -> local hard drive as
specified in the popup menu (by author date or according to
a format).
•
The default status of the "rename attachment" option is
remembered between launches
•
The PubMed filter distributed with Bookends imports the DOI
(digital object identifier), if
available
•
Output reference ratings in a
bibliography
The letter to use in the format's order field is 'r'. The
result will be 0 (unrated) to 5.
•
Bug fixes
Shift-Command-U opens the correct URL when two or more
databases are open. Editing the keyords in reference window
no longer causes a subsequent Command-W to close the List
View window. Fixed a bug in which a new Bookends 10
Preferences file (not an upgraded file) would not remember
certain settings between launches. BibTeX acronyms in the
title will be completely surrounded by curly brackets (if
elected in preferences) even if they are the last word in
the title. Fixed a bug in which importing references with
extremely large abstracts could cause the import process to
stop. Corrected a situation where a graphic attachment with
the file type incorrectly set to TEXT would be opened as a
text file in the Attachment Inspector. Journal Glossaries
created on Intel Macs now have the file type set correctly.
Fixed a bug where invoking Quit with a reference window
open just closed reference window but did not quit. Fixed a
bug where outputting authors in Small Caps in styled text
could create a RTF file that couldn't be opened by a word
processor. The "Reveal in Finder" contextual menu in the
display pane now finds files with very long names.
NEW in Version 10.0.1
•
Bug fixes
Fixed: sorting the Date Added column didn't work and could
cause an error when adding references with the column
selected. Fixed: bibliographies can be sorted again. Fixed:
the keyboard shortcut for OpenURL is shown only once even
if there are multiple OpenURL servers. Fixed: a bug in
Subject Bibliographies that could result in an out of
bounds error. Subject bibliographies can now be sorted.
Fixed: the size of the display pane is remembered between
launches, as is the size and position of the List View if
it was closed while maximized. Fixed: automated PubMed
searches work again. Reference files created with a
"Bookends" export are selectable in the Import References
Get File dialog. An attached pdf or image file can be
opened by double-clicking on it in the display pane. Fixed
a bug where spurious characters would be output if a title
began with a smart quote and the format called for Title
Case (like Chicago 15th).
NEW in Version 10
•
Bookends 10 requires Mac OS X 10.4 (Tiger) or
later
•
Revamped user interface with integrated pdf/image/text file
viewer
The List View contains four panes, three of which can be
open or closed (they can be toggled with icons, a View
menu, or the keyboard). The panes are: groups, references,
info (concise summary or Notes), and display (formatted
reference or pdf/image/text file attachments). PDFs in the
display pane are shown in their entirety, and can be zoomed
or scaled to fit. The reference window has a tabbed
interface. The main page contains most fields, including
resizeable Abstract and Notes. The second tab contains
Keywords, and the third has an enlarged Notes field. You
can select the tab with the mouse or keyboard (Command-1 =
main, Command-2 = keywords, Command-3 = notes).
•
Direct Z39.50 access to online libraries
Access libraries using UNIMARC or OPAC. Text encoding can
be specified, allowing accurate retrieval of accented and
non-Roman characters from many non-English sources. Direct
Z39.50 access supports userid/password and proxy servers,
but not an authenticated proxy servers. The Library of
Congress gateway is available if an authenticated proxy
server support is needed.
•
Two new user-defined fields
Default values are DOI (Digital object identifier) and, for
journal articles, PMID (PubMed ID). DOI has been added as a
criterion in the advanced PubMed search.
•
Reference ratings
Ratings, from none to 5 stars, can be set by clicking on
the rating icon in the reference window, or in the List
View with the action button or a contextual menu.
•
Subject bibliographies
In a subject bibliography references are grouped under a
subject heading. Subject bibliographies can be made for
references in the hits list based on any of these criteria:
authors, editors, authors and editors, journal, keywords,
reference type, color label, or static group.
•
Direct export of references to Refbase
Refbase is an open source online reference repository.
Bookends can automatically upload references to Refbase.
Refbase can be searched via a browser, and references
downloaded as files and imported into Bookends or any other
reference management application. The Refbase organization
has created a public Refbase server for Bookends users. In
addition, any institution can install their own (free)
Refbase servers for internal use.
•
Add references to Bookends databases via Bookends
Server
Remote users can upload references to a database by
submitting them in a tagged format that a Bookends import
filter can parse (e.g. RIS, PubMed, EndNote Refer, BibTeX,
etc.). An example web page that demonstrates several very
flexible techniques to do this is included in "Serve a
Bookends database in 5 minutes (or less)".
•
Send a text file containing references to others via
Bookends Server
You can have Bookends send the results of a remote search
to a text file. This allows you to send reference in a
tagged format (like RIS or EndNote Refer) that remote users
can import into their reference manager. A format to output
RIS files is included.
•
User-defined attachment names
The suggested name for a Bookends attachment can be
author-date or defined in a format.
•
User-defined temporary citations
You can cite by Content, Author/Date/unique ID, or any
format.
•
User-defined hypertext link text
You can use the title (default) or define the visible
portion of a hypertext link that you create in Bookends via
drag and drop or copying to the clipboard.
•
User-defined Concise View
The concise view in the List View info pane can be the
default provided by Bookends or contain information
specified by any format.
•
Append letters-only to repeated dates
For author-date citations and repeated authors, you can
tell Bookends to output repeated years and distinguishing
letters (2006a, 2006b) or simply the letters (2006a, b).
•
Improved Word and RTF document scanning
Bookends will consider adjacent temporary citations to
belong to the same group. For example, {cite1}{cite2} is
the same as {cite1; cite2}. If any characters or style
changes occur between the citations they will be treated as
different goups.
•
Open URL is a hierarchical menu
This allows quick access to your favorite web sites. If you
have entered a URL for Refbase in Preferences, it will
appear in the Open URL list as well.
•
Import tagged information into two
fields
•
Omit authors from final citation
If the first character of a temporary citation is a -
(hyphen or dash, such as {-author, date, citation info}),
Bookends will omit the authors (or editors) from the final
citation. When used with an author-date format, this is
identical to using a % (show date only). When used with a
custom citation format, all the elements in the final
citation will appear except authors/editors.
•
Use Spotlight for attached pdfs or text files when doing a
Find or searching with a smart group
Bookends will look for pdfs that match the query and are in
the Bookends attachments folder (or subfolder). The results
of this search are combined with any other criteria in the
Find or smart group dialog.
•
Spotlight searches are faster
•
Improved BibTeX output
Acronyms in the title can be output between curly brackets
to preserve their case, e.g. {DNA}.
•
Display the date a reference was added in the List
View
Sorting of this column is by the date.
•
Bookends will offer to rename attachments even if they are
not moved to the attachments folder
•
Set the format for Inserted Date
Use System Preferences setting or yyyy-mm-dd
•
Bookends will automatically check for and alert you of new
versions on launch
•
User-defined fields have a maximum of 2044
characters
•
The text used to substitute for repeated authors can be
styled (italic, bold, etc.)
•
Improved bibliography sorting
If all the sort fields are the same (i.e. author, editor,
title), Bookends will order them as they are entered in the
database
•
Automatic backup is turned on by default when the
Preferences file is first created
•
Internet Search has been renamed Online Search and moved to
File. Utilities is now Extras
•
Use Command-1 through Command-8 to select the corresponding
tab in Preferences
•The
Attachment Inspector will display the text at the beginning
of a text file
The encoding will be set that that specified in File ->
Import Text Encoding at the time the file is shown
•
A text file dropped on a window with the Command key held
down can be attached
•
More than one OpenURL server can be stored and accessed
with OpenURL Search
•
Bookends will show all files if the Shift key is held down
when telling Bookend to import from a
file
This allows you to select text files downloaded from the
Internet that lack the usual identifiers (like a .txt
extension).
•
Bug fixes
Bookends will not append a letter to "In press" in a
reference in a bibliography if there are two "in press"
citations by the same author. Fixed a bug where moving a
database between two computers with two monitors each, in
different configurations, could result in the reference
window opening off-screen. Double-clicking on a PubMed
reference in the Online Search window takes you to the full
text in your browser (if available). Fixed a bug in which
the Bookends Spotlight search would fail to find
attachments whose name contained certain punctuation
characters. Fixed a problem where a damaged or inaccurate
Mac OS X Spotlight index could cause Bookends to report an
error when doing a Spotlight seearch. When you export a
reference directly from Papers to Bookends (File ->
Export), the location of an attached PDF is imported into
Bookends. When performing an OpenURL search for a book
chapter, the volume title is used instead of the chapter
title. Fixed a bug in some Preferences updated when moving
from Bookends 8 to Bookends 9 which would prevent Bookends
from finding attachments outside of the default attachment
folder. Fixed a bug where a new reference displayed the
information from an existing reference when it was created
as part of a static group and the Live Search textbox had
text. Fixed a bug where the last letter of a custom
citation ending in a quote mark could be removed when using
cited pages.