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News

version 1.05n 18-May-2022

.avi files could not be marked with newer versions of ImageJ: this is fixed

version 1.05i 08-Apr-2021

Improved ObjectJ>Project>Update ObjectJ command

version 1.05h 01-apr-2021

Changed ObjectJ> Plot> Handle Objects in ROI

ObjectJ> Plot> Add Error Bars to Plot can be limited to current ROI width

ObjectJ macro shortcuts are now ignored when ctrl-key is down

Fixed the problem that ObjectJ Tools could not be un-docked

No "save changes of embedded macros" after installing them

ObjectJ>Project>Update ObjectJ did not work with closed project: this is fixed

version 1.05g 4-feb-2021

new ObjectJ update command

ObjectJ Results window is closed after ojInitColumn

added offPoint method to vertexCalculator

version 1.05f 18-jan-2021

Removed trailing zero-length segments in closed-shape items

Added macro funcion ojDeleteItems(itemName)

.avi files are accepted as linked stacks if virtual flag is on

"Save Project?" dialog is now avoided if nothing was changed

Added ojSetUnchanged() macro function

Pistol tool etc. did not switch well after ImageJ1.53e (Aug. 2020). This is fixed.

version 1.05e 18-oct-2020

ObjectJ Tools> Sizes...> Font Size is preserved in ojj file

ObjectJ Tools> Sizes...> Marker Size is preserved in ojj file

Recovered ObjectJ> Linked Images> Flattened Duplicate:
ObjectJ objects and ImageJ overlay is stamped into an
RGB image of same size at zoom=100%

Recovered macro command ojFlatten()

version 1.05d 13-jul-2020

Added ObjectJ> Plot> Plot Linked Results

Added ObjectJ> Plot> Qualify Objects in ROI

Added ObjectJ> Plot> Add Error Bars to Plot

Added ObjectJ> Plot> Add to Plot

version 1.05b 02-jun-2020

Choosing menu "ObjectJ> Show Project Results" could scroll to an empty field. This is fixed.

Fixed a bug which could create a NullPointer when closing a project without saving.

version 1.05a 18-may-2020

Right-clicking on a "px/unit" field in the "Linked Images" panel changes correctly the scaling of one or all linked images. Previously, it could show "wrong stack structure".

Hyperstack dimensions and the scaling of linked tiff files are updated whenever the project is loaded or saved.

Clicking the "ObjectJ Results" button or choosing menu "ObjectJ> Show Project Results" could scroll to an empty field. This is fixed.

Removed menu "ObjectJ> Linked Images> Flattened Duplicate". Instead, choose "Plugins> Utilities> Capture Image", which also respects the current zoom, Rois and Overlays. Note that offscreen parts are not included.

version 1.04z 02-apr-2020

Button for installing embedded macros could be missing with older ImageJ versions, this is fixed.

Fixed a bug which could wrongly trigger macro shortcuts when adding a text roi to a plot

version 1.04y 23-mar-2020

Project window could in some cases appear twice after double-clicking an .ojj file. This is fixed

Attempt to install 'Embedded Macros' via ImageJ's command "Install Macros" now triggers error message (ImageJ 1.52u needed)

version 1.04x 27-jan-2020

Linked result column: 'show histogram' dialog improved

Added button for "Link All" in 'Linked Images' panel

Removed unlinked results

version 1.04w 11-dec-2019

Allows to rename linked images with different extension

version 1.04t 13-may-2019

Fixed bug that could misalign ObjectJ result column titles after changing [Stats] column width

Removed unused triangles from ObjectJ result column headers

Set titles of ObjectJ result text-column titles italic

Fixed a bug which could wrongly trigger ObjectJ macro shortcuts when changing Overlay-text

Removed "GlassWindow" macros

Added macro commands ojSetItemInfo(s), ojSetObjectInfo(s), ojGetItemInfo() and ojGetObjectInfo()

version 1.04r 12-dec-2018

Fixed a regression in 1.04q where statistics did not scroll horizontally

Simplified clicking on label "Linked Columns" in ObjectJ Results to select All or None

version 1.04q 08-dec-2018

Double-clicking image names in project window was not recognized in some cases. This is fixed

Double-clicking result rows in Linked Results was not recognized in some cases. This is fixed

Clicking column visibility checkboxes in ObjectJ Results was not recognized in some cases. This is fixed

version 1.04p 19-nov-2018

Avoids unnecessary show/hide ObjectJ results

version 1.04o 11-nov-2018

Includes Plot... and Add to Plot... command (right-click an ObjectJ Results column title).

Fixes a bug that caused ImageJ to freeze when performing macro command ojHideResults() before Results were ever opened

version 1.04m 13-sep-2018

Includes macro command ojGetColumn()

version 1.04j 25-jun-2018

Fixed regression in 1.04i: exception occurred when closing a project with images containing zero objects.

version 1.04i 21-jun-2018

Fixed a bug that caused not to delete objects when images where unlinked in newly created projects.

version 1.04g 29-may-2018

Added flag for virtual stacks in "Images" panel

version 1.04e 21-jan-2018

Added menus ObjectJ>Project>Export and Import Embedded Macros

Fixed bug: window was not responding after "Delete All Objects" when an object was open

Fixed bug: loading a project with empty macros did not remove previous macros

version 1.04b 01-jun-2017

Double-buffered screen on Java 8 + OS X is fixed

version 1.03x 08-apr-2016

Right-clicking on a "px/unit" field aloows to set the scale of this or all linked images

version 1.03s 19-dec-2014

The URL for ObjectJ has changed to: https://sils.fnwi.uva.nl/bcb/objectj

Updating per "Update menu" was disabled as ObjectJ is now on a https server.

Download ObjectJ manually with your browser, and make sure no suffix was added to the file name. Then drag objectj_.jar onto the ImageJ main window, confirm to store it in the plugins folder, and relaunch ImageJ.

version 1.03r 11-dec-2014

Fixed a bug that did not allow to zoom Rois that were stored in linked images

Fixed a bug that did not display ImageJ Overlay that were stored in linked images

version 1.03o 20-jun-2014

Columns panel now automatically becomes taller if Presentation tab is selected, making all fields visible

Fixed a bug which created a NullPointer when renaming a non-linked image

version 1.03n 14-may-2014

Item-to-Roi command (either via macro or menu) now works with sub-pixel resolution

A linked image can be renamed either via menu Image > Rename, or by right-clicking on an image name in the images panel of the project window. Both the image and the related file on disk will be renamed.

macro command ojRenameImage(oldName, newName) renames a linked image

macro command ojLineToPolygon(linewidth, false) macro command

fixed a bug where slash-star and slash-slash comments in same line were conflicting

version 1.03m 12-mar-2014

Project window on OS X shows proxy icon title bar (drag it to create an alias, alt-drag it to make a copy, right-click it to reveal in enclosing folder)

Fixed a bug which, when typing a character in the Fiji script editor, triggered the corresponding short-cut in embedded macros.

version 1.03k 15-feb-2014

Project window contains buttons for "Show Results" and "Show in Finder/Explorer"

Choosing Object>Link All Images did not sort image names alphabetically in some cases. This is fixed.

Propagate Scale to all linked images (by right click in the images panel on some scaling information), now chooses the image being clicked, not the one that was previously selected.

Propagate Scale to all linked images will close each image directly after saving .

version 1.03j 03-feb-2014

In the Qualifiers panel, if a qualifiers row was selected, it could be altered when a new column was created. This bug is fixed.

version 1.03i 02-feb-2014

In the Qualifiers panel, unlinked column names are omitted

In Columns panel, unlinked columns (whose names start with underscore) are correctly placed at the end of the list

When choosing "Update Histogram" in Panel Columns>Presentation, then older histograms with same name are closed

version 1.03h 07-jan-2014

columns in Columns Panel can be rearranged in blocks via ctrl-up/down arrow key

columns in Columns Panel can be selected and deleted in blocks,

version 1.03e 26-Nov-2013

fixed slow-down problem with large number of objects

version 1.03d 04-Nov-2013

an open object is closed whenever a linked image is closed, or project is closed

linking an image that already was open correctly shows ObjectJ markers

version 1.03c 14-Oct-2013

composite checkbox needs alt key

version 1.03b 02-Sep-2013

delete slice of linked image is possible, and will delete related objects

abort debugging after reloading macros

submenus supported in embedded macros

frame interval is stored in project file as double

last 3 digits of build number shown in About ObjectJ

version 1.03a 11-Jul-2013

ojGetItemLength() returns length of selected item in pixels

ojOrderObjectsInZ() changes number labels of objects in ascending order of home slice

ojGetTarget() ojSetTarget(argument) Accellerates marking by avoiding screen updates (similar to batchmode)

version 1.02s xx xx 10-Jul-2013

Included macro command ojSaveProject()

version 1.02r 29-May-2013

Menu Linked Images - Link All Images also linked non-image files. This bug is fixed.

version 1.02p 16-Mar-2013

Opening and then linking an image could make markers invisible. This bug is fixed.

version 1.02k 24-Oct-2012

Added macro commands for handling GlassWindow:
ojGlassWindow("show")
-- "show" : shows a transparent GlassWindow
-- "hide" : hides the GlassWindow (same as clicking the red "Close" icon
-- "connect" : connects GlassWindow to front image, which must be linked to the ObjectJ project, and must have same size as the GlassWindow. Additionally, the current slice is refreshed.
-- "refresh" : grabs screen content under the GlassWindow and pastes it into last slice of connected stack
-- "addSlice" : adds a slice to the end of connected stack, and refreshes it with the current screen content under the GlassWindow
-- "color=0x00114433" : defines the transparent color of GlassWindow in a hex string 0xaarrggbb, where aa is alpha channel, rr is red, gg is green and bb is blue
ojGetGlassDimensions()
returns an array holding GlassWindow-dimensions left, top, width, height

Fixed a bug that occurred when using ojMovePoint(x, y, z) to a different z position

version 1.02j 13-Jul-2012

Fixed collision between shortcuts. Embedded shortcuts are always interpreted as lowercase, and now override other shortcuts.

Fixed a bug that gave problems when converting a polygon object to a roi.

Fixed a bug that gave problems when propagating scale to all linked images when virtual stacks were involved

version 1.02h 23-May-2012

Fixed a bug that occurred when right-clicking on the "scale" column in the "Linked Images" panel. If the corresponding image was already open and was a virtual stack, its contents could be overwritten with zero content.

Fixed a regression introduced in 1.02f where z-coordinates of objects could be set to zero when applying the vertex calculator. This new version also automatically repairs this when opening a damaged .ojj file containing the z=0 bug. .

version 1.02f1 03-Apr-2012

Fixed a bug that handled ojPushItem and ojPushPoint as 3D also in 2D case

macro command ojClose(pattern) closes all image windows whose title matches the wildcard pattern (without asking to save changes).

version 1.02f 03-Apr-2012

Fixed a bug that did not "Show Embedded Macros" on Windows when macro text was empty

macro command ojClose(pattern) closes all image windows whose title matches the wildcard pattern (without asking to save changes).

version 1.02d 15-Jan-2012

After macro ojSetItemVisible, gray/black "visibility eyes" automatically appear

ObjectJ Results are closed before columns in the Columns panel are manually added or removed

version 1.02c 21-Nov-2011

When item types are selected, they are automatically set to visible

Show Object Results, Show Project Window, and Show Embedded Macros had no effect on Windows while window was iconized

Images panel allows multiple selection

Flattening is possible via menu ObjectJ> Linked Images> Flattened Duplicate

macro command ojFlatten() creates an RGB image of same size with markers burnt-in

version 1.01w 22-Aug-2011

macro command ojQualify() didn't switch to modus "Arbitrary" and became too slow with many objects

version 1.01v 18-Aug-2011

Qualify dialog did not update ObjectJ Results immediately

Qualify dialog did not update hit list after clicking "Invert"

Stacks that were created by other applications will not trigger the "different properties" anymore. The stack properties are shown as "-1 slices" and will be updated when the linked image is opened..

macro command ojCloseItem() does not close the entire object anymore

macro command ojImageLink() returned NaN instead 0 when not being linked

version 1.01u 12-Aug-2011

After qualifying, statistics were not updated (bug introduced in v1.01t). Now, if you change qualifiers and then activate ObjectJ Results, statistic rows are updated

Copy/Export could omit first column or add empty header; this is fixed

version 1.01t 25-Jul-2011

Fixed a bug that caused a time delay when qualifying sorted results with many (>1000) objects

Fixed a bug that would not highlight column title yellow when being sorted

Fixed a NullPointer bug that could occur during redrawing ObjectJ canvas

version 1.01r 30-Jun-2011

Fixed a bug that did not properly advance to next item type when single-point items where involved

version 1.01q 19-Jun-2011

Added "Propagate Scale to Linked Images" to menu ObjectJ>Linked Images.
It applies same scale (eg pixels/um) to all images linked to the project.
This function can also be invoked by right-clicking onto the px/unit value in the "Images" panel.

ObjectJ results are recalculated after changing the image scale

version 1.01p 28-May-2011

Additional check box "Forget linked images" when deleting all objects

Macro command ojIdToIndex(id) and ojIndexToId(n)

version 1.01n 29-Mar-2011

Removed unused test data "roi dots" from ObjectJ project file (non-critical)

version 1.01m 14-Feb-2011

Using double-buffering for markers to avoid flicker on Windows

Added macro command ojUpdateMarkers(b); while b is false, screen updating is suppressed when setting markers by macro.

Added a demo project that analyzes Eucalyptus leafs (see Examples)

version 1.01i 14-Nov-2010

Fixed a bug that occurred when using the "Angle Algorithm" with non-existing items

version 1.01h 10-Nov-2010

Fixed a bug that caused "Roi To Item" fail in non-Z stacks

version 1.01g 25-oct-2010

Opening linked images are correctly un-docked

Opening linked images from Finder, rather than from Images panel, did not work

Unlinked images did not listen to ObjectJ macro tools

Delete Object per slice or image was dimmed, this is fixed

version 1.01e 20-oct-2010

Fixed error"Load failed" when loading empty macro text

Fixed error when word "macro" was not followed by blank

Fixed an error "Show Cell: Image xxx not available" (regression)

version 1.01b 18-oct-2010

Link button to ObjectJ website in ObjectJ> Project> About ObjectJ

Automatic renaming of linked files is suppressed.

Automatic duplicating of linked files is suppressed.

Bug-fix: Auto-range of linked histograms did not work.

Bug-fix: Opening two project files at once gave conflicts

version 0.98q 05-oct-2010

Bug-fix (regression): When project was created from scratch, no markers could be set

version 0.98p 01-oct-2010

Bugfix: previous versions could not create a new empty project

Bugfix: on Windows, previous versions would save project under temporary name without renaming it back to the correct name

version 0.98n 28-sep-2010

After "Quit ImageJ" and similar, "Save Changes to Project" did not work as expected

"About ObjectJ" dialog was not properly updated in Windows

NullPointer when n was out of range in ojOwnerIndex(n)

NullPointer when a linked image was opened while an unlinked, newly created image with same name was open

Delete Slice from a linked hyperstack is now possible. You will be asked to re-save the (hyper-)stack

version 0.98j 22-Sep-2010

"About ObjectJ" dialog incl. version checking, is available from menu ObjectJ>Project File>,

Swapped menu shortcuts: now "Show Embedded Macros" is [cmd-shift-F4], "Show In Finder/Explorer" is [cmd-shift-F5]

Fixed a regression: "Show in Finder/Explorer" did not work anymore if java was less than 1.6

Saving project: first saves under temporary name, and if successful, renames it correctly

Embedded macros appear indented under ObjectJ menu to differentiate them from the constant items at the top

Fixed a bug that caused double-clicking an .ojj file, or dragging it onto the ImageJ microscope symbol appear "ObjectJ" in the menu twice

version 0.98h 22-Aug-2010

Fixed a bug that appeared when qualifiers were used in combination with text columns

Vertex calculator accepts operations like "partialPositionX 50%" and "partialPositionY 0.3", that returns the location after traveling part of a segmented line

Vertex calculator accepts operation "partialpath signedoffset", returning the off-road distance negative if it was in travel direction left

macro commands ojRankToIndex(n) and ojIndexRank(n) allow to address sorted ObjectJ results

Export of XML fromat uses correct .xml extension

version 0.98e 24-june-2010

Fixed a bug that occurred when loading subsequently project files on Windows

Fixed a bug that did not close window with embedded macros when closing a project

version 0.98d 20-june-2010

The ".ojj" project file is now saved in compressed binary format, not xml. This is much faster and files are much smaller. It is still possible to export the project in the old xml format. Old projects still can be loaded, but older versions of ObjectJ will not recognize the newer binary format.

Project file now has an embedded macro set. With older versions, it was necessary to supply an accompanying macro file with the same base name. If older projects are opened, that external macro will automatically be recognized and embedded, i.e it will become part of the .ojj file when being saved.

Importing macro text currently only works only via menu "Show Embedded Macros" and Copy-Paste. The macro set will be installed and embedded via the button "Install under ObjectJ menu".

New menu Command ObjectJ> Project File> Save an Empty Copy allows to transfer macros, object definitions, column names etc to a new project.

Statistics in the results table can be shown by clicking on the leftmost column and selecting "Show all"

Thanks to Mateusz Kuzak, ObjectJ is now being tested on Linux.

version 0.98a 5-apr-2010

Fixed a bug causing macro errors like "notifyListeners" and "resetImage"

version 0.97k --- 11-mar-2010

Fixed nullpointer bug when ImageJ was started with drag+drop and then immediately a new image was created

menu "Help> Update Menus" was not working, so I currently disabled it (restart ImageJ to update menus).

Added examples for tree rings, otoliths, oocytes, weibel grid counting

version 0.97f --- 15-feb-2010

Right-clicking an ObjectJ column title allows to show and change its histogram

version 0.97e --- 16-oct-2009

Better stability of results table user interface by using Java Beans Binding.

version 0.97d --- 5-oct-2009

When setting the scale or properties of a linked image while results window is open, ImageJ would crash. This is currently solved by first closing the results window.

version 0.97c --- 1-oct-2009

Panning to different location with space bar: when space bar is released, ObjectJ cursor is restored correctly

First Drag and Drop after launch is ignored on OS X Java 1.6: now at least you are asked to repeat

Count algorithm was not updated in columns settings (cosmetic)

Alt or shift keys while moving point or item of an object were not recoginzed on Windows

version 0.97a --- 22-Sep-2009

macro command ojGetVoxelSize(n, "x") returns x-voxelsize of n-th linked image

a column can hold the linked result "index", so that an object's index can be used for qualifying

macro command ojResultString(column, row) returns correctly text entries such as "filename"

version 0.96z --- 17-Sep-2009

In the "Objects" panel, changing item definitions such as "shape" or "marker type" could stop to accept further user input. Operation is now safe, though you may be asked to repeat the input.

version 0.96y --- 14-Sep-2009

In previous versions, the ObjectJ results table as well as the columns settings could stop to respond to user actions. This was a non-reproducible bug, which now hopefully is fixed due to synchronizing threads.

Fixed a cosmetic bug that appeared in OS X 10.5 (Leopard) and later, where buttons in the ObjectJ tools window lost their "Selected" appearance when e.g selecting an image window.

Fixed a bug that would not delete "All Objects in Current Image/Slice" when image was not shown at 100% zoom

Unqualified object numbers are better visible on any gray background

version 0.96x --- 23-Aug-2009

Thanks to Wayne Rasband, ImageJ 1.43f recognizes project files with the .ojj extension: opening a project file will automatically load the ObjectJ plugin. You now can drag an .ojj file onto ImageJ's microscope icon. Further, project files are double-clickable if you associate the ".ojj" extension to ImageJ (see Concept+Tips).

version 0.96u --- 03-Aug-2009

Drag and Drop of macros or images from a webbrowser to ImageJ window didn't work with ObjectJ. This is fixed.

See "Usage of macros" for an explanation how to debug linked macros

version 0.96t --- 23-Jul-2009

Column names are now protected (must not contain wildcard *, comma, space)

Static columns are automatically put to bottom of columns list

Fixed a bug that caused editing column names to show temporarily nonsense text

Using arrow keys when selecting columns in "Columns" panel didn't update corresponding "Operands" panel

Reduced sensitive area of "Visible Objects" checkbox

--- 14-Jul-2009

Virus alerts: I removed all StatCounter code from this website. This was a script embedded into html code to count visitors. Unfortunately, some PC users complained about virus alerts, athough this is not a virus. If your computer still shows a virus alert, it is because the old content is still in the cache. The statcounter script was visible at the bottom of the "Home" or "Tutorial" html code. It is now removed.

version 0.96r --- 9-Jul-2009

Column names must be unique

Comboboxes needed scrolling because of limited height, this is improved

version 0.96q --- 4 Jul 2009

Mouse events (such as making a roi) were failing when no ojj project was open. This bug was introduced in the previous version and is fixed

version 0.96p --- 25 Jun 2009

Menu Help>Update ImageJ also can update ObjectJ

Clicking with ObjectJ macro tool in unlinked image didn't work, this is fixed

version 0.96o --- 20 Jun 2009

This version is necessary to work with ImageJ1.43a (from 19 june 2009) or later - otherwise you cannot link images to the project.

new macro command: ojZoom(factor, centerx, centery)

fixed a bug that gave wrong mouse actions when no project was open

added the "Show Project Folder" to the ObjectJ menu, which brings Finder/Explorer to the front

version 0.96c --- 26 Apr 2009

Removed a bug (introduced in prev version, where progam could hang after opening/saving.

version 0.96a --- 23 Apr 2009

Checks after opening and before saving a project whether there are empty cells or items, and removes them if found-improved version