Release Notes

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November 30, 2009 (release 7.0.5)

Changes

Fixed bugs

• After re-detection of matched DIGE gels, inconsistent matches are created.
• After detection of DIGE gels, the "Open File" and "Browse Folder" dialogs do not function correctly (on Windows XP).
• Rename of project failed in certain conditions.
• Errors in export to Genetix GelPix.
• Crash on Gel Analysis Report for match set with DIGE images that only contain a single image.
• When landmarks are removed and gels re-matched, matching still uses the deleted landmarks.
• Non-confirmed landmarks (projections) are taken into account for the matching.
• Wrong landmark numbering and consequently inconsistent matching after Undo Delete Annotations (when the delete concerned suppression of Landmark annotations).
• pI and MW values were not propagated to matched gels.
• pI_MW annotations were unlinked from spots after closing and reopening images.
• For images with a transfer table the inversion of the gray levels fails (images were unchanged).
• When inverting gray levels, the Adjust Contrast Histogram and the Gel Table are not updated.

July 24, 2009 (release 7.0.4)

Changes

Fixed bugs

• Improper reading of 24 bit colour images (horizontal lines).
• Some .img files (from Fuji LAS-3000 scans) could not be imported because of an error while reading the corresponding .inf file.
• Calibration from .gsc/.1sc files was not properly read.
• Crash when importing two images with same name but different extension.
• Import of annotations of type Set was not properly handled.
• Flip horizontally and vertically in the Image Pool had inverted functionality.
• Matches were lost when restoring a project using the original file paths.
• Custom shortcut settings were lost as soon as the application was closed.
• Internal error when changing the quantification value while having Scatter Plot and Scatter Table displayed.
• Deleted spots were not restored after undoing "Delete spot" when all spots were hidden (in mode View > Spots > None).
• Crash when attempting to propagate spot on DIGE images (not permitted).
• Crash when dragging (or copy/paste) a match set into another match set in the workspace.
• Colour palette in the 3D View was not automatically applied when selecting a new spot.
• Undo "Import Annotations" did not work.
• Histogram distribution in Adjust Contrast could change under certain conditions.
• Issue in creation of classes when converting projects from v6.0 to v7.0 of the software.
• Internal error when matching a DIGE-detected pick gel (single image) with other DIGE gels.
• Keyboard shortcuts were not available for sub-menu entries.

July 31, 2008 (release 7.0.3)

Changes

Fixed bugs

• Resolution in TIFF images sometimes presented negative values.
• Support of TWAIN module for scanning.
• Import and addition of projects and export files (.exp) in the workspace.
• Propagated spots were not saved.

June 20, 2008 (release 7.0.2)

Changes

• Optimisation of memory management in the alignment process.
• Possibility to apply a calibration to images is now only possible while working in the Image Pool. No calibration can be applied once images have been added to a match set.

Fixed bugs

• Crash when modifying a match set (e.g. adding a sub match set) while it was open in a sheet (and subsequently clicking in a menu).
• Class column in the Gel Table was always empty.
• Position of spots was shifted in the new image when the user cropped a detected image in a match set.
• When importing images with a calibration of type transformation table, the calibration was lost when the image was added to a match set.
• "Select > All Enabled Spots" failed when spots where hidden.
• Crash on closing a sheet when some annotations and spots were selected.
• Spot quantification was not initialized when the user propagated spots between images.

May 27, 2008 (release 7.0.1)

Changes

• Export of annotations (save, copy to clipboard) in Table Report.
• Management of project and workspace backup of previous version.
• Creation of new images and DIGE gel when user crops DIGE gel in Image Pool.
• Synchronization of Gel Table and 3D View on image opening and closing.
• Add "Copy..." option in the workspace, allowing to create a copy of a project.
• Add MatchID, spotID ref in "Scatter Table" of "Scatter Plot" report.
• Add "Detect And Match Spots" toolbar.

Fixed bugs

• Area Value correctly initialized upon opening (this value could be initially expressed in pixel and then changed to mm2 on certain operations).
• Problems in opening and closing of hierarchical classes.
• Contrast was modified on cropped images.
• Bad image alignment when modifying landmarks with "Align Images" enabled.
• Conversion from old format: Images in the old workspace/project format that were detected, but not yet inserted in a match set are now added to a match set in order not to lose the detection.
• Management of the accessibility of customized menus.
• Management of the selection of annotations and spots (when linked).
• Category Set not editable in Annotation table.
• Common Labels not functional.
• "Fitting Table" and "Calibration Table" from "Create Calibration Window" were always empty.
• Initialization of the reference in the contrast mapping.
• Edit>Spots>Propagate failed when propagated spot positions were out of image destination.

February 8, 2008 (release 7.0.0)

Some of the new features in Melanie 7.0 include:

• Simplified import and visualization of images
• Simplified project management with easier population set up
• Synchronized data view for easier navigation: Content and selection of tables, histograms, plots and 3-D views are continuously updated to stay synchronized with the displayed sheet that contains the gel images
• Group selection: When selecting a spot belonging to a group, any matched spots of the group are automatically selected as well
• Improved matching efficiency with hierarchical match designs
• Management of multiple matches and composite spots
• Possibility to enable/disable spots from the analysis and save spot sets for later retrieval, filtering and combination
• Dedicated landmark tool
• New 3D View
• Adaptive display of histograms
• Student t-test replaced with ANOVA, expressed as probabilities
• Customized report templates
• Reviewed contrast adjustment feature
• Custom and context-related toolbars
• Reorganized menu structure with icons to allow the user to create custom toolbars
• One-click to choose desired layout of sheets and panes
• Option to surround spot selections by boxes, for easier localisation and identification
• Single tool to select/edit spots and annotations
• Measure tool to compute pixel, pI, MW, or linear (centimeter or inch) distances between spots

For more information, please see the Product Brochure.

May 14, 2007 (release 6.0.2)

Changes

• The match data of a project is now saved with the project file (in a "Matches" folder at the same level as the .prj file) for easier file sharing.
• The Melanie6.xml file is only written upon installation. This means that normal users no longer require write permission on this file.
• The software licensing system now supports Windows Vista.

Fixed bugs

• In LAU calibration (Fuji), a computational error could lead to completely white images.

November 15, 2005 (release 6.0.1)

Changes

• Graphical reports can now be docked alongside textual reports.
• When importing annotations, new annotations are only created when a label already exists.

Fixed bugs

• Import of pairs from Melanie 2 (in certain cases).
• Import Annotation from .txt files didn't work properly when certain labels were empty.
• For the option "File > Export > Gel Data to XML", pairs were not exported in particular cases in Class worksheets or when the pairs were not saved on disk.
• When a gel was renamed, the file extension was removed (Ex: Ecoli.mel -> Ecoli).
• When gels were stacked, the Cursor Information window was displayed, and the Next or Previous keyboard keys were pressed, the information in the Cursor Information window was not refreshed.
• Re-dimensioning of a column in a report causes the sorting of the adjacent column.
• Non-DIGE spot detection didn't give the same results (in terms of spot outlines) as in Melanie 5.0. The number and shape of spot outlines should now be identical as in version 5.0, but the quantification results will be slightly different.

July 15, 2005 (release 6.0.0)

The most important new features in Melanie 6.0 (compared to version 5.0) are:

• Support of DIGE technology (co-detection, internal standard, ...)
• Population matching
• Workspace with management of gels, match sets and classes
• Intelligent multi-worksheet display
• Dockable report windows
• Scrollbars for moving and zooming gels
• Improved cropping option
• Adjust contrast in 3D view
• Measure histogram in spot report