Gephi - The Open Graph Visualization Platform

Gephi 0.8alpha

Stabilizing release, fixing difficult bugs and introducing localization.

See http://wiki.gephi.org/index.php/Development_-_0.8alpha

Milestone information

Project:
Gephi
Series:
0.8
Version:
0.8alpha
Released:
2011-04-08  
Registrant:
Mathieu Bastian
Release registered:
2011-04-08
Active:
Yes. Drivers can target bugs and blueprints to this milestone.  

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Assigned to you:
No blueprints or bugs assigned to you.
Assignees:
1 Cezary Bartosiak, 2 Daniel Bernardes, 14 Eduardo Ramos, 26 Mathieu Bastian, 11 Sébastien Heymann, 1 Thomas Aynaud
Blueprints:
1 Needs Infrastructure, 1 Beta Available, 2 Implemented
Bugs:
1 New, 2 Incomplete, 2 Opinion, 2 Won't Fix, 16 Confirmed, 3 In Progress, 1 Fix Committed, 44 Fix Released

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download icon gephi-0.8-alpha.dmg (md5) Mac OS X 10,540
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download icon gephi-0.8-alpha.tar.gz (md5) Linux 4,149
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download icon gephi-0.8-alpha.setup.exe (md5) Windows 27,808
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Total downloads: 46,446

Release notes 

* Spanish and French localization (Menu Tools > Languages)
* GEXF 1.2 support (partial)
* Integrate Email Spigot - create network from emails
* Add Neighbour Filter
* Improve support of meta-edges in Statistics and Filters
* Improve usability of Filters
* Edge weight option in PageRank, which can now be used by the algorithm
* Duplicate workspaces (Edit Menu)
* Open Recent menu in File
* Graph files now supports GZ compression
* Better Filters support in .gephi files
* VNA Import (Thanks to Vojtech Bardiovsky)

Changelog 

View the full changelog

New features
----------------

* Spanish and French localization (Menu Tools > Languages)
* GEXF 1.2 support (partial)
* Integrate Email Spigot - create network from emails
* Add Neighbour Filter
* Improve support of meta-edges in Statistics and Filters
* Improve usability of Filters
* Edge weight option in PageRank, which can now be used by the algorithm
* Duplicate workspaces (Edit Menu)
* Open Recent menu in File
* Graph files now supports GZ compression
* Better Filters support in .gephi files
* VNA Import (Thanks to Vojtech Bardiovsky)

Performance
---------------

* Label Adjust algorithm 3 times faster
* Saving/Loading projects is faster and use less memory

Removed features
---------------------

* Degree Power Law metric. Reason: this is not a metric but a fit on a model. The produced chart is not sufficient to determine if data fits the model correctly.
* Watts-Strogatz generator, a brand new 'Scientific Generators' plugin is about to be released, including Watts-Strogatz and many others
* 'Open project' menu has been merged in simply 'Open'

Bugfixes
------------

* Windows installer should not require admin privileges (bug 663337)
* Cancelled Vector Export Disabled "File" Menu (bug 728871)
* Misformated SQL-Server JDBC url (bug 745414)
* Partition Filter Loses Categories As Subfilter (bug 726107)
* Workspace name does not increment (629376)
* Cannot select directory to export (bug 711185)
* Ranking Color can't be changed on OSX (bug 737727)
* Filter panel not cleared after query removed (bug 737992)
* Ego Filter "with self" option doesn't work with depth > 1 (bug 671007)
* Maximum Degree Range Doesn't Update on Subfilter (bug 725688)
* Cannot save and reload dynamic network as project (bug 709270)
* GDF exports attributes when option is disabled (bug 735927)
* Rename "Edit" menu to "Workspaces"? (bug 735475)
* Data laboratory context menu takes too much time to appear when a lot of nodes are selected (bug 735721)
* export svg/pdf with no edges causes NPE (bug 693789)
* Can't import the same file twice in Welcome window (bug 598157)
* Graph Window in Overview Tab Fails to Load (bug 659773)
* Timeline appears first wrong when timeformat="date" (bug 709234)
* Filter query not saved when Filter button is active (bug 671004)
* GEXF option <spells> doesn't work(bug 709235)
* Ego Network Filter Searches for Substring, Does Not Match Value (bug 726114)
* Label text settings not saved in .project (bug 660205)
* saved preset for layouts creates several instances (bug 612848)
* Partition colors in Filters are different from those in Partition (bug 616037)
* import of pajek net has floating pt problem (bug 619893)
* NullPointerException on saving project (bug 622154)
* Name of currently opened file not updated after a "save as" (bug 629374)
* Labels are not hidden on Preview (bug 654006)
* Chaining Dynamic Filter (bug 654018)
* NullPointerException on importing CSV data in Data Laboratory (bug 654030)
* Statistics report not refreshed after a new execution (bug 654036)
* Maximum lock count exceeded error when running Label Adjust (bug 655544)
* GEXF export: missing attvalues element (bug 655975)
* Can't use ranking label transformers with toolkit (bug 656172)
* GEXF export: attribute definitions exported even if Attributes option is unchecked (bug 656276)
* Preview throws an Exception with negative edges (bug 656955)
* Closeness centrality chart empty with normalized values (bug 658361)
* Statistics fail to work on a hierarchy level different from the leaves (bug 658394)
* Exported Data Table doesn't use sorted columns (bug 658816)
* Importing a TIME_INTERVAL column in Data Laboratory CSV import doesn't enable dynamic features (bug 659017)
* Error when using filter export features and filtering off (bug 659229)
* Exception when using flatten filter (bug 659270)
* GDF export generates invalid files (bug 660200)
* Wrong color type exported in GraphML (bug 660356)
* GEXF exporter doesn't export the label if they are the same as the id (bug 660382)
* Tool Selection tooltip under the graph window (bug 660459)
* Column settings in Data Lab are not saved in .project (bug 660469)
* Data Lab filter not executed when changing the column (bug 660471)
* Data Lab: column used by node filter is automatically reset (bug 660517)
* Personalized color of a specific partition is rolled back (bug 660529)
* DOT importer ignores edge weight and .gv file extension (bug 661257)
* Exceptions when importing mixed graph (bug 662488)
* Error on selecting nodes from filter if graph window not shwn at startup (bug 663561)
* Blank preview screen (bug 664300)
* Edge text not visible on preview with other attributes (bug 664444)
* Data does not appear on nodes table (bug 667440)
* saving a project uses too much memory for large graphs (bug 672071)
* Data Lab: search/replace only on a given column (bug 676087)
* Workspace number incremented by opening a new project (bug 681038)
* Filter "out degree range" does not work (bug 681184)
* NullPointerException on exporting dynamic GEXF file with Toolkit (bug 686432)
* Wrong relative betweenness (bug 687267)
* graphml generated syntax is incorrect (bug 688678)
* Import Report freezes when the number of issues or logs is too high (bug 688865)
* Filters fail to work on a hierarchy level different from the leaves (bug 691278)
* Wrong edge count in Context Panel with hierarchies (bug 692225)
* RepaintCell exception on Mac OS X (bug 692379)
* Exceptions when group/ungroup from Partition after delete (bug 692382)
* GML importer don't process 'weight' column as weight (bug 703877)
* Degree doesn't take edge weight into account (bug 703933)
* Edge attribute values not imported from graphml file (bug 707390)
* PageRank not for weighted networks (bug 715621)
* Data Lab: boolean column edition facility (bug 717869)
* Exception on Delete Column if sorted by this column (bug 719987)
* Data Lab: edge rows not displayed when the hierarchy level /= 0 in Overview (bug 720033)
* Java Null Pointer when using Merge Columns (bug 722287)
* Open Recent files doesn't work with project files (bug 734105)
* Timeline disappears after saving project.gephi file (bug 695558)
* Exception on Visualization Settings if opened before Overview (bug 734117)
* Database import is not cancelable (bug 734126)
* 'A task is still executing' error after cancelling a custom importer, not LongTask (bug 734132)
* Edge weight slider not refreshed between workspaces (bug 731599)
* Exception on New workspace after deleting last workspace (bug 735273)
* Colors not imported in Pajek Net format (bug 530028)

API Changes
---------------

* Add setCurrentQuery() method on FilterController
* Important change how modules save/load data into project files. The WorkspacePersistenceProvider interface from ProjectAPI now uses StAX instead of DOM. The writeXML() method now uses XMLStreamWriter and readXML() XMLStreamReader. Backward compatibility can't be assured, modules have to use switch to StAX.
* Added support of shortcut keys, availability of items and sub-items creation to Data Laboratory context menu actions (NodesManipulator and EdgesManipulator). Also now Visualization API has an SPI for adding context menu actions (GraphContextMenuItem) to nodes like DataLaboratory does with NodesManipulator. Note that they share the interface ContextMenuItemManipulator from Data Laboratory API, so they are compatible, being able to reuse actions on nodes for Overview and Data Laboratory.
* Add removeMetaEdge(Edge) to manually remove meta edges. Add getTotalEdgeCount() method to globally count the number of edges, regardless if the edge is proper or meta.
* Add methods in Graph API to better combine edges and meta edges features. Add getEdgesAndMetaEdges(Node) and getTotalDegree(Node) methods, as well as their in and out variants for HierarchicalDirectedGraph.

4 blueprints and 71 bugs targeted

Blueprint Priority Assignee Delivery
GEXF 1.2 support 4 High Sébastien Heymann  11 Implemented
Edge visualization attributes imported from GEXF files 2 Low Sébastien Heymann  3 Needs Infrastructure
Import Unix standard archives 2 Low Sébastien Heymann  11 Implemented
Dynamic statistics framework 1 Undefined Cezary Bartosiak  8 Beta Available
Bug report Importance Assignee Status
758736 #758736 import dynamic gexf freezing 1 Undecided   0 New
808617 #808617 PDF export seems to fail with very large networks 1 Undecided   1 Incomplete
763857 #763857 NPE when executing Modularity 4 Medium   1 Incomplete
812249 #812249 Closeness centrality improvements 5 Low   2 Opinion
823589 #823589 Create a generic JDBC database importer 5 Low   2 Opinion
809151 #809151 Overview tab 'screenshot' function changes node label sizes 4 Medium Mathieu Bastian  4 Won't Fix
791432 #791432 graph overview display problems on multiheaded workstation 1 Undecided   4 Won't Fix
768938 #768938 Directed Graph cluster coefficient provides incorrect values in certain situations 3 High Thomas Aynaud  6 Confirmed
796732 #796732 Filter Dynamic Range does not work when a sub-filter 3 High   6 Confirmed
790119 #790119 Filters 'Duplicate' does not work 4 Medium   6 Confirmed
794700 #794700 Workspace > Clean do nothing 4 Medium Mathieu Bastian  6 Confirmed
795110 #795110 Scale and Rotate layouts: settings not updated when switching 4 Medium Mathieu Bastian  6 Confirmed
760451 #760451 Filter: behavior or empty NOT (Nodes) filter 5 Low   6 Confirmed
772783 #772783 DOT parser is broken 5 Low   6 Confirmed
773596 #773596 gexf export includes weight without defining it as an edge attribute 5 Low   6 Confirmed
781404 #781404 Incorrect message of the GEXF importer 5 Low   6 Confirmed
783004 #783004 Opening big .csv with Gephi 8.0 5 Low   6 Confirmed
788034 #788034 mouse does not respond after access to data laboratory if node pencil is activated 5 Low Eduardo Ramos  6 Confirmed
794360 #794360 Control Command on Mac 5 Low   6 Confirmed
795924 #795924 Impossible to rename an Operator filter 5 Low   6 Confirmed
811843 #811843 [UI] Windows positions are not keeped 5 Low   6 Confirmed
828765 #828765 Can't import two files on the same time (exception) 5 Low   6 Confirmed
823036 #823036 AttributeRangeFilter returns main graph when nothing matches filter 1 Undecided Mathieu Bastian  6 Confirmed
521937 #521937 Timeline need more precision when dealing with dates 5 Low Daniel Bernardes  8 In Progress
760445 #760445 Data lab columns size and position reset after each refresh on MacOSX 5 Low Eduardo Ramos  8 In Progress
794362 #794362 3D view inclination on Mac 5 Low   8 In Progress
719987 #719987 Exception on Delete Column if sorted by this column 4 Medium Eduardo Ramos  9 Fix Committed
787401 #787401 Data Laboratory: wrong edge type created (mutual instead of directed) 2 Critical Eduardo Ramos  10 Fix Released
823543 #823543 Gephi does not build on JDK 7 2 Critical Mathieu Bastian  10 Fix Released
835496 #835496 PDF Export Fails when nodes' labels are showing 2 Critical Mathieu Bastian  10 Fix Released
774455 #774455 Timeline does not work (exception) 3 High Daniel Bernardes  10 Fix Released
784606 #784606 Possible memory leak on Dynamic Range Filter 3 High Mathieu Bastian  10 Fix Released
785268 #785268 Edge attributes not saved in .gephi project file 3 High Eduardo Ramos  10 Fix Released
799545 #799545 Graphics errors when JOGL installed as a JRE/JDK extension 3 High Mathieu Bastian  10 Fix Released
802101 #802101 Toolkit can't open .gephi files 3 High Mathieu Bastian  10 Fix Released
823038 #823038 NodeEqualNumberFilter does not work 3 High Mathieu Bastian  10 Fix Released
830752 #830752 In/Out degree metric is computed on the main graph instead of the visible graph 3 High Mathieu Bastian  10 Fix Released
852799 #852799 NPE when running ClusteringCoefficient on a filtered graph 3 High Mathieu Bastian  10 Fix Released
857595 #857595 'The value column doesn't exist' error when opening a gephi file 3 High Mathieu Bastian  10 Fix Released
771318 #771318 Disable 'directed' on metric settings if the graph is undirected 4 Medium Mathieu Bastian  10 Fix Released
783868 #783868 Preview: edge label not shown 4 Medium Mathieu Bastian  10 Fix Released
785269 #785269 Data Lab: Exception when selecting only one column for merging 4 Medium Eduardo Ramos  10 Fix Released
785635 #785635 Data Lab Import Spreadsheet should not ignore parallel edges 4 Medium Eduardo Ramos  10 Fix Released
793163 #793163 Data Lab: impossible to edit time intervals in a date format 4 Medium Eduardo Ramos  10 Fix Released
803763 #803763 Resizing edge sizes changes edge weight values 4 Medium Mathieu Bastian  10 Fix Released
805763 #805763 Preview does not use node label settings from overview tab 4 Medium   10 Fix Released
817170 #817170 NullPointerException when creating newProjects too quickly. 4 Medium Mathieu Bastian  10 Fix Released
818181 #818181 Nodes and edges Id attribute dictionary is not properly created when loading a .gephi file 4 Medium Eduardo Ramos  10 Fix Released
829956 #829956 Import Spreadsheet: need to trim column names 4 Medium Eduardo Ramos  10 Fix Released
660204 #660204 Inconsistent label data from Overview to Preview 5 Low Mathieu Bastian  10 Fix Released
752300 #752300 Edge selection color is not correct on OSX 5 Low Mathieu Bastian  10 Fix Released
758578 #758578 workspace name truncated, hard to read 5 Low Mathieu Bastian  10 Fix Released
764494 #764494 Window->Favorites appears in 0.8 alpha 5 Low Eduardo Ramos  10 Fix Released
783637 #783637 Layout properties can't be saved in a language and loaded in another language 5 Low Eduardo Ramos  10 Fix Released
794358 #794358 Spelling of Proportionnal 5 Low Sébastien Heymann  10 Fix Released
799574 #799574 NPE if source/target is empty in GEXF import 5 Low Sébastien Heymann  10 Fix Released
799779 #799779 disagreement: labels and vis. 5 Low Sébastien Heymann  10 Fix Released
806798 #806798 Data Lab 'Import Spreadsheet' dialogue should accept other file types than .csv 5 Low Eduardo Ramos  10 Fix Released
808078 #808078 Edge weights not imported from CSV matrix 5 Low Sébastien Heymann  10 Fix Released
808606 #808606 Preview tab: no option to switch off node borders? 5 Low Mathieu Bastian  10 Fix Released
822316 #822316 Database driver doesn't persist in Edge List Database import UI 5 Low Mathieu Bastian  10 Fix Released
830149 #830149 Layout list not sorted by name 5 Low Sébastien Heymann  10 Fix Released
831782 #831782 Layout is not giving the algorithm's number of iterations 5 Low Mathieu Bastian  10 Fix Released
834400 #834400 Banner height issues, need a fixed height 5 Low Mathieu Bastian  10 Fix Released
855410 #855410 Missing node properties from dot file 5 Low Sébastien Heymann  10 Fix Released
860825 #860825 Import fails for NET (Pajek) file with position/color data 5 Low Mathieu Bastian  10 Fix Released
864484 #864484 GEXF export referes to v1.1 schema, should be v1.2 schema 5 Low Sébastien Heymann  10 Fix Released
811373 #811373 Gephi runs out of memory without warning the user 6 Wishlist Mathieu Bastian  10 Fix Released
814178 #814178 Counter-intuitive filename in Data export dialog 6 Wishlist Eduardo Ramos  10 Fix Released
827706 #827706 SVG node, edge export should include relevant node IDs as classes 6 Wishlist   10 Fix Released
760454 #760454 Average degree cannot be switched to directed / undirected 1 Undecided Sébastien Heymann  10 Fix Released
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