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Rachis, A Cross-platform Hierarchical Identification System. Rachis is an application for the cataloguing and identification of entities (taxa). It is being implemented from scratch, but is based heavily on the lessons learned from Taxabase.


http://rachis.sourceforge.net





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Release Date:

2006-07-17

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Registered:

2006-01-02

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  • Forum comment added

    ppdias commented on the RE: compiling error forum thread

    posted by ppdias 972 days ago

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    bwakkie created the compiling error forum thread

    posted by bwakkie 1001 days ago

  • rachis rachis.20060717 file released: rachis.20060717.tar.bz2

    posted 1218 days ago

  • rachis rachis.20060717 file released: rachis.20060717.tar.bz2

    posted 1218 days ago

  • File released: /rachis/rachis.20060717/rachis.20060717.tar.bz2

    posted 1218 days ago

  • rachis rachis.20060612 file released: rachis.20060612.tar.bz2

    20060612 - Craig Robbins - 0.0.61 - Implemented framework for "references" - Created dialog - Created new classes: Reference and ReferenceList - Added ReferenceList to Taxaset - Added refFile to taxaset - Command Manager: - Created commands related to Reference - Created command to set ref file in the taxaset - Added quotes around paths, names etc. when taxaset is writing itself to disk 20060611 - Craig Robbins - 0.0.61 - Various UI changes - Added another sash to separate descriptions in the Fact Sheet portion of the main dialog - Fixed bug (Import tb2 was not setting taxon description filenames) - Implemented framework for attaching external "links" to taxa 20060609 - Craig Robbins - 0.0.60 - Save position and size for subset memberships dialog - External edit of subset memberships are now updated internally after the edit is finished - Added new dialog: Edit subsets, to edit subset titles and their abbreviations 20060606 - Craig Robbins - 0.0.58 - Updates made in the edit subset memberships now saved 20060605 - Craig Robbins - 0.0.57 - Initial implementation of edit subset memberships 20060603 - Craig Robbins - 0.0.56 - Added About Rachis menu 20060521 - Craig Robbins - 0.0.55 - Update "Progress Report" - Attributes now sorted numerically 20060514 - Craig Robbins - 0.0.54 - Begun implementation of grid based taxon character editing 20060513 - Craig Robbins - 0.0.53 - Some bug fixes - Begun "Progress Report" (Documentation) 20060506 - Craig Robbins - 0.0.52 - Edit all illustrations now opens the find taxa dialog if the user presses enter in the "taxon name" control, and the taxon name is invalid 20060505 - Craig Robbins - 0.0.51 - Bug fixes for MSW version; Find taxa dialog was causing segfaults 20060503 - Craig Robbins - 0.0.50 - The background image thumbnail creation routine was flagging all images as broken. oops. Fixed. 20060501 - Craig Robbins - 0.0.49 - Various bug fixes - Fixed icons for diagnostic character trees - Changed "best-characters" ranking algorithm - When keying a specimen, remaining illustrations now in the same order as the remaining list (i.e. sorted by most-likely to least-likely - Compiles OK on MSW 20060429 - Craig Robbins - 0.0.48 20060428 - Craig Robbins - 0.0.47 - Got rid of "number sets"; this means that ranges cannot be stored internally any more (for attributes). Every "attribute" must now be explicitly set. I think the complexity of the number set's code wasn't justified. Ranges may be good for disk storage, or for quick human entry, but these were the only real advantages. - Taxa can be keyed out! (more-or-less ;-) 20060423 - Craig Robbins - 0.0.46 - Begun implementation of Diagnose Specimen 20060421 - Craig Robbins - 0.0.45 - Commands for executing external applications (MIME types) now integrated with RachisConfig - A list of taxa can now be specified for generating the character scores (e.g. so that they can be scored according to remaining taxa). 20060420 - Craig Robbins - 0.0.44 - Some improvements to the Find Taxa dialog: Auto-complete when TAB pressed; Compare string can be set to an initial value List of matching taxa updated as user types Cancel/Ok buttons fixed to work properly 20060420 - Craig Robbins - 0.0.43 - Under ms-windows, tree controls are now "hidden" while being populated (speed increase). - Changes to the create thumbnails thread (trying to see if this is the source of sporadic crashes). - Added #define BACKGROUND_CREATE_THUMBS to config.h, to enable easy disabling of the thumbnail generation thread. 20060419 - Craig Robbins - 0.0.42 - Fixed bug causing crash under ms-windows, when searching for a taxon and clicking one of the radio buttons 20060418 - Craig Robbins - 0.0.41 - Initial design of class Diagnostic (diagnose.h, diagnose.cpp). Just the bare skeleton so far. 20060417 - Craig Robbins - 0.0.40 - Taxon attributes (character values) now stored as a hash. - All attributes (even those not "set") are not stored in the attribs file. This is for editing with external spreadsheet applications - Initial implementation for calculating "separating power" of characters. FIXME: Does not currently take into consideration that some taxa may already be discarded; i.e. the "separating power" should only be calculated based upon taxa remaining; 20060416 - Craig Robbins - 0.0.39 - Drag & Drop for character tree, initial implementation - Sporadic crashes on startup - may be related to the extra thread that generates the thumbnails (in particular the logging that occurs there, before the main window is opened(?)) 20060415 - Craig Robbins - 0.0.38 - Added option to show only illustrations with invalid taxa in the Edit All Illustrations dialog - Added built-in default illustrations if those specified in the taxaset aren't found - The change to default extensions from .txt to .csv causing a few problems. Bumped up version of taxaset file, so that previous versions won't load (wrong version). To get older taxasets to load, manually rename all the files from .txt to .csv, and update the names manually in the taxaset file. - Illustrations now have the taxon, author and description displayed as a caption. - The edit all illustrations adds a caption of "<Broken Link>" if it cannot load the thumbnail/image for a particular illustration. 20060414 - Craig Robbins - 0.0.37 - Compiled OK on MSW - Fixed bug: Unitialised variable in diagchar.cpp - Changed default file extensions for taxa, illustrations etc to ".csv"

    posted 1253 days ago

  • rachis rachis.20060612 file released: rachis.20060612.tar.bz2

    20060612 - Craig Robbins - 0.0.61 - Implemented framework for "references" - Created dialog - Created new classes: Reference and ReferenceList - Added ReferenceList to Taxaset - Added refFile to taxaset - Command Manager: - Created commands related to Reference - Created command to set ref file in the taxaset - Added quotes around paths, names etc. when taxaset is writing itself to disk 20060611 - Craig Robbins - 0.0.61 - Various UI changes - Added another sash to separate descriptions in the Fact Sheet portion of the main dialog - Fixed bug (Import tb2 was not setting taxon description filenames) - Implemented framework for attaching external "links" to taxa 20060609 - Craig Robbins - 0.0.60 - Save position and size for subset memberships dialog - External edit of subset memberships are now updated internally after the edit is finished - Added new dialog: Edit subsets, to edit subset titles and their abbreviations 20060606 - Craig Robbins - 0.0.58 - Updates made in the edit subset memberships now saved 20060605 - Craig Robbins - 0.0.57 - Initial implementation of edit subset memberships 20060603 - Craig Robbins - 0.0.56 - Added About Rachis menu 20060521 - Craig Robbins - 0.0.55 - Update "Progress Report" - Attributes now sorted numerically 20060514 - Craig Robbins - 0.0.54 - Begun implementation of grid based taxon character editing 20060513 - Craig Robbins - 0.0.53 - Some bug fixes - Begun "Progress Report" (Documentation) 20060506 - Craig Robbins - 0.0.52 - Edit all illustrations now opens the find taxa dialog if the user presses enter in the "taxon name" control, and the taxon name is invalid 20060505 - Craig Robbins - 0.0.51 - Bug fixes for MSW version; Find taxa dialog was causing segfaults 20060503 - Craig Robbins - 0.0.50 - The background image thumbnail creation routine was flagging all images as broken. oops. Fixed. 20060501 - Craig Robbins - 0.0.49 - Various bug fixes - Fixed icons for diagnostic character trees - Changed "best-characters" ranking algorithm - When keying a specimen, remaining illustrations now in the same order as the remaining list (i.e. sorted by most-likely to least-likely - Compiles OK on MSW 20060429 - Craig Robbins - 0.0.48 20060428 - Craig Robbins - 0.0.47 - Got rid of "number sets"; this means that ranges cannot be stored internally any more (for attributes). Every "attribute" must now be explicitly set. I think the complexity of the number set's code wasn't justified. Ranges may be good for disk storage, or for quick human entry, but these were the only real advantages. - Taxa can be keyed out! (more-or-less ;-) 20060423 - Craig Robbins - 0.0.46 - Begun implementation of Diagnose Specimen 20060421 - Craig Robbins - 0.0.45 - Commands for executing external applications (MIME types) now integrated with RachisConfig - A list of taxa can now be specified for generating the character scores (e.g. so that they can be scored according to remaining taxa). 20060420 - Craig Robbins - 0.0.44 - Some improvements to the Find Taxa dialog: Auto-complete when TAB pressed; Compare string can be set to an initial value List of matching taxa updated as user types Cancel/Ok buttons fixed to work properly 20060420 - Craig Robbins - 0.0.43 - Under ms-windows, tree controls are now "hidden" while being populated (speed increase). - Changes to the create thumbnails thread (trying to see if this is the source of sporadic crashes). - Added #define BACKGROUND_CREATE_THUMBS to config.h, to enable easy disabling of the thumbnail generation thread. 20060419 - Craig Robbins - 0.0.42 - Fixed bug causing crash under ms-windows, when searching for a taxon and clicking one of the radio buttons 20060418 - Craig Robbins - 0.0.41 - Initial design of class Diagnostic (diagnose.h, diagnose.cpp). Just the bare skeleton so far. 20060417 - Craig Robbins - 0.0.40 - Taxon attributes (character values) now stored as a hash. - All attributes (even those not "set") are not stored in the attribs file. This is for editing with external spreadsheet applications - Initial implementation for calculating "separating power" of characters. FIXME: Does not currently take into consideration that some taxa may already be discarded; i.e. the "separating power" should only be calculated based upon taxa remaining; 20060416 - Craig Robbins - 0.0.39 - Drag & Drop for character tree, initial implementation - Sporadic crashes on startup - may be related to the extra thread that generates the thumbnails (in particular the logging that occurs there, before the main window is opened(?)) 20060415 - Craig Robbins - 0.0.38 - Added option to show only illustrations with invalid taxa in the Edit All Illustrations dialog - Added built-in default illustrations if those specified in the taxaset aren't found - The change to default extensions from .txt to .csv causing a few problems. Bumped up version of taxaset file, so that previous versions won't load (wrong version). To get older taxasets to load, manually rename all the files from .txt to .csv, and update the names manually in the taxaset file. - Illustrations now have the taxon, author and description displayed as a caption. - The edit all illustrations adds a caption of "<Broken Link>" if it cannot load the thumbnail/image for a particular illustration. 20060414 - Craig Robbins - 0.0.37 - Compiled OK on MSW - Fixed bug: Unitialised variable in diagchar.cpp - Changed default file extensions for taxa, illustrations etc to ".csv"

    posted 1253 days ago

  • File released: /rachis/rachis.20060612/rachis.20060612.tar.bz2

    posted 1253 days ago

  • rachis rachis.20060409.tar.bz2 file released: rachis.20060409.tar.bz2

    20060409 - Craig Robbins - 0.0.36 - Create Diagnostic category, character (multistate and numeric) and create state (of a multistate) implemented. 20060408 - Craig Robbins - 0.0.35 - Completed diagnostic items rewrite. Import from Taxabase is partially broken when importing characters - the categories are no longer imported, so all the characters are "top-level". 20060402 - Craig Robbins - 0.0.34 - Complete rewrite of diagnostic chars; Now the class DiagnosticItem can be any of the characters (Multistate or Numeric) or a category. The only things "separate" are the states, which remain sub-multistate. Categories and characters can be added as a child of anything except a state. 20060401 - Craig Robbins - 0.0.33 - Fixed bug, when dropping illustrations if the default author name contained a comma, the portion after the comma was used as the taxon name - Fixed bug, some things were not cleared properly when loading a new taxaset - Made some new icons for the toolbar - Adding a taxon now renames a taxon _if_ the category of the newly created taxon is binomial and the name the user gave wasn't "complete". e.g. If the parent is named "Acacia" and the name "fimbriata" is suggested, then Rachis expands this to "Acacia fimbriata". Similiarly with "A. fimbriata". If the new childs name is "Babingtonia similis" with a parent of "Acacia", the this will fail. - Added checks for duplicate taxon names when the user creates a new taxon - Fixed bug causing wrong taxon menu items to be enabled/disabled - Activated the new "Taxon toolbar" icons 20060331 - Craig Robbins - 0.0.32 - Added font selection option and preferences dialog - State properties are now updated when changed in the edit all diagnostic characters dialog - Added NOT logic to taxa filters 20060323 - Craig Robbins - 0.0.31 - Categories and Character propertis are now updated when changed in the edit all diagnostic characters dialog 20060321 - Craig Robbins - 0.0.30 - Values for character/category/state items are now populated in the properties grid (edit all diagnostic characters dialog) 20060320 - Craig Robbins - 0.0.29 - Reimplemented edit all diagnostic characters, so that the parameters for characters are displayed as a list of items and values 20060318 - Craig Robbins - 0.0.28 - export to tmp file for external edit of subset membership done - opening of tmp file in office done; still need to do import back - added show only illustrations with taxon assign, without taxon assigned (orphan) or all illustrations radio controls in edit all illustrations dialog 20060315 - Craig Robbins - 0.0.27 - Contact sheet no longer keeps a pointer to a (caller supplied) illus Id list; it now maintains it's own list - Hack to get contact sheet to display illustrations in alphabetical (by taxon) order. I think I am going to re-look at the contact sheet and how it stores it's Id's, so that things can be sorted etc "on-the-fly". 20060314 - Craig Robbins - 0.0.26 - Activated toolbar actions - Added OK/Cancel option for find taxon dialog - Control for editing illustration details in edit all illustrations dialog now functioning properly 20060313 - Craig Robbins - 0.0.25 - Fixed context menu for taxa tree (actions now work when selected) - When inserting a new sibling taxon, the new taxon is now selected once inserted into the tree - Fixed bug causing the first illustration added to never be recognised - Added delete to the taxon context menu 20060312 - Craig Robbins - 0.0.24 - For the top-level window, context menu's only show applicable items now - Only applicable items in the Taxon menu are now shown - Devel Warning dialog implemented - Drag&Drop illustrations into Edit All Illustrations dialog implemented 20060305 - Craig Robbins - 0.0.23 - Changed Taxon menu to contain only items: New, as Sibling of Selection New, as Child of Selection New, top level Delete selected - Implemented as child, and delete - Added Freeze() / Thaw() blocks to the GUI New Taxon functions; and the GUI delete taxon functions 20060304 - Craig Robbins - 0.0.22 - Changed contact sheet to display taxon names in italics, and if something else was used as a label, then not italics - Fixed segfault when changing filters and the new taxa list didn't contain pre-filter selected taxon - Changed all the 8-point fonts to 9 - Added toolbar - Added Taxaset menu - Added Taxon menu, with Add Before, Add After, Add as child and Add new top-level as items - Moved all code from menu event handlers to doXXX functions, so that code could be reused for the toolbar - Implemented GUI functions Add Taxon before, Add Taxon After, and Add new Top-level taxon 20060226 - Craig Robbins - 0.0.21 - "Info Sheet" fully functional (read and write) - Implemented all CommandManager functions to enable functioning of the info sheet - Minor bug-fixes - Background colour of the "taxa tree" is now highlighted when the filter functions are being applied - Removed static local variable from Illustration::build_notesFile () - The files containing Illustration notes and Taxon description notes are now removed from disk if the files are empty - Subset filters written to config were being left as their previous value if their new value(s) were empty (all subsets allowed) - FIXED 20060225 - Craig Robbins - 0.0.20 - Implemented RenameTaxon - Implemented "fullTaxonName", which generates a taxon name that includes it's parent names, in a directory style format - Updated GUI to use changes 20060217 - Craig Robbins - 0.0.19 - Implemented "Taxa Filter" to filter by "Is Illustrated", and/or "Is Described", and/or "In in subset" - Implemented "Edit Taxa Filter" dialog - Updated the taxa tree to use the new filter options - Updated root window to save the number of display columns for illustrations - Updated root window to save current filter settings - Implemented Menu File/Quit - Implemented Menu File/Save Project 20060213 - Craig Robbins - 0.0.18 - Minor fixes to look and function correctly on MSW - Minor change to contactsheet to erase background properly when no taxaset is loaded 20060212 - Craig Robbins - 0.0.17 - Load last project at startup implemented - Initial implementation of TaxonDescription::genNatLangDesc to generate descriptions from character/states - All files now written with a comma after the command. This is to avoid unexpected things happening when importing/exporting into/from external applications (e.g. OpenOffice) - Number of columns for contactsheet can now be updated at any time 20060209 - Craig Robbins - 0.0.16 - Changed items in the "Fact Sheet" to be editable string controls 20060208 - Craig Robbins - 0.0.15 - Various user interface changes - still trying to get things to work under MSW. - Replaced the fancy hierarchy display for taxon name with simple "directory style" display (e.g. Fabaceae/Hovea/Hovea acutifolia)

    posted 1317 days ago

  • rachis rachis.20060409.tar.bz2 file released: rachis.20060409.tar.bz2

    20060409 - Craig Robbins - 0.0.36 - Create Diagnostic category, character (multistate and numeric) and create state (of a multistate) implemented. 20060408 - Craig Robbins - 0.0.35 - Completed diagnostic items rewrite. Import from Taxabase is partially broken when importing characters - the categories are no longer imported, so all the characters are "top-level". 20060402 - Craig Robbins - 0.0.34 - Complete rewrite of diagnostic chars; Now the class DiagnosticItem can be any of the characters (Multistate or Numeric) or a category. The only things "separate" are the states, which remain sub-multistate. Categories and characters can be added as a child of anything except a state. 20060401 - Craig Robbins - 0.0.33 - Fixed bug, when dropping illustrations if the default author name contained a comma, the portion after the comma was used as the taxon name - Fixed bug, some things were not cleared properly when loading a new taxaset - Made some new icons for the toolbar - Adding a taxon now renames a taxon _if_ the category of the newly created taxon is binomial and the name the user gave wasn't "complete". e.g. If the parent is named "Acacia" and the name "fimbriata" is suggested, then Rachis expands this to "Acacia fimbriata". Similiarly with "A. fimbriata". If the new childs name is "Babingtonia similis" with a parent of "Acacia", the this will fail. - Added checks for duplicate taxon names when the user creates a new taxon - Fixed bug causing wrong taxon menu items to be enabled/disabled - Activated the new "Taxon toolbar" icons 20060331 - Craig Robbins - 0.0.32 - Added font selection option and preferences dialog - State properties are now updated when changed in the edit all diagnostic characters dialog - Added NOT logic to taxa filters 20060323 - Craig Robbins - 0.0.31 - Categories and Character propertis are now updated when changed in the edit all diagnostic characters dialog 20060321 - Craig Robbins - 0.0.30 - Values for character/category/state items are now populated in the properties grid (edit all diagnostic characters dialog) 20060320 - Craig Robbins - 0.0.29 - Reimplemented edit all diagnostic characters, so that the parameters for characters are displayed as a list of items and values 20060318 - Craig Robbins - 0.0.28 - export to tmp file for external edit of subset membership done - opening of tmp file in office done; still need to do import back - added show only illustrations with taxon assign, without taxon assigned (orphan) or all illustrations radio controls in edit all illustrations dialog 20060315 - Craig Robbins - 0.0.27 - Contact sheet no longer keeps a pointer to a (caller supplied) illus Id list; it now maintains it's own list - Hack to get contact sheet to display illustrations in alphabetical (by taxon) order. I think I am going to re-look at the contact sheet and how it stores it's Id's, so that things can be sorted etc "on-the-fly". 20060314 - Craig Robbins - 0.0.26 - Activated toolbar actions - Added OK/Cancel option for find taxon dialog - Control for editing illustration details in edit all illustrations dialog now functioning properly 20060313 - Craig Robbins - 0.0.25 - Fixed context menu for taxa tree (actions now work when selected) - When inserting a new sibling taxon, the new taxon is now selected once inserted into the tree - Fixed bug causing the first illustration added to never be recognised - Added delete to the taxon context menu 20060312 - Craig Robbins - 0.0.24 - For the top-level window, context menu's only show applicable items now - Only applicable items in the Taxon menu are now shown - Devel Warning dialog implemented - Drag&Drop illustrations into Edit All Illustrations dialog implemented 20060305 - Craig Robbins - 0.0.23 - Changed Taxon menu to contain only items: New, as Sibling of Selection New, as Child of Selection New, top level Delete selected - Implemented as child, and delete - Added Freeze() / Thaw() blocks to the GUI New Taxon functions; and the GUI delete taxon functions 20060304 - Craig Robbins - 0.0.22 - Changed contact sheet to display taxon names in italics, and if something else was used as a label, then not italics - Fixed segfault when changing filters and the new taxa list didn't contain pre-filter selected taxon - Changed all the 8-point fonts to 9 - Added toolbar - Added Taxaset menu - Added Taxon menu, with Add Before, Add After, Add as child and Add new top-level as items - Moved all code from menu event handlers to doXXX functions, so that code could be reused for the toolbar - Implemented GUI functions Add Taxon before, Add Taxon After, and Add new Top-level taxon 20060226 - Craig Robbins - 0.0.21 - "Info Sheet" fully functional (read and write) - Implemented all CommandManager functions to enable functioning of the info sheet - Minor bug-fixes - Background colour of the "taxa tree" is now highlighted when the filter functions are being applied - Removed static local variable from Illustration::build_notesFile () - The files containing Illustration notes and Taxon description notes are now removed from disk if the files are empty - Subset filters written to config were being left as their previous value if their new value(s) were empty (all subsets allowed) - FIXED 20060225 - Craig Robbins - 0.0.20 - Implemented RenameTaxon - Implemented "fullTaxonName", which generates a taxon name that includes it's parent names, in a directory style format - Updated GUI to use changes 20060217 - Craig Robbins - 0.0.19 - Implemented "Taxa Filter" to filter by "Is Illustrated", and/or "Is Described", and/or "In in subset" - Implemented "Edit Taxa Filter" dialog - Updated the taxa tree to use the new filter options - Updated root window to save the number of display columns for illustrations - Updated root window to save current filter settings - Implemented Menu File/Quit - Implemented Menu File/Save Project 20060213 - Craig Robbins - 0.0.18 - Minor fixes to look and function correctly on MSW - Minor change to contactsheet to erase background properly when no taxaset is loaded 20060212 - Craig Robbins - 0.0.17 - Load last project at startup implemented - Initial implementation of TaxonDescription::genNatLangDesc to generate descriptions from character/states - All files now written with a comma after the command. This is to avoid unexpected things happening when importing/exporting into/from external applications (e.g. OpenOffice) - Number of columns for contactsheet can now be updated at any time 20060209 - Craig Robbins - 0.0.16 - Changed items in the "Fact Sheet" to be editable string controls 20060208 - Craig Robbins - 0.0.15 - Various user interface changes - still trying to get things to work under MSW. - Replaced the fancy hierarchy display for taxon name with simple "directory style" display (e.g. Fabaceae/Hovea/Hovea acutifolia)

    posted 1317 days ago

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