From 99aa10d045bb4debec600d6de86aabfe0b9bc0c7 Mon Sep 17 00:00:00 2001 From: Piotr Gawron <piotr.gawron@uni.lu> Date: Tue, 9 Jan 2018 17:39:16 +0100 Subject: [PATCH] new line character changed to linux --- CHANGELOG | 460 +++++++++++++++++++++++++++--------------------------- 1 file changed, 230 insertions(+), 230 deletions(-) diff --git a/CHANGELOG b/CHANGELOG index add19ba4bf..9191c3aa70 100644 --- a/CHANGELOG +++ b/CHANGELOG @@ -1,230 +1,230 @@ -minerva (11.0.6) stable; urgency=medium - * Bug fix: fix a bug when entering invalid mirna id - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 14 Dec 2017 16:00:00 +0200 - -minerva (11.0.5) stable; urgency=medium - * Bug fix: fix on connection to drugbank database - * Bug fix: posttranslational modification data was sometimes unavailable - in search results panel - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 30 Nov 2017 16:00:00 +0200 - -minerva (11.0.4) stable; urgency=medium - * Bug fix: fix on connection to taxonomy database - * Bug fix: color coding for reactions (wrong color was chosen) - * Bug fix: overlays with many reactions did not work properly - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 09 Nov 2017 14:50:00 +0200 - -minerva (11.0.3) stable; urgency=medium - * Bug fix: removing empty project removed images from all projects - * Bug fix: clicking on map when left panel was hidden threw error - * Bug fix: links to invalid annotations were opening invalid web page - * Bug fix: service resolving miriam resources doesn't work over http - anymore - * Bug fix: chebi annotator doesn't work over http anymore - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 19 Oct 2017 13:50:00 +0200 - -minerva (11.0.2) stable; urgency=medium - * Bug fix: login issues when default page is in secure area - - -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 25 Sep 2017 12:00:00 +0200 - -minerva (11.0.1) stable; urgency=medium - * Bug fix: logout caused issues with session data - - -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 08 Sep 2017 12:00:00 +0200 - -minerva (11.0.0) stable; urgency=medium - - * Bug fix: security issue - access to specific map can be restricted - by the user login - * Bug fix: sbgn import - * Bug fix: mesh connector - * Rest API (documentation can be found here: - https://git-r3lab.uni.lu/piotr.gawron/minerva/blob/master/README.md) - * Selecting an element on the map shows info about it in the bottom left - corner (when Search tab is not open) - * Upload of data overlays allows to upload just names of the proteins - (or other elements), it can be done via file or just by typing in the - proper text box - * Layout changes: the main one is that there are only 3 tab panels - (search, overlay, info), so it should be easier to navigate - - -- Piotr Gawron <piotr.gawron@uni.lu> Mon, 28 Aug 2017 12:00:00 +0200 - -minerva (10.0.5) stable; urgency=medium - - * Bug fix: interacting drugs can be found for RNAs - * Bug fix: error handling improved on map upload - * Bug fix: taxonomy ncbi server switched to https - * Overlay presents description field if possible - - - -- Piotr Gawron <piotr.gawron@uni.lu> Sat, 04 Mar 2017 12:00:00 +0200 - -minerva (10.0.4) stable; urgency=medium - - * Bug fix: overlays colors are centered in white (not black) - * Bug fix: export to CellDesigner fixed - * Bug fix: DrugBank connector updated due to change in DrugBank website - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 29 Dec 2016 17:01:16 +0200 - -minerva (10.0.3) stable; urgency=medium - - * Bug fix: login cannot contain whitespace - * Bug fix: search for multiple drugs will not return more drugs than - queried for - * Bug fix: drug list for some proteins (like RHOA) hung webpage - * Bug fix: comments on submaps issue - * Bug fix: link to submap from comment panel - * Overlay coloring can be defined in Configuration - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 15 Dec 2016 15:01:16 +0200 - -minerva (10.0.2) stable; urgency=medium - - * Bug fix: markers for mirna targets visibility - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 29 Sep 2016 10:01:16 +0200 - -minerva (10.0.1) stable; urgency=medium - - * Bug fix: export to image - * Bug fix: trigger reaction and physical stimulation reactions are no - longer allowed (CellDesigner data model issue) - * Bug fix: clicking on reactions in submaps - - -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 21 Sep 2016 13:01:16 +0200 - -minerva (10) stable; urgency=medium - - * Project info tab available for users - * Management of overlays in admin panel - * Bug fix: Visualization of text mining - * Bug fix: Exception when accessing non-existing project - * Bug fix: Zooming issue when searching for results on submaps - * Bug fix: Out of memory when caching a lot of data - * Bug fix: Corrupted drug names - * Bug fix: Unexpected errors when uploading layouts - * Bug fix: Coordinates in url - * Bug fix: Hiding left panel - * Bug fix: CellDesigner font size is processed properly - * Bug fix: Search by reaction id is not case sensitive - - -- Piotr Gawron <piotr.gawron@uni.lu> Mon, 22 Aug 2016 13:01:16 +0200 - -minerva (9) stable; urgency=medium - - * Fix on install script of version 8 that crashed some new installations - - -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 29 Jun 2016 09:58:34 +0200 - -minerva (8) stable; urgency=medium - - * Micro RNA interface - * Toxic chemicals interface - * Data sets (layouts) visualized dynamically in the browser - * Reverse query for drugs, chemicals, micro RNAs interfaces - * Small bug fixes - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 14 Apr 2016 13:03:55 +0200 - -minerva (7) stable; urgency=low - - * Uploaded datasets are available for download - * Entrez annotator - * Ensembl annotator - * Valid/required annotations and used annotations saved in user profile - * Export to pdf/png/jpg/svg - * New web interface - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 3 Dec 2015 22:00:00 +0200 - -minerva (6) stable; urgency=low - - * Searching by annotations - * Errors from parsing data forwarded to client - * Notification email system added - * Warnings are downloadable - * Complex map (composed from many small maps) - * Visualization of Recon specific annotations - * Versioning system - * Galaxy connector - * Miriam types report - * Advanced annotation options - * Uniprot annotation module - * Customized validation of miriam annotations - * Recon annotation service - * Bug fix: Data autofill problem in user management - * Bug fix: User privileges for adding project - * Bug fix: Problem with some miriam entries in RDF format - * Bug fix: Reporting of drawing problems - * Bug fix: Visualization of posttranslationa modification - * Bug fix: Drugbank problem after update of Drugbank interface - * Bug fix: Session scope fixed (browsing many maps at the same time) - * Bug fix: Asynchronous removing/adding maps - * Bug fix: Export to CellDesigner rarely produced corrupted CellDesigner file - * Bug fix: Recon annotations of reactions - * Bug fix: Login problem when browsing not default map - * Bug fix: Multimers are available for every element - - -- Piotr Gawron <piotr.gawron@uni.lu> Tue, 21 Jul 2015 22:00:00 +0200 - -minerva (5) stable; urgency=low - - * Additional checkboxes in upload model: annotate automatically, cache data, verify annotations - * Popup window in admin panel that list warnings - * Information about build - * Parsing and annotation warnings for models in admin panel - * Custom reaction visualization in upload overlay - * Bug fix: Problem with touch interface on Windows 8.1 - * Bug fix: Google Maps API problem with floating bubbles - * Bug fix: Error handling in admin panel - * Bug fix: Reaction color in CellDesigner file - * Bug fix: Reaction line width - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 18 Dec 2014 22:00:00 +0200 - -minerva (4) stable; urgency=low - - * Export of the part of the map into CellDesigner file - * Logo files managable via config webpage - * Import data from GO - * Custom overlay upload - * Additional structural information imported from annotation service - * Bug fix: Fonts and lines in hierarchical view - * Bug fix: Visualization of residues in rna, antisense rna, proteins - * Bug fix: Problem with touching bubbles on touch interface - * Bug fix: Problem with special UTF-8 characters in CellDesigner file - * Bug fix: Problem with users and session expire - * Bug fix: Export problem - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 11 Sep 2014 22:00:00 +0200 - -minerva (3) stable; urgency=low - - * Drug targeting interface - * Export to CellDesigner - * Status page of all dependent services - * Configuration page - - -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 5 Jun 2014 22:00:00 +0200 - -minerva (2) stable; urgency=low - - * Upload of the CellDesigner map - * Bug fix: Problem with touch interface after update of browsers engine - * Bug fix: Problem in Safari when searching for elements - - -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 2 Apr 2014 22:00:00 +0200 - -minerva (1) stable; urgency=low - - * Initial release - - -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 4 Dec 2013 22:00:00 +0200 - +minerva (11.0.6) stable; urgency=medium + * Bug fix: fix a bug when entering invalid mirna id + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 14 Dec 2017 16:00:00 +0200 + +minerva (11.0.5) stable; urgency=medium + * Bug fix: fix on connection to drugbank database + * Bug fix: posttranslational modification data was sometimes unavailable + in search results panel + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 30 Nov 2017 16:00:00 +0200 + +minerva (11.0.4) stable; urgency=medium + * Bug fix: fix on connection to taxonomy database + * Bug fix: color coding for reactions (wrong color was chosen) + * Bug fix: overlays with many reactions did not work properly + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 09 Nov 2017 14:50:00 +0200 + +minerva (11.0.3) stable; urgency=medium + * Bug fix: removing empty project removed images from all projects + * Bug fix: clicking on map when left panel was hidden threw error + * Bug fix: links to invalid annotations were opening invalid web page + * Bug fix: service resolving miriam resources doesn't work over http + anymore + * Bug fix: chebi annotator doesn't work over http anymore + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 19 Oct 2017 13:50:00 +0200 + +minerva (11.0.2) stable; urgency=medium + * Bug fix: login issues when default page is in secure area + + -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 25 Sep 2017 12:00:00 +0200 + +minerva (11.0.1) stable; urgency=medium + * Bug fix: logout caused issues with session data + + -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 08 Sep 2017 12:00:00 +0200 + +minerva (11.0.0) stable; urgency=medium + + * Bug fix: security issue - access to specific map can be restricted + by the user login + * Bug fix: sbgn import + * Bug fix: mesh connector + * Rest API (documentation can be found here: + https://git-r3lab.uni.lu/piotr.gawron/minerva/blob/master/README.md) + * Selecting an element on the map shows info about it in the bottom left + corner (when Search tab is not open) + * Upload of data overlays allows to upload just names of the proteins + (or other elements), it can be done via file or just by typing in the + proper text box + * Layout changes: the main one is that there are only 3 tab panels + (search, overlay, info), so it should be easier to navigate + + -- Piotr Gawron <piotr.gawron@uni.lu> Mon, 28 Aug 2017 12:00:00 +0200 + +minerva (10.0.5) stable; urgency=medium + + * Bug fix: interacting drugs can be found for RNAs + * Bug fix: error handling improved on map upload + * Bug fix: taxonomy ncbi server switched to https + * Overlay presents description field if possible + + + -- Piotr Gawron <piotr.gawron@uni.lu> Sat, 04 Mar 2017 12:00:00 +0200 + +minerva (10.0.4) stable; urgency=medium + + * Bug fix: overlays colors are centered in white (not black) + * Bug fix: export to CellDesigner fixed + * Bug fix: DrugBank connector updated due to change in DrugBank website + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 29 Dec 2016 17:01:16 +0200 + +minerva (10.0.3) stable; urgency=medium + + * Bug fix: login cannot contain whitespace + * Bug fix: search for multiple drugs will not return more drugs than + queried for + * Bug fix: drug list for some proteins (like RHOA) hung webpage + * Bug fix: comments on submaps issue + * Bug fix: link to submap from comment panel + * Overlay coloring can be defined in Configuration + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 15 Dec 2016 15:01:16 +0200 + +minerva (10.0.2) stable; urgency=medium + + * Bug fix: markers for mirna targets visibility + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 29 Sep 2016 10:01:16 +0200 + +minerva (10.0.1) stable; urgency=medium + + * Bug fix: export to image + * Bug fix: trigger reaction and physical stimulation reactions are no + longer allowed (CellDesigner data model issue) + * Bug fix: clicking on reactions in submaps + + -- Piotr Gawron <piotr.gawron@uni.lu> Fri, 21 Sep 2016 13:01:16 +0200 + +minerva (10) stable; urgency=medium + + * Project info tab available for users + * Management of overlays in admin panel + * Bug fix: Visualization of text mining + * Bug fix: Exception when accessing non-existing project + * Bug fix: Zooming issue when searching for results on submaps + * Bug fix: Out of memory when caching a lot of data + * Bug fix: Corrupted drug names + * Bug fix: Unexpected errors when uploading layouts + * Bug fix: Coordinates in url + * Bug fix: Hiding left panel + * Bug fix: CellDesigner font size is processed properly + * Bug fix: Search by reaction id is not case sensitive + + -- Piotr Gawron <piotr.gawron@uni.lu> Mon, 22 Aug 2016 13:01:16 +0200 + +minerva (9) stable; urgency=medium + + * Fix on install script of version 8 that crashed some new installations + + -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 29 Jun 2016 09:58:34 +0200 + +minerva (8) stable; urgency=medium + + * Micro RNA interface + * Toxic chemicals interface + * Data sets (layouts) visualized dynamically in the browser + * Reverse query for drugs, chemicals, micro RNAs interfaces + * Small bug fixes + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 14 Apr 2016 13:03:55 +0200 + +minerva (7) stable; urgency=low + + * Uploaded datasets are available for download + * Entrez annotator + * Ensembl annotator + * Valid/required annotations and used annotations saved in user profile + * Export to pdf/png/jpg/svg + * New web interface + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 3 Dec 2015 22:00:00 +0200 + +minerva (6) stable; urgency=low + + * Searching by annotations + * Errors from parsing data forwarded to client + * Notification email system added + * Warnings are downloadable + * Complex map (composed from many small maps) + * Visualization of Recon specific annotations + * Versioning system + * Galaxy connector + * Miriam types report + * Advanced annotation options + * Uniprot annotation module + * Customized validation of miriam annotations + * Recon annotation service + * Bug fix: Data autofill problem in user management + * Bug fix: User privileges for adding project + * Bug fix: Problem with some miriam entries in RDF format + * Bug fix: Reporting of drawing problems + * Bug fix: Visualization of posttranslationa modification + * Bug fix: Drugbank problem after update of Drugbank interface + * Bug fix: Session scope fixed (browsing many maps at the same time) + * Bug fix: Asynchronous removing/adding maps + * Bug fix: Export to CellDesigner rarely produced corrupted CellDesigner file + * Bug fix: Recon annotations of reactions + * Bug fix: Login problem when browsing not default map + * Bug fix: Multimers are available for every element + + -- Piotr Gawron <piotr.gawron@uni.lu> Tue, 21 Jul 2015 22:00:00 +0200 + +minerva (5) stable; urgency=low + + * Additional checkboxes in upload model: annotate automatically, cache data, verify annotations + * Popup window in admin panel that list warnings + * Information about build + * Parsing and annotation warnings for models in admin panel + * Custom reaction visualization in upload overlay + * Bug fix: Problem with touch interface on Windows 8.1 + * Bug fix: Google Maps API problem with floating bubbles + * Bug fix: Error handling in admin panel + * Bug fix: Reaction color in CellDesigner file + * Bug fix: Reaction line width + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 18 Dec 2014 22:00:00 +0200 + +minerva (4) stable; urgency=low + + * Export of the part of the map into CellDesigner file + * Logo files managable via config webpage + * Import data from GO + * Custom overlay upload + * Additional structural information imported from annotation service + * Bug fix: Fonts and lines in hierarchical view + * Bug fix: Visualization of residues in rna, antisense rna, proteins + * Bug fix: Problem with touching bubbles on touch interface + * Bug fix: Problem with special UTF-8 characters in CellDesigner file + * Bug fix: Problem with users and session expire + * Bug fix: Export problem + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 11 Sep 2014 22:00:00 +0200 + +minerva (3) stable; urgency=low + + * Drug targeting interface + * Export to CellDesigner + * Status page of all dependent services + * Configuration page + + -- Piotr Gawron <piotr.gawron@uni.lu> Thu, 5 Jun 2014 22:00:00 +0200 + +minerva (2) stable; urgency=low + + * Upload of the CellDesigner map + * Bug fix: Problem with touch interface after update of browsers engine + * Bug fix: Problem in Safari when searching for elements + + -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 2 Apr 2014 22:00:00 +0200 + +minerva (1) stable; urgency=low + + * Initial release + + -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 4 Dec 2013 22:00:00 +0200 + -- GitLab