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changelog

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CHANGELOG
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minerva (12.2.0~beta.3) unstable; urgency=medium
* Bug fix: Icons are still not properly loaded on Safari (#661)
* Bug fix: fetching information about publication with invalid (non numeric)
pubmed id triggered exception (#737)
* Bug fix: proper id is used in list of publications when publication id is
invalid (#735)
* Bug fix: closing Add Project window was taking infinity (#734)
* Bug fix: align of checkboxes in top right corner fixed (#733)
* Bug fix: uploading SBML file without layout resulted in overlapping
compartments (#736)
* Bug fix: migration scripts are compatibile with postgres 9.3 version that
is default on Ubuntu 14 (#762)
* Bug fix: after project was modified it could happen that user was unable to
upload data overlay (#752)
* Bug fix: update/remove button is disabled when user has no privileges for
managing overlays (#742)
* Bug fix: when user cannot manage users information in overlays and users
tab in edit project dialog is provided instead of hiding tabs (#756)
-- Piotr Gawron <piotr.gawron@uni.lu> Wed, 25 Mar 2019 10:00:00 +0200
minerva (12.2.0~beta.2) unstable; urgency=medium
* Bug fix: order of the overlays is defined explicitly also for general
overlays (#684)
* Bug fix: files are saved in proper folder (#694, #670)
* Bug fix: removing comments in a project asked for confirmation twice after
edit project dialog for specific project was opened; closed and opened
again (#697)
* Bug fix: clicking on compartment border inside pathway should return
compartment, not a pathway (#324)
* Bug fix: clicking outside of the element sometimes resulted with the
invalid element highlighted (#324)
* Bug fix: parent compartment/pathway use proper type name in left panel
(#324)
* Bug fix: editing/removing project requires Map Management privilege (#681)
* Bug fix: when removeAllListeners is called list of registered listeners is
cleaned (#687)
* Bug fix: when plugin is removed the html elements associated with it are
removed as well (#686)
* Bug fix: when creating new user default privileges are set properly (#692)
* Bug fix: import from SBML issue - reaction with product and modifier being
the same element caused exception (#703)
* Bug fix: plugin can be added after plugin has been removed in admin plugin
panel (#686)
* Bug fix: too many annotations (>=100) caused misaligning in the left panel
(#708)
* Bug fix: text was outside the popup window (#711)
* Bug fix: custom semantic zooming contains multiple overlays checkbox was
disabled (#715)
* Bug fix: export to svg contains viewBox info (#716)
* Bug fix: import from sbml with layout could crash when two elements
occupied the exact same position (#717)
* Bug fix: overlays added via API couldn't be visualized after refresh (#718)
* Bug fix: Safari sometimes cached server responses and used wrong data, for
example in admin panel configuration tab (#719)
* Bug fix: description of transcription site is centered (#720)
* Bug fix: selecting too few parameters in export doesn't throw reportable
error (#721)
* Bug fix: changes in selected checkbox in add project dialog block UI (#722)
* Bug fix: providing invalid overlay id in url could break minerva (#726)
* Bug fix: removing project that doesn't exist doesn't cause 500 error (#723)
* Bug fix: Editing project with images and submaps could cause a problem
(#725)
* Bug fix: opening map with invalid id shows proper error message (#724)
* Bug fix: Fixing an issue where search panel was not properly resized on
expansion (#682)
* Small improvement: highlighting table rows in admin panel uses better
contrast color (#706)
-- Piotr Gawron <piotr.gawron@uni.lu> Wed, 20 Feb 2019 14:00:00 +0200
minerva (12.2.0~beta.1) unstable; urgency=medium
* Small improvement: list of publication can be filtered by submap (#614)
* Small improvement: report bug utility shows confirmation dialog on success
(#648)
* Small improvement: size of add overlay window adjusted to show more data
without scrollbars (#657)
* Small improvement: all popup dialogs in the app have dialog specific css
class names (#665)
* Bug fix: loading icon is not overlapping input in the search panel (#404)
* Bug fix: position of transcription sites in genes are computed properly
(#553)
* Bug fix: REQUEST AN ACCOUNT was enabled when associated email was invalid
(#626)
* Bug fix: layout exported to SBML can be properly visualized by COPASI
(#654)
* Bug fix: working with too many maps within the single session could crash
connection to server (#651)
* Bug fix: invalid pubmed id could crash listing/downloading publications
(#656)
* Bug fix: icons in safari sometimes disappear (#661)
* Bug fix: downloading reference genome for the second time resulted in an
error (#670)
* Bug fix: plugin validation in admin panel improved to catch more problems
(#672)
* Bug fix: drawing corrupted heterodimer association in CellDesigner could
crash map upload (#673)
* Bug fix: custom semantic zooming didn't work with pathways imported from
CellDesigner layers (#678)
-- Piotr Gawron <piotr.gawron@uni.lu> Thu, 7 Feb 2019 14:00:00 +0200
minerva (12.2.0~beta.0) unstable; urgency=medium
minerva (12.2.0) stable; urgency=medium
* Feature: bug report utility
* Small improvement: JS plugin can create listener that is triggered on
search results focus change
-- Piotr Gawron <piotr.gawron@uni.lu> Wed, 23 Jan 2019 15:00:00 +0200
minerva (12.2.0~alpha.1) unstable; urgency=medium
* Bug fix: problems with SBML-CellDesigner translation fixed
* Bug fix: gitlab CI tests fixed
-- Piotr Gawron <piotr.gawron@uni.lu> Thu, 17 Jan 2019 15:00:00 +0200
minerva (12.2.0~alpha.0) unstable; urgency=medium
* Feature: url GET parameters support all kind of search and selected overlays
highlight
* Feature: user can create custom logging configuration in file
......@@ -125,6 +11,15 @@ minerva (12.2.0~alpha.0) unstable; urgency=medium
file formats
* Feature: current state of the browsed map is reflected in the url (position,
zoom, overlays, search queries, etc.)
* Small improvement: highlighting table rows in admin panel uses better
contrast color (#706)
* Small improvement: list of publication can be filtered by submap (#614)
* Small improvement: size of add overlay window adjusted to show more data
without scrollbars (#657)
* Small improvement: all popup dialogs in the application have dialog
specific css class names (#665)
* Small improvement: JS plugin can create listener that is triggered on
search results focus change
* Small improvement: export to SBML includes unit factors
* Small improvement: mesh identifiers are resolved to meshb.nlm.nih.gov urls
* Small improvement: genetics information allows to provide information about
......@@ -158,7 +53,48 @@ minerva (12.2.0~alpha.0) unstable; urgency=medium
has proper access level
* Small improvement: 'REQUEST AN ACCOUNT' link is available only the contact
email account is provided
* Small improvement: Plugin API allows to show/hide data overlays
* Small improvement: Plugin API allows to show/hide data overlays
* Bug fix: Icons were sometimes not properly loaded on Safari (#661)
* Bug fix: migration scripts are compatibile with postgres 9.3 version that
is default on Ubuntu 14 (#762)
* Bug fix: update/remove button is disabled when user has no privileges for
managing overlays (#742)
* Bug fix: when user cannot manage users information in overlays and users
tab in edit project dialog is provided instead of hiding tabs (#756)
* Bug fix: removing comments in a project asked for confirmation twice after
edit project dialog for specific project was opened; closed and opened
again (#697)
* Bug fix: editing/removing project requires Map Management privilege (#681)
* Bug fix: when removeAllListeners is called list of registered listeners is
cleaned (#687)
* Bug fix: when plugin is removed the html elements associated with it are
removed as well (#686)
* Bug fix: when creating new user default privileges are set properly (#692)
* Bug fix: plugin can be added after plugin has been removed in admin plugin
panel (#686)
* Bug fix: too many annotations (>=100) caused misaligning in the left panel
(#708)
* Bug fix: export to svg contains viewBox info (#716)
* Bug fix: overlays added via API couldn't be visualized after refresh (#718)
* Bug fix: Safari sometimes cached server responses and used wrong data, for
example in admin panel configuration tab (#719)
* Bug fix: description of transcription site is centered (#720)
* Bug fix: selecting too few parameters in export doesn't throw reportable
error (#721)
* Bug fix: providing invalid overlay id in url could break minerva (#726)
* Bug fix: removing project that doesn't exist doesn't cause 500 error (#723)
* Bug fix: opening map with invalid id shows proper error message (#724)
* Bug fix: Fixing an issue where search panel was not properly resized on
expansion (#682)
* Bug fix: loading icon is not overlapping input in the search panel (#404)
* Bug fix: position of transcription sites in genes are computed properly
(#553)
* Bug fix: REQUEST AN ACCOUNT was enabled when associated email was invalid
(#626)
* Bug fix: working with too many maps within the single session could crash
connection to server (#651)
* Bug fix: drawing corrupted heterodimer association in CellDesigner could
crash map upload (#673)
* Bug fix: export to CellDesigner align inhibition reaction properly
* Bug fix: export/import to/from SBML handles Heterodimer Association
reaction properly
......@@ -174,9 +110,9 @@ minerva (12.2.0~alpha.0) unstable; urgency=medium
* Bug fix: type of the data overlay can be defined in the file content
(useful when uploading genetic variants)
* Bug fix: CLEAR button clears comment checkbox if necessary
* Bug fix: minerva install problem on ubuntu 16 fixed
* Bug fix: minerva install problem on ubuntu 18 fixed
-- Piotr Gawron <piotr.gawron@uni.lu> Fri, 11 Jan 2019 12:00:00 +0200
-- Piotr Gawron <piotr.gawron@uni.lu> Mon, 25 Mar 2019 17:00:00 +0200
minerva (12.1.8) stable; urgency=medium
* Bug fix: add a project reset users custom overlays limit to default (#679)
......
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