Export - CSV (All fields)
Export - CSV (Current fields)
JAL-4570
PAE tree always shown above the alignment view
Improve dialog when attempting to open non-existing file
allow pairwise alignment gap parameters to be adjusted
"Select format by extension" option in Jalview's "Save As" dialog's file type dropdown menuJAL-4399
Consensus annotations and Tree visualisations for sequence annotation
Improve the Find window to indicate to/allow selection by users as to what is being searched
Option to align after retrieval of sequences before display
Redesign sequence ID tooltip to improve user experienceJAL-4300
New alignment windows from aligment webservices inherit feature settings and layout from input
Copy format and layout settings from another alignment view
Hidden Column arrows are pixel-out aligned with the vertical blue line, and almost hidden at left-hand side of alignment
Fit to width alignment layout option
Automatically discover and import alphaFold or best PDBe model when retrieving proteins from Uniprot
Visible adjuster marks to grab and adjust annotation panel height and id width
make it easier to pick preferred experimental modalities for structure data
"add reference annotation" should ignore when a selection is active and not only add positions for currently highlighted columns/selection range
Automatically add JNet result as reference sequence on the original alignment
More precise control of sequence & alignment associated annotation row visibility
add reference annotation should not by default only add annotation for selected columns
Visualise hidden columns by introducing a gap in the alignment gridJAL-4179
Common nucleotide symbols turns sequence into 'protein', cannot set colour to 'nucleotide'
Allow PAE file to be loaded for an already imported structure
user preferences and structure chooser controls for automatically showing PAE annotation row along side pLDDT when loading structure from alphafold, and control secondary structure and temp factor display
Suggestion for File Save dialog
Shift-Click-Drag to adjust height of all annotation tracks of same type
easier select-by-annotation and shade-by-annotation options
Extend select/hide by annotation to offer highlight by as well
Visual indication of relationship with associated sequence to distinguish different sequence associated annotation rows
Jalview GUI adapted for Touch and Gesture interactions
Highlight aligned positions on all associated structures when mousing over a column
Interactive highlights of sites on 3D structure corresponding for pAE matrix regions
Sequence extent shows start-end for visible sequence range when residues at start or end are hidden
nightingale style contact prediction trackJAL-4055
Should we retire the Jalview Desktop Window
The prev and next page buttons in the Sequence Fetcher FTS panel are often hidden
Disable Autosearch for index change in FTS Sequence Fetcher when autosearch is deselected
Make the 3D-Beacons Search button more buttony and logic for Uniprot search
Select/Fetch all button for database query results
Autosearch disabled by default
quick annotation of a structure via sequence features (that can be undone)
total number of sequences in alignment not obvious when first loaded
Prompt to save unsaved Alignment windows on close or quit
Rendering multiple windows at once
Java Console (and other independent JFrames) appear with default Java icon
Find should report greedy matches only for conditional Regex
Find dialog's 'Ignore hidden regions' setting isn't 'wysiwyg'
Loading a gzipped file and saving it leaves the new file uncompressed
Preferences window can be opened more than once
UX for working with HMMs in Jalview
Next/Previous region navigation buttons
[{"value":"affectedVersion","displayName":"affectedVersion","auto":"true","orderable":"true","searchable":"true","operators":["~","!~","=","!=","in","not in","is","is not","<","<=",">",">="],"types":["com.atlassian.jira.project.version.Version"]},{"value":"assignee","displayName":"assignee","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","is not","was not","was","in","changed","is"],"types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"attachments","displayName":"attachments","searchable":"true","operators":["is","is not"],"types":["com.atlassian.jira.issue.attachment.Attachment"]},{"value":"\"Business Value\"","displayName":"Business Value - cf[10013]","orderable":"true","searchable":"true","cfid":"cf[10013]","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.lang.Number"]},{"value":"category","displayName":"category","auto":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.project.ProjectCategory"]},{"value":"comment","displayName":"comment","searchable":"true","operators":["~","!~"],"types":["java.lang.String"]},{"value":"component","displayName":"component","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.bc.project.component.ProjectComponent"]},{"value":"created","displayName":"created","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"createdDate","displayName":"createdDate","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"creator","displayName":"creator","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"description","displayName":"description","orderable":"true","searchable":"true","operators":["~","!~","is","is not"],"types":["java.lang.String"]},{"value":"Development","displayName":"Development - cf[10340]","orderable":"true","searchable":"true","cfid":"cf[10340]","operators":[">",">=","=","<","<=","in","!~","not in","is","is not"],"types":["java.lang.Number","java.lang.String"]},{"value":"due","displayName":"due","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"duedate","displayName":"duedate","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"environment","displayName":"environment","orderable":"true","searchable":"true","operators":["~","!~","is","is not"],"types":["java.lang.String"]},{"value":"\"Epic/Theme\"","displayName":"Epic/Theme - cf[10030]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10030]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.label.Label"]},{"value":"\"Epic Colour\"","displayName":"Epic Colour - cf[10045]","orderable":"true","searchable":"true","cfid":"cf[10045]","operators":["=","!=","in","not in","is","is not"],"types":["java.lang.String"]},{"value":"\"Epic Link\"","displayName":"Epic Link - cf[10042]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10042]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.Issue"]},{"value":"\"Epic Name\"","displayName":"Epic Name - cf[10043]","orderable":"true","searchable":"true","cfid":"cf[10043]","operators":["~","!~","=","!=","in","not in","is","is not"],"types":["java.lang.String"]},{"value":"\"Epic Status\"","displayName":"Epic Status - cf[10044]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10044]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.customfields.option.Option"]},{"value":"filter","displayName":"filter","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.search.SearchRequest"]},{"value":"fixVersion","displayName":"fixVersion","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","!~","~","changed","is",">=","<","is not","<=","was not","was","in",">"],"types":["com.atlassian.jira.project.version.Version"]},{"value":"Flagged","displayName":"Flagged - cf[10010]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10010]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.customfields.option.Option"]},{"value":"id","displayName":"id","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["com.atlassian.jira.issue.Issue"]},{"value":"issue","displayName":"issue","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["com.atlassian.jira.issue.Issue"]},{"value":"issue.property","displayName":"issue.property","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">=","~","!~","is","is not"],"types":["java.lang.Number","java.lang.String","java.util.Date"]},{"value":"issuekey","displayName":"issuekey","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["com.atlassian.jira.issue.Issue"]},{"value":"issueLinkType","displayName":"issueLinkType","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.link.IssueLinkType"]},{"value":"issuetype","displayName":"issuetype","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.issuetype.IssueType"]},{"value":"key","displayName":"key","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["com.atlassian.jira.issue.Issue"]},{"value":"labels","displayName":"labels","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.label.Label"]},{"value":"lastViewed","displayName":"lastViewed","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"level","displayName":"level","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.security.IssueSecurityLevel"]},{"value":"\"Mantis ID\"","displayName":"Mantis ID - cf[10000]","orderable":"true","searchable":"true","cfid":"cf[10000]","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.lang.Number"]},{"value":"priority","displayName":"priority","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","changed","is",">=","<","is not","<=","was not","was","in",">"],"types":["com.atlassian.jira.issue.priority.Priority"]},{"value":"project","displayName":"project","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.project.Project"]},{"value":"\"Rank (Obsolete)\"","displayName":"Rank (Obsolete) - cf[10040]","orderable":"true","searchable":"true","cfid":"cf[10040]","operators":["is","is not"],"types":["java.lang.Number"]},{"value":"Rank","displayName":"Rank - cf[10240]","orderable":"true","searchable":"true","cfid":"cf[10240]","operators":["=","!=","in","not in","<","<=",">",">="],"types":["java.lang.String"]},{"value":"\"Release Version History\"","displayName":"Release Version History - cf[10020]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10020]","operators":["~","!~","=","!=","in","not in","is","is not","<","<=",">",">="],"types":["com.atlassian.jira.project.version.Version"]},{"value":"reporter","displayName":"reporter","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","is not","was not","was","in","changed","is"],"types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"request","displayName":"request","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.search.SearchRequest"]},{"value":"resolution","displayName":"resolution","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","changed","is",">=","<","is not","<=","was not","was","in",">"],"types":["com.atlassian.jira.issue.resolution.Resolution"]},{"value":"resolutiondate","displayName":"resolutiondate","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"resolved","displayName":"resolved","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"savedfilter","displayName":"savedfilter","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.search.SearchRequest"]},{"value":"searchrequest","displayName":"searchrequest","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.search.SearchRequest"]},{"value":"Sprint","displayName":"Sprint - cf[10041]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10041]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.greenhopper.service.sprint.Sprint"]},{"value":"status","displayName":"status","auto":"true","orderable":"true","searchable":"true","operators":["=","was not in","!=","not in","was in","is not","was not","was","in","changed","is"],"types":["com.atlassian.jira.issue.status.Status"]},{"value":"statusCategory","displayName":"statusCategory","auto":"true","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.issue.status.category.StatusCategory"]},{"value":"\"Story Points\"","displayName":"Story Points - cf[10012]","orderable":"true","searchable":"true","cfid":"cf[10012]","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.lang.Number"]},{"value":"summary","displayName":"summary","orderable":"true","searchable":"true","operators":["~","!~","is","is not"],"types":["java.lang.String"]},{"value":"text","displayName":"text","searchable":"true","operators":["~"],"types":["java.lang.String"]},{"value":"type","displayName":"type","auto":"true","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.issuetype.IssueType"]},{"value":"updated","displayName":"updated","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"updatedDate","displayName":"updatedDate","orderable":"true","searchable":"true","operators":["=","!=","in","not in","is","is not","<","<=",">",">="],"types":["java.util.Date"]},{"value":"Urgency","displayName":"Urgency - cf[10140]","auto":"true","orderable":"true","searchable":"true","cfid":"cf[10140]","operators":["=","!=","in","not in","is","is not"],"types":["com.atlassian.jira.issue.customfields.option.Option"]},{"value":"voter","displayName":"voter","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"votes","displayName":"votes","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["java.lang.Number"]},{"value":"watcher","displayName":"watcher","searchable":"true","operators":["=","!=","in","not in"],"types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"watchers","displayName":"watchers","orderable":"true","searchable":"true","operators":["=","!=","in","not in","<","<=",">",">="],"types":["java.lang.Number"]}]
[{"value":"cascadeOption(\"\")","displayName":"cascadeOption(\"\")","isList":"true","types":["com.atlassian.jira.issue.customfields.option.CascadingOption"]},{"value":"closedSprints()","displayName":"closedSprints()","isList":"true","types":["com.atlassian.greenhopper.service.sprint.Sprint"]},{"value":"componentsLeadByUser()","displayName":"componentsLeadByUser()","isList":"true","types":["com.atlassian.jira.bc.project.component.ProjectComponent"]},{"value":"currentLogin()","displayName":"currentLogin()","types":["java.util.Date"]},{"value":"earliestUnreleasedVersion()","displayName":"earliestUnreleasedVersion()","types":["com.atlassian.jira.project.version.Version"]},{"value":"endOfDay()","displayName":"endOfDay()","types":["java.util.Date"]},{"value":"endOfMonth()","displayName":"endOfMonth()","types":["java.util.Date"]},{"value":"endOfWeek()","displayName":"endOfWeek()","types":["java.util.Date"]},{"value":"endOfYear()","displayName":"endOfYear()","types":["java.util.Date"]},{"value":"futureSprints()","displayName":"futureSprints()","isList":"true","types":["com.atlassian.greenhopper.service.sprint.Sprint"]},{"value":"issueHistory()","displayName":"issueHistory()","isList":"true","types":["com.atlassian.jira.issue.Issue"]},{"value":"issuesWithRemoteLinksByGlobalId(\"\")","displayName":"issuesWithRemoteLinksByGlobalId(\"\")","isList":"true","types":["com.atlassian.jira.issue.Issue"]},{"value":"lastLogin()","displayName":"lastLogin()","types":["java.util.Date"]},{"value":"latestReleasedVersion()","displayName":"latestReleasedVersion()","types":["com.atlassian.jira.project.version.Version"]},{"value":"linkedIssues(\"\")","displayName":"linkedIssues(\"\")","isList":"true","types":["com.atlassian.jira.issue.Issue"]},{"value":"membersOf(\"\")","displayName":"membersOf(\"\")","isList":"true","types":["com.atlassian.jira.user.ApplicationUser"]},{"value":"now()","displayName":"now()","types":["java.util.Date"]},{"value":"openSprints()","displayName":"openSprints()","isList":"true","types":["com.atlassian.greenhopper.service.sprint.Sprint"]},{"value":"projectsLeadByUser()","displayName":"projectsLeadByUser()","isList":"true","types":["com.atlassian.jira.project.Project"]},{"value":"projectsWhereUserHasPermission(\"\")","displayName":"projectsWhereUserHasPermission(\"\")","isList":"true","types":["com.atlassian.jira.project.Project"]},{"value":"projectsWhereUserHasRole(\"\")","displayName":"projectsWhereUserHasRole(\"\")","isList":"true","types":["com.atlassian.jira.project.Project"]},{"value":"releasedVersions()","displayName":"releasedVersions()","isList":"true","types":["com.atlassian.jira.project.version.Version"]},{"value":"standardIssueTypes()","displayName":"standardIssueTypes()","isList":"true","types":["com.atlassian.jira.issue.issuetype.IssueType"]},{"value":"startOfDay()","displayName":"startOfDay()","types":["java.util.Date"]},{"value":"startOfMonth()","displayName":"startOfMonth()","types":["java.util.Date"]},{"value":"startOfWeek()","displayName":"startOfWeek()","types":["java.util.Date"]},{"value":"startOfYear()","displayName":"startOfYear()","types":["java.util.Date"]},{"value":"subTaskIssueTypes()","displayName":"subTaskIssueTypes()","isList":"true","types":["com.atlassian.jira.issue.issuetype.IssueType"]},{"value":"unreleasedVersions()","displayName":"unreleasedVersions()","isList":"true","types":["com.atlassian.jira.project.version.Version"]},{"value":"updatedBy(\"\")","displayName":"updatedBy(\"\")","isList":"true","types":["com.atlassian.jira.issue.Issue"]},{"value":"votedIssues()","displayName":"votedIssues()","isList":"true","types":["com.atlassian.jira.issue.Issue"]},{"value":"watchedIssues()","displayName":"watchedIssues()","isList":"true","types":["com.atlassian.jira.issue.Issue"]}]
["explain","select","isnull","commit","isempty","when","rowid","output","number","character","identified","sqrt","delimiter","else","exclusive","lock","catch","join","strict","greater","if","between","order","having","in","byte","double","subtract","outer","index","raw","is","then","execute","input","as","defaults","field","size","left","unique","difference","returns","begin","modulo","object","trans","minus","access","increment","sum","long","into","uid","current","default","file","goto","min","audit","by","share","where","after","power","escape","connect","noaudit","table","validate","cf","set","break","initial","max","more","column","right","trigger","union","asc","rename","decrement","equals","fetch","char","exists","notin","to","first","return","transaction","checkpoint","date","privileges","declare","before","do","integer","float","while","empty","mode","view","whenever","prior","continue","function","intersection","limit","raise","create","from","collation","alter","group","add","all","last","like","resource","count","check","less","encoding","inner","rownum","collate","null","abort","immediate","true","decimal","exec","nowait","changed","desc","option","drop","next","string","session","values","for","distinct","insert","revoke","update","delete","not","synonym","avg","public","and","of","define","alias","divide","end","row","multiply","on","or","intersect","previous","false","go","start","was","rows","any","int","modify","with","inout","boolean","grant","remainder","user"]
{"searchers":{"groups":[{"searchers":[{"name":"Project","id":"project","key":"issue.field.project","isShown":true,"lastViewed":1751756722478},{"name":"Summary","id":"summary","key":"issue.field.summary","isShown":true},{"name":"Type","id":"issuetype","key":"issue.field.issuetype","isShown":true,"lastViewed":1751756722478},{"name":"Status","id":"status","key":"issue.field.status","isShown":true,"lastViewed":1751756722480},{"name":"Priority","id":"priority","key":"issue.field.priority","isShown":true},{"name":"Resolution","id":"resolution","key":"issue.field.resolution","isShown":true},{"name":"Creator","id":"creator","key":"issue.field.creator","isShown":true},{"name":"Affects Version","id":"version","key":"issue.field.affectsversions","isShown":true},{"name":"Fix Version","id":"fixfor","key":"issue.field.fixversions","isShown":true},{"name":"Component","id":"component","key":"issue.field.components","isShown":true,"lastViewed":1751756722482},{"name":"% Limits","id":"workratio","key":"issue.field.workratio","isShown":true},{"name":"Link types","id":"issue_link_type","key":"issue.field.issuelinks","isShown":true},{"name":"Environment","id":"environment","key":"issue.field.environment","isShown":true},{"name":"Description","id":"description","key":"issue.field.description","isShown":true},{"name":"Comment","id":"comment","key":"issue.field.comment","isShown":true},{"name":"Label","id":"labels","key":"issue.field.labels","isShown":true},{"name":"Query","id":"text","key":"text","isShown":true},{"name":"Business Value","id":"customfield_10013","key":"com.atlassian.jira.plugin.system.customfieldtypes:float","isShown":false},{"name":"Development","id":"customfield_10340","key":"com.atlassian.jira.plugins.jira-development-integration-plugin:devsummary","isShown":true},{"name":"Epic Colour","id":"customfield_10045","key":"com.pyxis.greenhopper.jira:gh-epic-color","isShown":false},{"name":"Epic Link","id":"customfield_10042","key":"com.pyxis.greenhopper.jira:gh-epic-link","isShown":true},{"name":"Epic Name","id":"customfield_10043","key":"com.pyxis.greenhopper.jira:gh-epic-label","isShown":true},{"name":"Epic Status","id":"customfield_10044","key":"com.pyxis.greenhopper.jira:gh-epic-status","isShown":false},{"name":"Epic/Theme","id":"customfield_10030","key":"com.atlassian.jira.plugin.system.customfieldtypes:labels","isShown":true},{"name":"Flagged","id":"customfield_10010","key":"com.atlassian.jira.plugin.system.customfieldtypes:multicheckboxes","isShown":true},{"name":"Mantis ID","id":"customfield_10000","key":"com.atlassian.jira.plugin.system.customfieldtypes:importid","isShown":true},{"name":"Rank","id":"customfield_10240","key":"com.pyxis.greenhopper.jira:gh-lexo-rank","isShown":true},{"name":"Rank (Obsolete)","id":"customfield_10011","key":"com.atlassian.jira.plugin.system.customfieldtypes:float","isShown":false},{"name":"Rank (Obsolete)","id":"customfield_10040","key":"com.pyxis.greenhopper.jira:gh-global-rank","isShown":true},{"name":"Release Version History","id":"customfield_10020","key":"com.pyxis.greenhopper.jira:greenhopper-releasedmultiversionhistory","isShown":true},{"name":"Sprint","id":"customfield_10041","key":"com.pyxis.greenhopper.jira:gh-sprint","isShown":true},{"name":"Story Points","id":"customfield_10012","key":"com.atlassian.jira.plugin.system.customfieldtypes:float","isShown":false},{"name":"Urgency","id":"customfield_10140","key":"com.atlassian.jira.plugin.system.customfieldtypes:select","isShown":true}],"type":"DETAILS","title":"Details"},{"searchers":[{"name":"Created Date","id":"created","key":"issue.field.created","isShown":true},{"name":"Updated Date","id":"updated","key":"issue.field.updated","isShown":true},{"name":"Resolution Date","id":"resolutiondate","key":"issue.field.resolution.date","isShown":true},{"name":"Due Date","id":"duedate","key":"issue.field.duedate","isShown":true}],"type":"DATES","title":"Dates"},{"searchers":[{"name":"Assignee","id":"assignee","key":"issue.field.assignee","isShown":true,"lastViewed":1751756722481},{"name":"Reporter","id":"reporter","key":"issue.field.reporter","isShown":true}],"type":"PEOPLE","title":"People"}]},"values":{"issuetype":{"name":"Type","editHtml":"\n\n\n\n <div class=\"field-group aui-field-issuetype\" >\n <label for=\"searcher-type\">Type</label>\n <select class=\"select js-default-checkboxmultiselect\" id=\"searcher-type\" multiple=\"multiple\" name=\"type\"\n data-placeholder-text=\"Find Issue Types...\" size=\"5\">\n <optgroup>\n \n <option class=\" \"\n id=\"type_-2\"\n title=\"All Standard Issue Types\"\n value=\"-2\">All Standard Issue Types</option>\n </optgroup>\n\n <optgroup label=\"Standard Issue Types\">\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10843&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_1\"\n title=\"Bug\"\n value=\"1\">Bug</option>\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10847&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_5\"\n title=\"Epic\"\n value=\"5\">Epic</option>\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10850&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_4\"\n title=\"Improvement\"\n value=\"4\">Improvement</option>\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10851&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_2\"\n title=\"New Feature\"\n value=\"2\">New Feature</option>\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10855&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_6\"\n title=\"Story\"\n value=\"6\">Story</option>\n \n <option class=\" imagebacked 10000 \"\n data-icon=\"/secure/viewavatar?size=xsmall&avatarId=10858&avatarType=issuetype\"\n data-fallback-icon=\"/images/icons/issuetypes/blank.png\"\n id=\"type_3\"\n title=\"Task\"\n value=\"3\">Task</option>\n </optgroup>\n\n <optgroup label=\"Sub-Task Issue Types\">\n </optgroup>\n </select>\n </div>\n ","validSearcher":true,"isShown":true},"component":{"name":"Component","viewHtml":" <div class=\"searcherValue\">\n \n <label class=\"fieldLabel\" for=\"fieldcomponent\">Component:</label><span id=\"fieldcomponent\" class=\"fieldValue\">\n \n gui design issue </span></div>\n","editHtml":"\n <div class=\"field-group aui-field-projectconstant\" >\n <label for=\"searcher-component\">Component</label>\n <select class=\"select js-default-checkboxmultiselect\" id=\"searcher-component\" multiple=\"multiple\" name=\"component\" size=\"2\" aria-label=\"Search for components\">\n <optgroup label=\"\">\n <option value=\"-1\" title=\"No Component\">No Component</option>\n </optgroup>\n <optgroup label=\"\">\n <option value=\"id:analysis\" title=\"analysis\">analysis</option>\n <option value=\"id:annotation\" title=\"annotation\">annotation</option>\n <option value=\"id:awt-gui\" title=\"awt-gui\">awt-gui</option>\n <option value=\"id:Bamboo\" title=\"Bamboo\">Bamboo</option>\n <option value=\"id:Benchmarking\" title=\"Benchmarking\">Benchmarking</option>\n <option value=\"id:bioconda\" title=\"bioconda\">bioconda</option>\n <option value=\"id:bob\" title=\"bob\">bob</option>\n <option value=\"id:cds/protein\" title=\"cds/protein\">cds/protein</option>\n <option value=\"id:checkstyle\" title=\"checkstyle\">checkstyle</option>\n <option value=\"id:chimerax\" title=\"chimerax\">chimerax</option>\n <option value=\"id:colourschemes\" title=\"colourschemes\">colourschemes</option>\n <option value=\"id:Command Line Interface\" title=\"Command Line Interface\">Command Line Interface</option>\n <option value=\"id:conda\" title=\"conda\">conda</option>\n <option value=\"id:controller\" title=\"controller\">controller</option>\n <option value=\"id:DAS\" title=\"DAS\">DAS</option>\n <option value=\"id:data retrieval services\" title=\"data retrieval services\">data retrieval services</option>\n <option value=\"id:Datamodel\" title=\"Datamodel\">Datamodel</option>\n <option value=\"id:debian\" title=\"debian\">debian</option>\n <option value=\"id:Dev and Dep\" title=\"Dev and Dep\">Dev and Dep</option>\n <option value=\"id:documentation\" title=\"documentation\">documentation</option>\n <option value=\"id:editing\" title=\"editing\">editing</option>\n <option value=\"id:Efficiency\" title=\"Efficiency\">Efficiency</option>\n <option value=\"id:Feature Request\" title=\"Feature Request\">Feature Request</option>\n <option value=\"id:feature retrieval service\" title=\"feature retrieval service\">feature retrieval service</option>\n <option value=\"id:file format issue\" title=\"file format issue\">file format issue</option>\n <option value=\"id:find\" title=\"find\">find</option>\n <option value=\"id:genomes\" title=\"genomes\">genomes</option>\n <option value=\"id:getdown\" title=\"getdown\">getdown</option>\n <option value=\"id:gradle\" title=\"gradle\">gradle</option>\n <option value=\"id:groups\" title=\"groups\">groups</option>\n <option value=\"id:gui\" title=\"gui\">gui</option>\n <option selected=\"selected\" value=\"id:gui design issue\" title=\"gui design issue\">gui design issue</option>\n <option value=\"id:i18n\" title=\"i18n\">i18n</option>\n <option value=\"id:install4j\" title=\"install4j\">install4j</option>\n <option value=\"id:Jalview Project\" title=\"Jalview Project\">Jalview Project</option>\n <option value=\"id:jalview-j2s\" title=\"jalview-j2s\">jalview-j2s</option>\n <option value=\"id:jalview-slivka\" title=\"jalview-slivka\">jalview-slivka</option>\n <option value=\"id:java11\" title=\"java11\">java11</option>\n <option value=\"id:java8\" title=\"java8\">java8</option>\n <option value=\"id:java9\" title=\"java9\">java9</option>\n <option value=\"id:jvdesktop\" title=\"jvdesktop\">jvdesktop</option>\n <option value=\"id:JVL-Ajax\" title=\"JVL-Ajax\">JVL-Ajax</option>\n <option value=\"id:jvlite\" title=\"jvlite\">jvlite</option>\n <option value=\"id:JWS-GUI\" title=\"JWS-GUI\">JWS-GUI</option>\n <option value=\"id:JWS1\" title=\"JWS1\">JWS1</option>\n <option value=\"id:JWS2\" title=\"JWS2\">JWS2</option>\n <option value=\"id:launcher\" title=\"launcher\">launcher</option>\n <option value=\"id:localexecution\" title=\"localexecution\">localexecution</option>\n <option value=\"id:logging\" title=\"logging\">logging</option>\n <option value=\"id:na\" title=\"na\">na</option>\n <option value=\"id:openjdk\" title=\"openjdk\">openjdk</option>\n <option value=\"id:OSX-App\" title=\"OSX-App\">OSX-App</option>\n <option value=\"id:overview\" title=\"overview\">overview</option>\n <option value=\"id:PAE\" title=\"PAE\">PAE</option>\n <option value=\"id:pdbe\" title=\"pdbe\">pdbe</option>\n <option value=\"id:printing and export\" title=\"printing and export\">printing and export</option>\n <option value=\"id:Properties and Preferences\" title=\"Properties and Preferences\">Properties and Preferences</option>\n <option value=\"id:provenance\" title=\"provenance\">provenance</option>\n <option value=\"id:pymol\" title=\"pymol\">pymol</option>\n <option value=\"id:Release-process\" title=\"Release-process\">Release-process</option>\n <option value=\"id:renderer\" title=\"renderer\">renderer</option>\n <option value=\"id:REST-API\" title=\"REST-API\">REST-API</option>\n <option value=\"id:Scriptable API\" title=\"Scriptable API\">Scriptable API</option>\n <option value=\"id:selection\" title=\"selection\">selection</option>\n <option value=\"id:sequencefeatures\" title=\"sequencefeatures\">sequencefeatures</option>\n <option value=\"id:server event\" title=\"server event\">server event</option>\n <option value=\"id:slivka\" title=\"slivka\">slivka</option>\n <option value=\"id:Structures\" title=\"Structures\">Structures</option>\n <option value=\"id:Test suite\" title=\"Test suite\">Test suite</option>\n <option value=\"id:training\" title=\"training\">training</option>\n <option value=\"id:Translations\" title=\"Translations\">Translations</option>\n <option value=\"id:trees\" title=\"trees\">trees</option>\n <option value=\"id:urllinks\" title=\"urllinks\">urllinks</option>\n <option value=\"id:usernews\" title=\"usernews\">usernews</option>\n <option value=\"id:uxstudy\" title=\"uxstudy\">uxstudy</option>\n <option value=\"id:vamsas\" title=\"vamsas\">vamsas</option>\n <option value=\"id:variants\" title=\"variants\">variants</option>\n <option value=\"id:varna\" title=\"varna\">varna</option>\n <option value=\"id:web service bug\" title=\"web service bug\">web service bug</option>\n <option value=\"id:web service request\" title=\"web service request\">web service request</option>\n <option value=\"id:website\" title=\"website\">website</option>\n <option value=\"id:Webstart\" title=\"Webstart\">Webstart</option>\n <option value=\"id:Window Geom\" title=\"Window Geom\">Window Geom</option>\n </optgroup>\n </select>\n </div>\n ","jql":"component = \"gui design issue\"","validSearcher":true,"isShown":true},"project":{"name":"Project","viewHtml":" <div class=\"searcherValue\">\n \n <label class=\"fieldLabel\" for=\"fieldpid\">Project:</label><span id=\"fieldpid\" class=\"fieldValue\">\n \n <a href=\"/browse/JAL\" title=\"Browse Jalview project\">Jalview</a> </span></div>\n","editHtml":"\n <div class=\"field-group aui-field-project\" >\n <label for=\"searcher-pid\">Project</label>\n \n\n <select class=\"select js-default-checkboxmultiselect\" data-placeholder-text=\"Find Projects...\" id=\"searcher-pid\" multiple=\"multiple\" name=\"pid\" size=\"5\">\n <optgroup label=\"All Projects\">\n \n <option data-icon=\"/secure/projectavatar?pid=10020&size=small\"\n title=\"JABAWS\"\n value=\"10020\">\n JABAWS (JWS)\n </option>\n \n <option data-icon=\"/secure/projectavatar?pid=10010&size=small\"\n selected=\"selected\" title=\"Jalview\"\n value=\"10010\">\n Jalview (JAL)\n </option>\n \n <option data-icon=\"/secure/projectavatar?pid=10030&size=small\"\n title=\"JPred\"\n value=\"10030\">\n JPred (JPRED)\n </option>\n \n <option data-icon=\"/secure/projectavatar?pid=10130&size=small\"\n title=\"ProteoCache\"\n value=\"10130\">\n ProteoCache (PROT)\n </option>\n \n <option data-icon=\"/secure/projectavatar?pid=10230&size=small\"\n title=\"The jalview.org websites \"\n value=\"10230\">\n The jalview.org websites (JVO)\n </option>\n </optgroup>\n </select>\n </div>\n \n","jql":"project = JAL","validSearcher":true,"isShown":true},"assignee":{"name":"Assignee","editHtml":"\n \n <div class=\"field-group aui-field-userlist\" >\n <label for=\"searcher-assigneeSelect\">Assignee</label>\n <fieldset rel=\"assignee\" class=\"hidden user-group-searcher-params\">\n </fieldset>\n <select class=\"js-usergroup-checkboxmultiselect\" multiple=\"multiple\" id=\"assignee\" name=\"assignee\" data-placeholder-text=\"Enter username or group\">\n <optgroup>\n <option class=\"headerOption\" data-icon=\"https://issues.jalview.org/secure/useravatar?size=xsmall&avatarId=10063\" value=\"empty\" title=\"Unassigned\">Unassigned</option>\n </optgroup>\n <optgroup>\n </optgroup>\n </select>\n <input type=\"hidden\" name=\"check_prev_assignee\" value=\"true\">\n </div>\n \n","validSearcher":true,"isShown":true},"status":{"name":"Status","editHtml":"\n <div class=\"field-group aui-field-constants\" >\n <label for=\"searcher-status\">Status</label>\n \n <select class=\"select js-default-checkboxmultiselectstatuslozenge\" data-placeholder-text=\"Find Statuses...\" id=\"searcher-status\" multiple=\"multiple\" name=\"status\" size=\"4\" data-status-lozenge=\"true\">\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/open.png\" value=\"1\" title=\"Open\" data-simple-status=\"{"id":"1","name":"Open","description":"The issue is open and ready for the assignee to start work on it.","iconUrl":"/images/icons/statuses/open.png","statusCategory":{"id":2,"key":"new","colorName":"blue-gray"}}\">Open</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/inprogress.png\" value=\"3\" title=\"In Progress\" data-simple-status=\"{"id":"3","name":"In Progress","description":"This issue is being actively worked on at the moment by the assignee.","iconUrl":"/images/icons/statuses/inprogress.png","statusCategory":{"id":4,"key":"indeterminate","colorName":"yellow"}}\">In Progress</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/reopened.png\" value=\"4\" title=\"Reopened\" data-simple-status=\"{"id":"4","name":"Reopened","description":"This issue was once resolved, but the resolution was deemed incorrect. From here issues are either marked assigned or resolved.","iconUrl":"/images/icons/statuses/reopened.png","statusCategory":{"id":2,"key":"new","colorName":"blue-gray"}}\">Reopened</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/resolved.png\" value=\"5\" title=\"Resolved\" data-simple-status=\"{"id":"5","name":"Resolved","description":"A resolution has been taken, and it is awaiting verification by reporter. From here issues are either reopened, or are closed.","iconUrl":"/images/icons/statuses/resolved.png","statusCategory":{"id":3,"key":"done","colorName":"green"}}\">Resolved</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/closed.png\" value=\"6\" title=\"Closed\" data-simple-status=\"{"id":"6","name":"Closed","description":"The issue is considered finished, the resolution is correct. Issues which are closed can be reopened.","iconUrl":"/images/icons/statuses/closed.png","statusCategory":{"id":3,"key":"done","colorName":"green"}}\">Closed</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/generic.png\" value=\"10000\" title=\"Being documented\" data-simple-status=\"{"id":"10000","name":"Being documented","description":"Feature implementation is complete and passed alpha-testing, and now ready for documentation.","iconUrl":"/images/icons/statuses/generic.png","statusCategory":{"id":4,"key":"indeterminate","colorName":"yellow"}}\">Being documented</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/generic.png\" value=\"10002\" title=\"Ready for testing\" data-simple-status=\"{"id":"10002","name":"Ready for testing","description":"Feature is ready for testing by non-developers","iconUrl":"/images/icons/statuses/generic.png","statusCategory":{"id":4,"key":"indeterminate","colorName":"yellow"}}\">Ready for testing</option>\n <option class=\"imagebacked\" data-icon=\"/images/icons/statuses/generic.png\" value=\"10003\" title=\"Being tested\" data-simple-status=\"{"id":"10003","name":"Being tested","description":"","iconUrl":"/images/icons/statuses/generic.png","statusCategory":{"id":4,"key":"indeterminate","colorName":"yellow"}}\">Being tested</option>\n </select>\n </div>\n \n","validSearcher":true,"isShown":true}}}
[{"id":-1,"name":"My open issues","jql":"assignee = currentUser() AND resolution = Unresolved order by updated DESC","isSystem":true,"sharePermissions":[],"requiresLogin":true},{"id":-2,"name":"Reported by me","jql":"reporter = currentUser() order by created DESC","isSystem":true,"sharePermissions":[],"requiresLogin":true},{"id":-4,"name":"All issues","jql":"order by created DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-5,"name":"Open issues","jql":"resolution = Unresolved order by priority DESC,updated DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-9,"name":"Done issues","jql":"statusCategory = Done order by updated DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-3,"name":"Viewed recently","jql":"issuekey in issueHistory() order by lastViewed DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-6,"name":"Created recently","jql":"created >= -1w order by created DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-7,"name":"Resolved recently","jql":"resolutiondate >= -1w order by updated DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false},{"id":-8,"name":"Updated recently","jql":"updated >= -1w order by updated DESC","isSystem":true,"sharePermissions":[],"requiresLogin":false}]