Ecosyste.ms: Issues

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GitHub / dondi/GRNsight issues and pull requests

#1170 - #1148 include test coverage in actions

Pull Request - State: open - Opened by akaiap 3 days ago

#1169 - Lingering consistency issues regarding type of network

Issue - State: open - Opened by dondi 10 days ago
Labels: functionality, priority 0.5

#1168 - #1082: Fixed Fit to Window Functionality

Pull Request - State: closed - Opened by ceciliazaragoza 10 days ago

#1167 - updated documentation for V7.2

Pull Request - State: open - Opened by akaiap 10 days ago

#1166 - LMU URS 2025 poster (March 12 review; March 17 printing; March 21 symposium)

Issue - State: open - Opened by kdahlquist 17 days ago - 8 comments
Labels: documentation, priority 0, logistics

#1165 - Add annotation_type to our database

Issue - State: open - Opened by dondi 17 days ago - 1 comment
Labels: feature request, priority 0.5, database

#1164 - Attach timestamps to genes

Issue - State: open - Opened by dondi 17 days ago
Labels: priority 0.5, database

#1163 - Adding release notes 7.2.0 to About page

Pull Request - State: closed - Opened by ntran18 21 days ago - 1 comment

#1162 - Rename `master` to `main`

Issue - State: closed - Opened by dondi 24 days ago - 5 comments
Labels: priority 0.5, logistics

#1161 - Perform the Onboarding Checklist steps

Issue - State: closed - Opened by dondi 24 days ago - 13 comments
Labels: priority 0, logistics

#1160 - GRNsight meetings for Spring 2025

Issue - State: closed - Opened by kdahlquist about 1 month ago - 7 comments
Labels: logistics

#1159 - v7.2 release candidate

Pull Request - State: closed - Opened by dondi 2 months ago

#1158 - Update client-side testing document for PPI-related changes

Issue - State: open - Opened by dondi 2 months ago - 3 comments
Labels: documentation, testing, priority 0, review requested

#1157 - Release checklist for v7.2

Issue - State: open - Opened by dondi 2 months ago - 5 comments
Labels: priority 0

#1156 - #1146 syncing GitHub actions to badge

Pull Request - State: closed - Opened by akaiap 2 months ago - 1 comment
Labels: review requested

#1155 - #1145 gain compatibility with node 20.x

Pull Request - State: closed - Opened by akaiap 2 months ago
Labels: review requested

#1154 - #1030 Change environment variable name

Pull Request - State: closed - Opened by ntran18 2 months ago

#1153 - #1144 Disable node coloring when uploading file with no expression

Pull Request - State: closed - Opened by ntran18 2 months ago
Labels: review requested

#1152 - Switching Network Mode between GRN and PPI don't give the correct nodes and coloring.

Issue - State: open - Opened by ntran18 2 months ago
Labels: bug, functionality

#1150 - Can't load same demo after loading from database

Issue - State: open - Opened by kdahlquist 3 months ago - 1 comment
Labels: bug, priority 0

#1149 - #1147 include npm lint

Pull Request - State: closed - Opened by akaiap 3 months ago - 2 comments
Labels: review requested

#1148 - Include test coverage results in GitHub Action CI script

Issue - State: open - Opened by dondi 3 months ago - 11 comments
Labels: priority 0, logistics

#1147 - Include `npm lint` in GitHub Action CI script

Issue - State: open - Opened by dondi 3 months ago - 1 comment
Labels: for next release

#1146 - Hook up GitHub Actions results to badge in README

Issue - State: open - Opened by dondi 3 months ago - 2 comments
Labels: for next release

#1145 - Gain compatibility with Node 20.x and higher

Issue - State: open - Opened by dondi 3 months ago - 2 comments
Labels: for next release

#1144 - If a Excel file is loaded with no expression data, default node coloring to "off"

Issue - State: closed - Opened by kdahlquist 3 months ago - 1 comment
Labels: priority 0, enhancement

#1143 - #1142: Warning String Displays Correctly

Pull Request - State: closed - Opened by ceciliazaragoza 3 months ago
Labels: code review

#1142 - Species warning has stopped appearing in `beta`

Issue - State: closed - Opened by dondi 3 months ago - 1 comment
Labels: bug, review requested

#1141 - #59 Improve current export images (png and pdf)

Pull Request - State: closed - Opened by ntran18 3 months ago - 1 comment

#1140 - Addition fix to previous fix for #1093

Pull Request - State: closed - Opened by ntran18 3 months ago - 1 comment
Labels: code review

#1139 - Navbar dataset for node coloring selected is not checked

Issue - State: closed - Opened by ntran18 3 months ago - 4 comments
Labels: bug, review requested

#1138 - #1053 fixing p.length error

Pull Request - State: closed - Opened by ntran18 3 months ago - 1 comment
Labels: code review

#1135 - Issue 1118 GitHub actions

Pull Request - State: closed - Opened by akaiap 3 months ago - 1 comment

#1134 - #1068 Allow node coloring for PPI by matching the gene name (MERGE #1080 first)

Pull Request - State: closed - Opened by ntran18 4 months ago
Labels: review requested

#1133 - #1098 Fixing file selector appears twice after importing wrong file

Pull Request - State: closed - Opened by ntran18 4 months ago
Labels: review requested

#1129 - 1080: Node Coloring Navbar and Sidebar synced and PPI warning displays less

Pull Request - State: closed - Opened by ceciliazaragoza 4 months ago - 1 comment

#1126 - The graph not display correctly after changing dataset for node coloring

Issue - State: closed - Opened by ntran18 4 months ago - 4 comments
Labels: priority 0, review requested

#1123 - Remove testing schema that I forgot to delete

Pull Request - State: closed - Opened by ntran18 4 months ago

#1122 - End markers are missing

Issue - State: closed - Opened by kdahlquist 4 months ago - 6 comments
Labels: bug, functionality, priority 0, review requested

#1120 - Port database loading scripts to AllianceMine

Issue - State: open - Opened by dondi 4 months ago - 24 comments
Labels: priority 0, database

#1119 - Restrict Graph to Viewport Hotfix: Navbar

Pull Request - State: closed - Opened by ceciliazaragoza 4 months ago - 2 comments
Labels: priority 0, review requested

#1118 - Migrate CI unit-testing and coverage reports to GitHub Actions

Issue - State: closed - Opened by dondi 5 months ago - 9 comments
Labels: priority 0, review requested

#1117 - 7.1 version merge

Pull Request - State: closed - Opened by ntran18 5 months ago

#1116 - Fix script to correctly update the genes

Pull Request - State: closed - Opened by ntran18 5 months ago

#1115 - Scheduling Fall group meetings

Issue - State: closed - Opened by kdahlquist 6 months ago - 4 comments
Labels: priority 0, logistics

#1114 - Fixing PR #1112 to Restrict D-pad

Pull Request - State: closed - Opened by ceciliazaragoza 10 months ago

#1113 - #1106 Writing Scripts for Updating Database and Refactor Code

Pull Request - State: closed - Opened by ntran18 10 months ago

#1111 - #1106 fixing off-by-one column issue.

Pull Request - State: closed - Opened by ntran18 10 months ago

#1109 - Issue #1081 Node Coloring Top Menu Availability of Options

Pull Request - State: closed - Opened by ceciliazaragoza 10 months ago - 2 comments

#1108 - When exporting to Excel, the option to export the "network_weights" sheet should be available at all times

Issue - State: closed - Opened by kdahlquist 11 months ago - 3 comments
Labels: bug, functionality, priority 0.5, review requested

#1107 - When exporting to Excel, default value for alpha on the optimization_parameters sheet should be 0.02, not 0.002

Issue - State: closed - Opened by kdahlquist 11 months ago - 2 comments
Labels: feature request, functionality, priority 0.5, review requested

#1106 - ERT1 not in network database

Issue - State: closed - Opened by kdahlquist 11 months ago - 26 comments
Labels: bug, priority 0, for next release, database

#1105 - Update network and protein protein database

Pull Request - State: closed - Opened by ntran18 11 months ago - 1 comment

#1104 - Update People page with UGRS in-person photo

Issue - State: closed - Opened by dondi 11 months ago - 4 comments
Labels: web site, priority 0

#1103 - Error with import function on beta

Issue - State: closed - Opened by nchun2 11 months ago - 2 comments
Labels: bug

#1102 - Further testing opening sif files for GRNs and PPIs

Issue - State: closed - Opened by kdahlquist 11 months ago - 1 comment
Labels: bug, functionality, priority 0.5, review requested

#1101 - Fix Export SIF

Pull Request - State: closed - Opened by ntran18 11 months ago - 1 comment

#1100 - Fix issue #1099 to stop loading demo 1 when exporting sif, graphml

Pull Request - State: closed - Opened by ntran18 12 months ago - 1 comment

#1099 - Exporting file reload demo 1

Issue - State: closed - Opened by ntran18 12 months ago - 1 comment
Labels: bug, priority 0, for next release

#1098 - Importing new files has some delays

Issue - State: closed - Opened by ntran18 12 months ago - 6 comments
Labels: bug, priority 0, review requested

#1096 - Fixing the network mode for export function #1079

Pull Request - State: closed - Opened by ntran18 12 months ago

#1095 - Look into Travis user limit for free plan

Issue - State: closed - Opened by dondi 12 months ago - 2 comments
Labels: priority 0

#1093 - D-pad, zoom slider, and cursor drag do not move graph after export to SVG

Issue - State: closed - Opened by ceciliazaragoza 12 months ago - 4 comments
Labels: bug, priority 0, review requested

#1091 - Importing empty network with network tab of Excel file crashes the website

Issue - State: closed - Opened by ntran18 about 1 year ago - 2 comments
Labels: bug, priority 0, for next release

#1090 - make LMU URS poster so it can be printed before the March 15 symposium

Issue - State: closed - Opened by kdahlquist about 1 year ago - 36 comments
Labels: documentation, priority 0, logistics

#1089 - Update network database with new data from Intermine/SGD

Issue - State: closed - Opened by kdahlquist about 1 year ago - 11 comments
Labels: priority 0, database

#1088 - Setup ssh keys to facilitate GRNsight deployments

Issue - State: open - Opened by dondi about 1 year ago - 1 comment
Labels: priority 0, logistics

#1086 - Style Updates from Issue #1002

Pull Request - State: closed - Opened by ceciliazaragoza about 1 year ago - 1 comment

#1085 - Fixing issue #1072.

Pull Request - State: open - Opened by ntran18 about 1 year ago - 3 comments

#1084 - Test export/import cycle for GRNsight-->GRNsight/GRNmap

Issue - State: open - Opened by kdahlquist about 1 year ago
Labels: functionality, testing, priority 0

#1083 - Checking restrict graph to viewport makes the D-pad and zoom slider on the viewport disappear

Issue - State: closed - Opened by kdahlquist about 1 year ago - 12 comments
Labels: bug, functionality, priority 0, review requested

#1082 - Selecting a particular sequence of view options causes graph to shrink to the size of one node

Issue - State: closed - Opened by kdahlquist about 1 year ago - 14 comments
Labels: bug, review requested, graph layout

#1081 - node coloring top menu availability of options

Issue - State: closed - Opened by kdahlquist about 1 year ago - 1 comment
Labels: bug, priority 0, review requested, node coloring

#1080 - node coloring glitch when loading network from database

Issue - State: closed - Opened by kdahlquist about 1 year ago - 16 comments
Labels: bug, priority 0, review requested, node coloring

#1079 - Problems opening .sif and .graphml files

Issue - State: closed - Opened by kdahlquist about 1 year ago - 13 comments
Labels: bug, priority 0.5, for next release

#1078 - Onboarding for Cecilia & A’Kaia

Issue - State: closed - Opened by dondi about 1 year ago - 22 comments
Labels: priority 0

#1077 - Release checklist for v7.1

Issue - State: closed - Opened by dondi about 1 year ago - 24 comments
Labels: priority 0

#1076 - Meeting time for Spring 2024 semester

Issue - State: closed - Opened by kdahlquist about 1 year ago - 9 comments
Labels: priority 0, logistics

#1075 - Adding PPI demo #1065

Pull Request - State: closed - Opened by ntran18 about 1 year ago

#1074 - When GRN loaded from file with no expression data, nodes are colored gray instead of white

Issue - State: closed - Opened by kdahlquist about 1 year ago - 8 comments
Labels: bug, priority 0, review requested, node coloring

#1073 - Adding changes for #1072 issue

Pull Request - State: closed - Opened by ntran18 about 1 year ago

#1072 - Review PPI database-loading script

Issue - State: closed - Opened by dondi about 1 year ago - 4 comments
Labels: priority 0, review requested, database

#1071 - Disclaimer for lack of node-coloring PPI support

Issue - State: closed - Opened by dondi about 1 year ago - 3 comments
Labels: priority 0, node coloring, network