[IGBF-4248] Investigate: App Descriptions in App Manager have very faint text - JIRA UNCC

Ann Loraine created issue - 17/Jun/25 10:21 AM

Ann Loraine made changes - 17/Jun/25 10:21 AM

Field	Original Value	New Value
Epic Link		IGBF-1765 [ 17855 ]

Ann Loraine made changes - 17/Jun/25 10:30 AM

Description

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager.

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager.

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager

Ann Loraine made changes - 17/Jun/25 10:31 AM

Description

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager.

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0 to start

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager

Ann Loraine made changes - 17/Jun/25 10:32 AM

Description

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0 to start

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0 to start

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager and https://wiki.bioviz.org/confluence/display/ITD/App+Manager

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Ann Loraine added a comment - 17/Jun/25 11:14 AM - edited

Update - testing on an Apple M3 computer:

Tested IGB 10.0.0 - faint text was shown, bug was present
Tested IGB 9.1.10 - faint text was shown, bug was present

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Ann Loraine added a comment - 17/Jun/25 11:14 AM - edited Update - testing on an Apple M3 computer: Tested IGB 10.0.0 - faint text was shown, bug was present Tested IGB 9.1.10 - faint text was shown, bug was present

Ann Loraine made changes - 17/Jun/25 11:15 AM

Summary

The App Manager is not rendering the App Descriptions properly and now they are very hard to read

Investigate: App Descriptions in App Manager have very faint text

Ann Loraine made changes - 17/Jun/25 11:17 AM

Description

I don't know when this happened, but it affects IGB 10.1 and higher.

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Fix the problem in IGB
* Also, please investigate how this error escaped our testing process! Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0 to start

See screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager and https://wiki.bioviz.org/confluence/display/ITD/App+Manager

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

[~ann.loraine] and [~sjagarap] both observed the same issue on their computers.
[~ann.loraine]'s machine is an Apple M3 running Sonoma 14.3.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Investigate if the same issue appears on other OS and chip types? (It might be platform-specific.)
* Also, please investigate how this error escaped our testing process! (It might be platform specific.) Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0

See attached screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager and https://wiki.bioviz.org/confluence/display/ITD/App+Manager

Ann Loraine made changes - 17/Jun/25 11:35 AM

Attachment

Screen Shot 2018-06-19 at 12.13.11 PM.png [ 18709 ]

Ann Loraine made changes - 17/Jun/25 11:37 AM

Description

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

[~ann.loraine] and [~sjagarap] both observed the same issue on their computers.
[~ann.loraine]'s machine is an Apple M3 running Sonoma 14.3.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Investigate if the same issue appears on other OS and chip types? (It might be platform-specific.)
* Also, please investigate how this error escaped our testing process! (It might be platform specific.) Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0

See attached screen capture showing a page from the User's guide and the App Manager window from IGB 10.1.0. Notice how the text is hard to read in the App Manager but not hard to read at all in the image from an earlier version of IGB shown in the User's Guide.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager and https://wiki.bioviz.org/confluence/display/ITD/App+Manager

When a user opens the IGB Manager and selects an App in the left-side panel, the user should see a description of the App. Currently, the text is light gray and is hard to read.

[~ann.loraine] and [~sjagarap] both observed the same issue on their computers.
[~ann.loraine]'s machine is an Apple M3 running Sonoma 14.3.

For this task:

* Check older versions of IGB to determine when this bug appears - check version 10.0.0 and then versions 9 and below
* Investigate if the same issue appears on other OS and chip types? (It might be platform-specific.)
* Also, please investigate how this error escaped our testing process! (It might be platform specific.) Look at the testing we did for App Manager. See: https://wiki.bioviz.org/confluence/display/ITD/10.0.0

See attached screen capture showing an image created in 2018 that appears in the smoke testing guide. Compare that to the same view from the App Manager window shown in IGB 10.2.0. Notice how the text is hard to read in the current App Manager but not the older version from 2018.

Relevant User's Guide page;
https://wiki.bioviz.org/confluence/display/ITD/App+Manager and https://wiki.bioviz.org/confluence/display/ITD/App+Manager

Ann Loraine made changes - 17/Jun/25 11:38 AM

Attachment

Screenshot-2025-06-17.png [ 18712 ]

Nowlan Freese made changes - 18/Jun/25 4:30 PM

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To-Do [ 10305 ]

In Progress [ 3 ]

Nowlan Freese made changes - 18/Jun/25 4:30 PM

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Nowlan Freese [ nfreese ]

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Nowlan Freese added a comment - 18/Jun/25 4:30 PM

Investigating pluginInfoTemplate.html and bootstrap.min.css

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Nowlan Freese added a comment - 18/Jun/25 4:30 PM Investigating pluginInfoTemplate.html and bootstrap.min.css

Ann Loraine made changes - 23/Jun/25 12:26 PM

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Ann Loraine made changes - 23/Jun/25 12:26 PM

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Ann Loraine added a comment - 23/Jun/25 12:31 PM

On my laptop screen, the text isn't quite as faint looking as on a big screen.

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Ann Loraine added a comment - 23/Jun/25 12:31 PM On my laptop screen, the text isn't quite as faint looking as on a big screen.

Ann Loraine made changes - 05/Jul/25 11:34 AM

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Summer 2, Summer 3 [ 219, 220 ]

Summer 2, Summer 3, Summer 4 [ 219, 220, 221 ]

Ann Loraine made changes - 05/Jul/25 11:34 AM

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Ranked higher

Nowlan Freese made changes - 07/Jul/25 1:09 PM

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To-Do [ 10305 ]

Nowlan Freese made changes - 10/Jul/25 10:16 AM

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Nowlan Freese added a comment - 10/Jul/25 2:20 PM - edited

The issue appears to be with how the Helvetica neue font is rendered on Mac. Changing the font to Helvetica appears to resolve the issue. There was a change from bootstrap v3.3.5 to v3.4.1 when we updated to JDK21, but rolling back the change made no difference in appearance. I also tried changing the font-weight, but it was either too light or too bold.

Branch: https://bitbucket.org/nfreese/nowlanfork-igb/branch/IGBF-4248

To test:
View the App Manager within IGB, make sure that text is legible. Would be good to test this on Windows as well as Mac.

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Nowlan Freese added a comment - 10/Jul/25 2:20 PM - edited The issue appears to be with how the Helvetica neue font is rendered on Mac. Changing the font to Helvetica appears to resolve the issue. There was a change from bootstrap v3.3.5 to v3.4.1 when we updated to JDK21, but rolling back the change made no difference in appearance. I also tried changing the font-weight, but it was either too light or too bold. Branch: https://bitbucket.org/nfreese/nowlanfork-igb/branch/IGBF-4248 To test: View the App Manager within IGB, make sure that text is legible. Would be good to test this on Windows as well as Mac.

Nowlan Freese made changes - 10/Jul/25 2:20 PM

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In Progress [ 3 ]

Needs 1st Level Review [ 10005 ]

Nowlan Freese made changes - 10/Jul/25 2:20 PM

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Nowlan Freese [ nfreese ]

Nowlan Freese made changes - 10/Jul/25 2:39 PM

Attachment		10.2.0_Helvetica.png [ 18736 ]
Attachment		10.1.0_HelveticaNeue.png [ 18737 ]
Attachment		9.1.10_HelveticaNeue.png [ 18738 ]

Ann Loraine made changes - 10/Jul/25 3:02 PM

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Ann Loraine [ aloraine ]

Ann Loraine made changes - 10/Jul/25 3:02 PM

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First Level Review in Progress [ 10301 ]

Ann Loraine made changes - 10/Jul/25 3:03 PM

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Ann Loraine made changes - 10/Jul/25 3:03 PM

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Ann Loraine [ aloraine ]

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Ann Loraine added a comment - 10/Jul/25 3:06 PM - edited

Question: Is there a Windows installer for the branch that we could quickly check before proceeding to a PR?

Also, to be kinder to Atlassian (since they are giving us lots of free stuff) I recommend deleting a bunch of your old branch installers from the Downloads section of your fork. I bet they would appreciate it since there are probably many Gbs of obsolete installers in that location !

attn: Nowlan Freese

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Ann Loraine added a comment - 10/Jul/25 3:06 PM - edited Question: Is there a Windows installer for the branch that we could quickly check before proceeding to a PR? Also, to be kinder to Atlassian (since they are giving us lots of free stuff) I recommend deleting a bunch of your old branch installers from the Downloads section of your fork. I bet they would appreciate it since there are probably many Gbs of obsolete installers in that location ! attn: Nowlan Freese

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Nowlan Freese added a comment - 10/Jul/25 3:27 PM

Karthik Raveendran - could you please test this on Windows?

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Nowlan Freese added a comment - 10/Jul/25 3:27 PM Karthik Raveendran - could you please test this on Windows?

Nowlan Freese made changes - 10/Jul/25 3:27 PM

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Karthik Raveendran [ karthik ]

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Karthik Raveendran added a comment - 17/Jul/25 3:48 PM

Tested the branch on Windows. The text is legible and clearly rendered with no faint text.

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Karthik Raveendran added a comment - 17/Jul/25 3:48 PM Tested the branch on Windows. The text is legible and clearly rendered with no faint text.

Karthik Raveendran made changes - 17/Jul/25 3:49 PM

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Karthik Raveendran [ karthik ]

Ann Loraine [ aloraine ]

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Nowlan Freese added a comment - 17/Jul/25 4:23 PM

Tested on Mac, Windows, Linux with Karthik.

PR: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/1080

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Nowlan Freese added a comment - 17/Jul/25 4:23 PM Tested on Mac, Windows, Linux with Karthik. PR: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/1080

Nowlan Freese made changes - 17/Jul/25 4:23 PM

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First Level Review in Progress [ 10301 ]

Nowlan Freese made changes - 17/Jul/25 4:23 PM

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First Level Review in Progress [ 10301 ]

Ready for Pull Request [ 10304 ]

Nowlan Freese made changes - 17/Jul/25 4:23 PM

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Pull Request Submitted [ 10101 ]

Ann Loraine made changes - 18/Jul/25 10:02 AM

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Ann Loraine added a comment - 18/Jul/25 10:03 AM

PR is merged.

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Ann Loraine added a comment - 18/Jul/25 10:03 AM PR is merged.

Ann Loraine made changes - 18/Jul/25 11:18 AM

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Ann Loraine added a comment - 18/Jul/25 11:19 AM

New installer is deployed to bioviz.org. Ready for testing.

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Ann Loraine added a comment - 18/Jul/25 11:19 AM New installer is deployed to bioviz.org. Ready for testing.

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Ann Loraine added a comment - 18/Jul/25 11:30 AM - edited

App Manager app text now is readable on mac. Moving to DONE.

(Nowlan Freese has already checked Windows and Linux using the branch installer.)

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Ann Loraine added a comment - 18/Jul/25 11:30 AM - edited App Manager app text now is readable on mac. Moving to DONE. ( Nowlan Freese has already checked Windows and Linux using the branch installer.)

Ann Loraine made changes - 18/Jul/25 11:30 AM

Status

Merged Needs Testing [ 10002 ]

Post-merge Testing In Progress [ 10003 ]

Ann Loraine made changes - 18/Jul/25 11:30 AM

Resolution		Done [ 10000 ]
Status	Post-merge Testing In Progress [ 10003 ]	Closed [ 6 ]

Ann Loraine made changes - 18/Jul/25 11:30 AM

Assignee

Ann Loraine [ aloraine ]

Nowlan Freese [ nfreese ]

Paige Kulzer made changes - 02/Dec/25 10:32 AM

Fix Version/s

10.2.0 [ 11100 ]

Investigate: App Descriptions in App Manager have very faint text

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