Opening a popup sometimes scrolls to the bottom automatically

[cmdcolin]

It was noted that sometimes when opening a popup (in jbrowse...) it will automatically scroll to the bottom. First discussed here http://gmod.827538.n3.nabble.com/Gmod-ajax-JBrowse-Popup-focus-td4053110.html

I had also noticed this for awhile but didn't really know why

I did note however that there is a pretty interesting distinction where if you left-click a feature, then it seems to always scroll to bottom of the popup (the bug) but if you right-click and select "View details" or similar, then it does not seem to scroll to the bottom.

Can't be sure exactly why it happens, but it seems reproducible in some multiple browsers on both phytozome and volvox instances

[cmdcolin]

I would say the easiest track to reproduce this on is the BAM tracks, e.g. http://jbrowse.org/code/JBrowse-1.12.0/?data=sample_data/json/volvox&loc=ctgA:24449..34449&tracks=DNA,volvox-paired_bam

Just mentioning because this is sometimes inconsistent

[exogenesys]

Hi, guys.

I was trying to fix this bug for my GSOC project. After closely observing the inconsistency, I realized that the pop-up never is scrolled down the first time. Only after we close the pop-up by clicking on the back drop (anywhere else other than the pop-up) and open it again, then only the pop-up is scrolled to the bottom.

Clicking on the backdrop scrolls the pop-up down before closing. And the next time we open it up, it has already scrolled down.

Closing the pop-up by the close button (the little cross) doesn't scroll the pop-up before closing and it works perfectly then.

Please confirm this for me. What do you guys think?

[rdhayes]

I looked again at one of our species with long popup content.

For this example:
https://phytozome.jgi.doe.gov/jbrowse/index.html?data=genomes%2FSbicolor&loc=Chr01%3A25329..27522&tracks=Transcripts%2CAlt_Transcripts%2CBlastx_protein%2CGeneExpression_GeneAtlas1_0%2Cnatgen2014_variation&highlight=

This is still v1.11.6. The "BLASTX Plant Protein" track uses the default
popup. After closing by clicking outside the popup, that will reopen at the
top. I'm seeing the popup close normally by clicking outside it, but using
the upper-right X or "OK" button at the bottom triggers the possibly
related issue where the popup had opened twice (or needs to be closed
twice).

The "Gene Atlas Gene Expression" track uses onclick.content to replace the
default popup, and always opens scrolled to the bottom. Same issue as
above, only closing with one action if I click outside the popup.

The "Patterson (2009) 23 sample variation" track is a VCF track that uses
"onClick.action = xhrDialog" and onclick.url to dynamically populate the
popup. This one always loads at the top, and the X closes with one attempt.

Richard D. Hayes, Ph.D.
Joint Genome Institute / Lawrence Berkeley National Lab
http://phytozome.jgi.doe.gov

On Fri, Mar 4, 2016 at 12:17 AM, Harsh Gautam notifications@github.com
wrote:

Hi, guys.

I was trying to fix this bug for my GSOC project. After closely observing
the inconsistency, I realized that the pop-up never is scrolled down the
first time. Only after we close the pop-up by clicking on the back drop
(anywhere else other than the pop-up) and open it again, then only the
pop-up is scrolled to the bottom.

Clicking on the backdrop scrolls the pop-up down before closing. And the
next time we open it up, it has already scrolled down.

Closing the pop-up by the close button (the little cross) doesn't scroll
the pop-up before closing and it works perfectly then.

Please confirm this for me. What do you guys think?

—
Reply to this email directly or view it on GitHub
#688 (comment).

[rbuels]

Can anybody confirm whether this bug is still present?

[rdhayes]

Hi, A few track labels have changed since then, but I see the same symptoms in this revised example: https://phytozome.jgi.doe.gov/jbrowse/index.html?data=genomes%2FSbicolor&loc=Chr01%3A25329..27522&tracks=Transcripts%2CAlt_Transcripts%2CBlastx_protein%2CGeneExpression_GeneAtlas&highlight= As described before: "BLASTX Arabi/Chlamy/Rice" is a default popup. After closing by clicking outside the popup, that will reopen at the top. I'm seeing the popup close normally by clicking outside it, but using the upper-right X or "OK" button at the bottom still triggers the other issue of two popups rendering. The "Gene Atlas Gene Expression" track uses onclick.content to replace the default popup, and always opens scrolled to the bottom. Richard D. Hayes, Ph.D. Joint Genome Institute / Lawrence Berkeley National Lab http://phytozome.jgi.doe.gov

…

On Tue, Jan 30, 2018 at 2:00 PM, Robert Buels ***@***.***> wrote: Can anybody confirm whether this bug is still present? — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#688 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AAc92BAzaSe2rnd67BDK9a_IutZfOygsks5tP5D6gaJpZM4HakFl> .

[ValWood]

I don't know if this is the same issue, but in our gene page embedded view the scroll be is always at the bottom, it would be better at the top
examples:
https://www.pombase.org/gene/SPBC27.08c
https://www.pombase.org/gene/SPBC28F2.07
https://www.pombase.org/gene/SPNCRNA.5244

Is this the same issue?
Is there a way to pin to the top of the pane yet?

[cmdcolin]

Hi @ValWood unfortunately I don't think we can provide much support for this. We are mostly developing jbrowse 2 now

[cmdcolin]

If you find any fixes from your team feel free to update this thread though, it's just likely something we can't investigate ourselves