Replies: 4 comments 4 replies
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Suddenly getting "ReferenceError Buffer is not defined" errors across multiple jbrowse2 instances on different dockers. I embed the jbrowse using the technique described at https://jbrowse.org/jb2/docs/tutorials/embed_linear_genome_view/02_simple_site/. Would the new release create this issue? |
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Hi there, I just created a new release of v2.12.2 which I think should have fixed the issue. this was also reported here #4461 can you try out the latest? |
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note: if you are using the URL like (//unpkg.com/@jbrowse/react-linear-genome-view/dist/react-linear-genome-view.umd.development.js) in the article, it should automatically get the latest |
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Ah thank goodness. I thought I was going mad as it all just started working ok again. There are no errors now.
Thanks!
Linda
From: Colin Diesh ***@***.***>
Sent: Friday, June 21, 2024 12:31 PM
To: GMOD/jbrowse-components ***@***.***>
Cc: Linda Milne ***@***.***>; Comment ***@***.***>
Subject: Re: [GMOD/jbrowse-components] Release v2.12.0 (Discussion #4460)
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Hi there, I just created a new release of v2.12.2 which I think should have fixed the issue. this was also reported here #4461<#4461>
can you try out the latest and attach the "stack trace" if there is one?
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awesome :) glad that works |
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Can I get some help with how to control the color of feature types in the linear track in jbrowse2? I’m not sure where to ask this question as it isn’t an “issue” as such.
Linda
From: Colin Diesh ***@***.***>
Sent: Friday, June 21, 2024 12:35 PM
To: GMOD/jbrowse-components ***@***.***>
Cc: Linda Milne ***@***.***>; Comment ***@***.***>
Subject: Re: [GMOD/jbrowse-components] Release v2.12.0 (Discussion #4460)
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awesome :) glad that works
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sure thing. you can make new discussion threads here, and it is fine :) https://github.com/GMOD/jbrowse-components/discussions i'll just list the basic idea here, changing color is unfortunately not the easiest operation right now, as it's a somewhat "nested config", but the below shows how to do it {
"type": "FeatureTrack",
"trackId": "mytrack",
"name": "mytrack",
"assemblyNames": [ "yourasm" ],
"adapter": { ... e.g. Gff3TabixAdapter config here... },
"displays": [
{
"type": "LinearBasicDisplay",
"displayId": "mytrack-LinearBasicDisplay",
"renderer": {
"type": "SvgFeatureRenderer",
"color1": "blue"
}
}
]
} |
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I can’t get it to work in the embedded version. I can get it to work directly in the jbrowse web though.
From: Colin Diesh ***@***.***>
Sent: Tuesday, June 25, 2024 7:00 PM
To: GMOD/jbrowse-components ***@***.***>
Cc: Linda Milne ***@***.***>; Comment ***@***.***>
Subject: Re: [GMOD/jbrowse-components] Release v2.12.0 (Discussion #4460)
[ External email ]
Do not click links or open attachments unless you recognise the sender and know the content is safe
sure thing. you can make new discussion threads here, and it is fine :) https://github.com/GMOD/jbrowse-components/discussions
i'll just list the basic idea here, changing color is unfortunately not the easiest operation right now, as it's a somewhat "nested config", but the below shows how to do it
{
"type": "FeatureTrack",
"trackId": "mytrack",
"name": "mytrack",
"assemblyNames": [ "yourasm" ],
"adapter": { ... e.g. Gff3TabixAdapter config here... },
"displays": [
{
"type": "LinearBasicDisplay",
"displayId": "mytrack-LinearBasicDisplay",
"renderer": {
"type": "SvgFeatureRenderer",
"color1": "blue"
}
}
]
}
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You are receiving this because you commented.Message ID: ***@***.***>
The James Hutton Institute is a Scottish charitable company limited by guarantee.
Registered in Scotland No. SC374831
Registered Office: The James Hutton Institute, Invergowrie, Dundee DD2 5DA.
Charity No. SC041796
|
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This release includes
Before and after showing the aggregation of transcripts on a bigGenePred type track
Example of the coordinates display on the feature sequence with the dialog
🚀 Enhancement
coreRegion[]into atypes.frozen<IRegion[]>(@cmdcolin)app-corecore,product-core🐛 Bug Fix
core🏠 Internal
Committers: 2
This discussion was created from the release Release v2.12.0.
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