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fix transcript official transcript tracks for the remaining attributes #2369

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merged 1 commit into from Feb 5, 2020

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nathandunn
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@nathandunn nathandunn commented Feb 5, 2020

fixes #2235

  • popup needs to work properly when loaded from exported GFF3

For transcript:

  • import dbxref
  • import comment
  • import attribute
  • import synonym
  • import status

  • import genes

@nathandunn nathandunn added this to In progress in 2.6.0 LTS via automation Feb 5, 2020
@nathandunn nathandunn changed the title able to delete features with synonyms fix transcript official transcript tracks for the remaining attributes Feb 5, 2020
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image

image

##gff-version 3
##sequence-region Group11.18 1 4736299
Group11.18	.	gene	624104	624520	.	+	.	owner=ndunn@me.com;symbol=symbol1;Alias=syn2,syn1;Note=gene comment;description=gene descriptoin;ID=59d90cc0-7f96-4627-bda2-7f6b10661734;genetag=genevalue;date_last_modified=2020-02-05;Name=Group11.18;Dbxref=PMID:23193287;status=under review;date_creation=2020-02-03
Group11.18	.	mRNA	624104	624520	.	+	.	owner=ndunn@me.com;Parent=59d90cc0-7f96-4627-bda2-7f6b10661734;Alias=transcript_syn2,transcript_syn1;Note=transcript comment;description=transcript description;ID=0142b9b4-e884-47b2-ab1b-67022d96e61b;tarns key=trans value;date_last_modified=2020-02-05;Name=Group11.18-00001;Dbxref=PMID:23193287;status=accepted;date_creation=2020-02-03
Group11.18	.	exon	624421	624520	.	+	.	Parent=0142b9b4-e884-47b2-ab1b-67022d96e61b;ID=53974298-fa15-400f-aa6a-fa3005530f8a;Name=53974298-fa15-400f-aa6a-fa3005530f8a
Group11.18	.	non_canonical_three_prime_splice_site	624421	624421	.	+	.	Parent=0142b9b4-e884-47b2-ab1b-67022d96e61b;ID=0142b9b4-e884-47b2-ab1b-67022d96e61b-non_canonical_three_prime_splice_site-624420;Name=0142b9b4-e884-47b2-ab1b-67022d96e61b-non_canonical_three_prime_splice_site-624420
Group11.18	.	exon	624104	624203	.	+	.	Parent=0142b9b4-e884-47b2-ab1b-67022d96e61b;ID=f8e64ea0-b103-442d-9cc0-579ee2e5ca17;Name=f8e64ea0-b103-442d-9cc0-579ee2e5ca17
Group11.18	.	CDS	624105	624131	.	+	0	Parent=0142b9b4-e884-47b2-ab1b-67022d96e61b;ID=0142b9b4-e884-47b2-ab1b-67022d96e61b-CDS;Name=0142b9b4-e884-47b2-ab1b-67022d96e61b-CDS
Group11.18	.	non_canonical_five_prime_splice_site	624206	624206	.	+	.	Parent=0142b9b4-e884-47b2-ab1b-67022d96e61b;ID=0142b9b4-e884-47b2-ab1b-67022d96e61b-non_canonical_five_prime_splice_site-624205;Name=0142b9b4-e884-47b2-ab1b-67022d96e61b-non_canonical_five_prime_splice_site-624205
###

@nathandunn nathandunn merged commit eef5639 into develop Feb 5, 2020
2.6.0 LTS automation moved this from In progress to Done Feb 5, 2020
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location: {fmin: 624103, fmax: 624520, strand: 1}
type: "mRNA"
name: "Group11.18-00001"
orig_id: "0142b9b4-e884-47b2-ab1b-67022d96e61b"
seq_id: "Group11.18"
start: 624103
end: 624520
strand: 1
owner: "ndunn@me.com"
parent: "59d90cc0-7f96-4627-bda2-7f6b10661734"
alias: (2) ["transcript_syn2", "transcript_syn1"]
note: "transcript comment"
description: "transcript description"
id: "0142b9b4-e884-47b2-ab1b-67022d96e61b"
tarns key: "trans value"
date_last_modified: "2020-02-05"
dbxref: "PMID:23193287"
status: "accepted"
date_creation: "2020-02-03"
children: (3) [{…}, {…}, {…

@nathandunn nathandunn moved this from Done to In progress in 2.6.0 LTS Feb 5, 2020
@nathandunn nathandunn moved this from In progress to To do in 2.6.0 LTS Feb 6, 2020
@nathandunn nathandunn moved this from To do to Discussions in 2.6.0 LTS Mar 24, 2020
@nathandunn nathandunn moved this from Discussions to In progress in 2.6.0 LTS Mar 26, 2020
@nathandunn nathandunn moved this from In progress to Discussions in 2.6.0 LTS Apr 13, 2020
@nathandunn nathandunn moved this from Discussions to Done in 2.6.0 LTS Apr 13, 2020
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copy all existing metadata from OGS track when creating annotation off of it (much simpler use-case)
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