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Note to self:
5e6ab1bbecd816003a0a18578da6c579e14945b6
These lines might belong below the else block:
SystemInfoHandler sih = new SystemInfoHandler(container);
versionSolr = sih.getVersion();
They mi…
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**Description**
Using the documented `docker-compose exec seqr python manage.py createsuperuser` command, two users can be created that share the same email address. Two users cannot be created that …
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**Describe the bug**
Read depth for a variant is displayed in seqr as 32000 when per-sample DP is missing (e.g. "." instead of a value). To be clear, this is a bit of an edge case but I guess you mig…
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We'd like to be able to upload attachments/files (at least pdf, maybe images too although worst case those can be converted to pdf) and link the files to a Project and/or on the Individual level. The …
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Both TGG-Viewer and seqr integrate the Javascript version of IGV which also is called IGV.js.
The IGV.js downloads data gCNV data very frequently and responds very slowly. Every time when opening a n…
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Hi @anjos et. al,
I'm using gridtk with UGE and it seems to work. The only problem I've had is when using `qsub -sync` it circumvents the `-terse` functionality (see below). I was also unable to …
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This is a very minor and low priority feature request.
Currently MME_DISCLAIMER is within the code https://github.com/broadinstitute/seqr/blob/master/matchmaker/matchmaker_utils.py#L357-L374
It …
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Here are 4 SV pathogenicity predictors that we decided would be useful:
1. AnnotSV - https://lbgi.fr/AnnotSV/ - annotates SVs with presence in DGV, DD, etc. Pathogenicity ranking useful for making …
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When trying to run STAR-SEQR, I get this error after STAR has finished alignment:
`OSError: [Errno 2] No such file or directory: '/path/to/SAMPLE.Chimeric.out.junction'`
The reported STAR command …
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The new seqr callsets are going to be using DRAGEN and GVS to create the delivered VCFs. We need to identify all differences between the two callsets and make any needed changes to the seqr loading pi…