Prioritized open issues

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# Project Tracker Status Priority Subject Assigned To % Done
  Urgent 1 Collapse all/Expand all
835 GET-Evidence Bug New Urgent Error when saving edits or submitting

  High 7 Collapse all/Expand all
468 GET-Evidence Bug New High latest-flat incorrectly displays non single-base substitution variants

15183 Arvados Bug New High [Workbench2] No errors reported when file is missing a block

16228 Arvados Bug New High NullPointerException while uploading file using Java SDK

16325 Arvados Bug New High Logs/outputs from Cancelled processes don't have properties.type="log"/"output"

17300 Arvados Bug New High array of array of File causes 'NoneType' object has no attribute 'resolved'

17396 Arvados Bug New High Favorites copy dialog further issues

17434 Arvados Bug New High project not shown in hierarchy on the left of wb2

  Normal 1698 Collapse all/Expand all
426 GET-Evidence Feature In Progress Normal Use compute cloud for back-end processing Tom Clegg

451 longupload Bug New Normal handle xmlhttprequest timeouts gracefully Tom Clegg

466 GET-Evidence Bug New Normal xmlrpc server is careless with huge temp files

478 GET-Evidence Bug New Normal Keep "overall odds ratio" updated when editing individual sets of OR figures Tom Clegg

479 GET-Evidence Bug New Normal NSF-Lys702Asn shows wrong hapmap frequency Tom Clegg

481 GET-Evidence Feature New Normal Test Internet Explorer, possibly use Chrome Frame to make editing features work in IE Tom Clegg

482 GET-Evidence Feature New Normal add “affects self (hom or dominant)” checkbox (vs “affects offspring”) on result page Tom Clegg

483 GET-Evidence Feature New Normal Handle/prevent edit conflicts more effectively Tom Clegg

484 GET-Evidence Feature New Normal Figure out better solution to HNF1A-Ser574Gly (genomes) vs. HNF1A-Gly574Ser (omim) Tom Clegg

485 GET-Evidence Feature New Normal Don't let users add variant pages for genes that aren't in knownGene Tom Clegg

486 GET-Evidence Feature New Normal support publications without PMIDs (other namespaces? original contributions? OWW?) Tom Clegg

488 GET-Evidence Feature New Normal Allow non-nsSNP variants Tom Clegg

490 GET-Evidence Feature In Progress Normal Classify web-hits as relevant/not-relevant Tom Clegg

493 GET-Evidence Feature New Normal Variant and Gene Removal Tom Clegg

494 GET-Evidence Bug New Normal Warning about automatic logout Tom Clegg

495 GET-Evidence Bug New Normal Allele frequency missing for rs41281314 Tom Clegg

498 GET-Evidence Feature New Normal Show nucleotide positions for all dbSNP-keyed variants Tom Clegg

499 GET-Evidence Feature New Normal Merge rsids and AA-variant pages Tom Clegg

500 GET-Evidence Bug New Normal Trait-o-matic GET-E importer "AttributeError: 'tuple' object has no attribute 'remove'" Tom Clegg

501 GET-Evidence Feature New Normal GWAS - mark existing "not reviewed" variants as "pathogenic" Tom Clegg

502 GET-Evidence Feature New Normal Update PGP2,3,5,7,8,10 on snp.med and evidence.PG Tom Clegg

503 GET-Evidence Bug New Normal Import aachanges starting with termination (eg. METTL8-X379R) Tom Clegg

506 GET-Evidence Bug New Normal Standardize gene names (correctly) Tom Clegg

507 GET-Evidence Feature New Normal Report of insufficiently evaluated variants meeting autoscore thresholds Tom Clegg

509 GET-Evidence Bug New Normal Clean up runt variants imported by PharmGKB Tom Clegg

514 GET-Evidence Bug New Normal ereg Deprecated in PHP 5.3.0 Tom Clegg

515 GET-Evidence Bug New Normal 'Undefined' notices Tom Clegg

516 GET-Evidence Feature New Normal Add conservation track from ucsc

517 GET-Evidence Feature New Normal Genome links should indicate which data set(s) actually support the variant call Tom Clegg

518 GET-Evidence Bug New Normal Handle "data set is no longer public" during import_genomes Tom Clegg

519 GET-Evidence Feature New Normal Use "BED" / "BED Detail" format instead of GFF Tom Clegg

529 GET-Evidence Feature New Normal Interpret phased (haplotype) data Evan Maxwell

533 GET-Evidence Bug New Normal PGP11 genome report has error messages

539 GET-Evidence Feature New Normal call synonymous amino acids that match pathogenic reference alleles (e.g. F5 R534R)

540 GET-Evidence Bug In Progress Normal Textile download link broken (404 Error) during install

556 GET-Evidence Bug New Normal Visualization improvements

578 GET-Evidence Feature Feedback Normal Improve reporting of variant/allele frequencies

601 GET-Evidence Feature New Normal Find consensus nonref alleles & call when matching ref

696 GET-Evidence Feature New Normal Add Google Search API

714 GET-Evidence Feature New Normal Add spam-control measures

775 GET-Evidence Bug New Normal https://evidence.personalgenomes.org/ should not show huPGP site

925 GET-Evidence Feature In Progress Normal Add EVS frequency data Tom Clegg

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