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# Project Tracker Status Priority Subject Assigned To % Done
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14620 Arvados Workbench 2 Task New Normal [UI Improvements] Unify the color of the snackbars

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14619 Arvados Workbench 2 Task New Normal [UI Impreovements] Spacing between button and the advanced modal edges

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14618 Arvados Workbench 2 Task New Normal [UI Improvements] Favorites star near to title

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14587 Arvados Workbench 2 Feature In Progress Normal [Vocabulary] Disable default use of vocabulary.json.

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14577 Arvados Workbench 2 Feature New Normal [Backend] User name

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14509 Arvados Workbench 2 Bug New Normal [Bug][Graph] Cwl graph edges are not painted

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14435 Arvados Workbench 2 Story New Normal [Navigation] Investigation - Notification system

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14273 Arvados Workbench 2 Feature New Normal [Navigation] Notification system (process end, shared with someone)

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14272 Arvados Workbench 2 Feature New Normal [Running a workflow] Dropdown filter

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14190 Arvados Workbench 2 Task New Normal Workbench content loading screen

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14189 Arvados Workbench 2 Task New Normal Workbench loading screen

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14188 Arvados Workbench 2 Task New Normal Progress indicator higher order component

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14186 Arvados Workbench 2 Task In Progress Normal Progress indicator store

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14091 Arvados Workbench 2 Feature In Progress Normal [Data operations] Filter project tree from projects that a resource cannot be moved to

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13978 Arvados Workbench 2 Feature New Normal [Data operation] Outputs expiry (collection view)

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13944 Arvados Workbench 2 Task New Normal [Test] prepare test scripts

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13832 Arvados Workbench 2 Story Feedback Normal [Data operations] Make a copy (projects)

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13778 Arvados Workbench 2 Feature New Normal [Data operations] Details panel - activity tab

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13677 Arvados Workbench 2 Feature Feedback Normal [Workbench] System status information

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13564 Arvados Workbench 2 Bug New Normal [Workbench] Uploader should have a timeout

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9241 GET-Evidence Feature New Normal Add "Genes for Good" support for genome report

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6413 GET-Evidence Bug New Normal Edit history for some variants in GET-Evidence is broken

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6164 GET-Evidence Task New Normal Code review

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6145 GET-Evidence Bug New Normal Use warehouse download link instead of directly calling arv-get for downloads

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6129 GET-Evidence Task New Normal Make Curoverse repository 'get-evidence-arvados-scripts-refresh-report' mirrored on GitHub

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6085 GET-Evidence Task New Normal Code review branch 5883-oauth2-update

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1370 GET-Evidence Bug New Normal broken link

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927 GET-Evidence Support In Progress Normal Update 1000 Genomes frequency data

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

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

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696 GET-Evidence Feature New Normal Add Google Search API

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

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

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556 GET-Evidence Bug New Normal Visualization improvements

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

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

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

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

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

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13639 Lightning Story New Normal Imputation and phasing flag in CGF data

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12951 Lightning Bug New Normal FastJ aggregation into SGLF takes too much memory

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12245 Lightning Bug New Normal pasta rotini-fastj does not handle tagset without ending newline

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12171 Lightning Story New Normal Create tests for 'tile-npy' programs

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11746 Lightning Story New Normal Covnert hg19 to FastJ and CGF

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11676 Lightning Story New Normal Tile library versioning specification and tool

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11675 Lightning Story New Normal Convert Harvard PGP exome data to CGF

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11674 Lightning Story New Normal Convert openSNP genotyping data to CGF

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11673 Lightning Story New Normal Extend CGF to include genotyping

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10104 Lightning Story New Normal Documentation current speed of concordance and other stats

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7300 Lightning Story New Normal Annotate Tiling 1.0 public library

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7267 Lightning Story New Normal Implement annotation on Tile Library

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5371 Lightning Story New Normal Specify GA4GH API Implementation with Lightning

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5335 Lightning Story New Normal [API] [Documentation] Specify how to find the variants in a gene

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5334 Lightning Story New Normal [API] Implement GET /callsets/{callset-name}/gvcf API call

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5332 Lightning Story New Normal [Documentation] [Sprite] [API] Specify API Calls and Database for phenotypes in Sprite

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5331 Lightning Story New Normal [API] Implement filtering on API calls

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5330 Lightning Story New Normal [Documentation] Specify batch API-like queries

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5329 Lightning Story New Normal [API] Implement GET /callsets/{callset-name}/tile-variants

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4995 Lightning Story New Normal Package lightning specifically for users

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16554 Tapestry Feature New Normal opt-in participant survey reminders

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11152 Tapestry Bug New Normal "There are 4 third party activities currently seeking participants." - but there are 5

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10145 Tapestry Story New Normal Provide link to project/colleciton that datasets reside in that are public from users profile page

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9673 Tapestry Support New Normal New consent doc for Harvard PGP

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9672 Tapestry Bug New Normal Install extension to allow password reset on RT

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9411 Tapestry Support New Normal Change 30 day release window to 31 days

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9284 Tapestry Feature New Normal Welcome e-mail feature

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9027 Tapestry Feature New Normal Incorporate coverage info from get-evidence dataset_reports in publication statistics

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8698 Tapestry Feature New Normal When UserFile data is updated, if it has a suitable data type, submit report-generator jobs

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8322 Tapestry Bug New Normal Specimens showing up in profile but not in "/specimens" page

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8155 Tapestry Bug New Normal Fix bulk mail "send" link

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7826 Tapestry Bug New Normal Make sure that datasets which are served from Keep via get-evidence have collections

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7815 Tapestry Feature New Normal If a dataset has been released to a user but they have not seen it yet, force-redirect to /specimen_analysis_data after they log in

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7673 Tapestry Bug New Normal OH integration token appears to time out after a while, user is presented with 'refresh token'

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7134 Tapestry Story New Normal Set up sandbox development environment with a dummy keep server and some real data

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6634 Tapestry Feature New Normal improve open humans flow

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6467 Tapestry Feature New Normal upgrade to reCAPTCHA v2

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6412 Tapestry Bug New Normal Admin cannot use UserFilesController#reprocess unless admin account is marked "enrolled"

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6226 Tapestry Bug New Normal 'whget' still used in Tapestry. datasets.data_size is null.

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5683 Tapestry Bug New Normal Trait surveys incomplete listed on a lot of entries in the WGS data page. Sounds like a bug.

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5572 Tapestry Bug New Normal 'data_type' field in profile JSON report does not correctly have type

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5571 Tapestry Feature New Normal Add huID to 'aaData' entries in 'public_genetic_data.json' request

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5380 Tapestry Feature New Normal Public profiles: add JSON for Enrollment History

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5379 Tapestry Feature New Normal Public profiles: add JSON for Absolute Pitch Survey

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5378 Tapestry Feature New Normal Public profiles: add JSON for Samples

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5377 Tapestry Feature New Normal Public profiles: add JSON for PHR data

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4979 Tapestry Feature New Normal Improve sample tracking to allow for bulk marking of samples

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3025 Tapestry Feature New Normal Add an admin interface feature to export all enrolled users + shipping address as a csv file.

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3011 Tapestry Task New Normal Review 2979

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2947 Tapestry Bug New Normal When a waitlisted user revisits the eligibility questionnaire and removes their obstacle for eligibility, they are not automatically removed from the waitlist.

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2595 Tapestry Task New Normal Specify desired authorizations scheme for Tapestry

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2545 Tapestry Bug New Normal broken links on /admin/removal_requests

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2431 Tapestry Feature New Normal upgrade to ruby 2.1

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2430 Tapestry Feature New Normal upgrade to rails 3.2

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2429 Tapestry Feature New Normal upgrade to rails 3.1

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2428 Tapestry Feature New Normal upgrade to ruby 1.9.3

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2423 Tapestry Feature New Normal enrollment step automated tests

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2422 Tapestry Feature New Normal exam automated tests

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1633 Tapestry Feature New Normal Make eligibility questionnaire customizable for a specific site's requirements

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1483 Tapestry Bug New Normal No feedback shown when failed Eligibility Questionnaire

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1478 Tapestry Bug New Normal nowhere to enter postal/zip code

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