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Ticket Summary Owner Type Priority Milestone Component
#359 Changes related to new GUI in BASE 3.1 Nicklas Nordborg enhancement minor Example code v1.4 net.sf.basedb.examplecode
#363 Add 'install' target to ant build script Nicklas Nordborg enhancement minor Illumina package v1.8 net.sf.basedb.illumina
#378 Consent registration wizard should display consent date if it is already registered Nicklas Nordborg defect minor Reggie v2.4 net.sf.basedb.reggie
#382 Remove the referral form registration wizard Nicklas Nordborg task minor Reggie v2.5 net.sf.basedb.reggie
#383 Remove BASE 3.0 CSS support Nicklas Nordborg task minor Reggie v2.5 net.sf.basedb.reggie
#384 RNAQC subtype should set the 'Push annotations to parent' option Nicklas Nordborg enhancement minor Reggie v2.5 net.sf.basedb.reggie
#387 The ROOT user doesn't have permission to use several reggie wizards Nicklas Nordborg defect minor Reggie v2.6 net.sf.basedb.reggie
#391 The 'Sample report' wizard should use the new Site information Nicklas Nordborg enhancement minor Reggie v2.6 net.sf.basedb.reggie
#392 Redesign reggie wizards that result in long pages Nicklas Nordborg enhancement minor Reggie v2.6 net.sf.basedb.reggie
#405 Update certificate used for signing the web start files Nicklas Nordborg task minor MeV Launcher 1.10 net.sf.basedb.mev
#409 The sample count report generator doesn't filter on current project Nicklas Nordborg defect minor Reggie v2.7 net.sf.basedb.reggie
#412 Qiacube/nanodrop wizard should have default RNA volume=51µl Nicklas Nordborg enhancement minor Reggie v2.7 net.sf.basedb.reggie
#415 Accept small 'c' in case barcode Nicklas Nordborg defect minor Reggie v2.8 net.sf.basedb.reggie
#427 Re-organize jsp files into subfolders Nicklas Nordborg enhancement minor Reggie v2.12 net.sf.basedb.reggie
#432 The monthly operation list should include column headers Nicklas Nordborg enhancement minor Reggie v2.9 net.sf.basedb.reggie
#442 Allow pathology and blood registration wizards to save patients without names Nicklas Nordborg enhancement minor Reggie v2.10 net.sf.basedb.reggie
#444 The 'Plasma/serum' checkbox should be checked by default in the blood registration wizard olle enhancement minor Reggie v2.10 net.sf.basedb.reggie
#448 Register comments for blood samples olle enhancement minor Reggie v2.10 net.sf.basedb.reggie
#458 Sample count report should be refactored to use week codes with leading 0 olle enhancement minor Reggie v2.11 net.sf.basedb.reggie
#465 Improve printing of canvas elements Nicklas Nordborg enhancement minor Reggie v2.11.1 net.sf.basedb.reggie
#466 Incorrect titles in some sample processing statistics plots Nicklas Nordborg defect minor Reggie v2.11.1 net.sf.basedb.reggie
#467 Display guidelines when moving mouse over sample processing plots Nicklas Nordborg enhancement minor Reggie v2.11.1 net.sf.basedb.reggie
#471 Add library preparation information to the 'Case summary' feature olle enhancement minor Reggie v2.13 net.sf.basedb.reggie
#477 Display list of other case numbers associated with a patient in the 'Case summary' Nicklas Nordborg enhancement minor Reggie v2.12 net.sf.basedb.reggie
#483 Missing sample data report update for "no specimen" olle enhancement minor Reggie v2.12 net.sf.basedb.reggie
#486 Monthly operation list export should not have optional columns olle enhancement minor Reggie v2.12 net.sf.basedb.reggie
#488 Add support for matching RNAQC items using location instead of names from the Caliper Well Table file Nicklas Nordborg enhancement minor Reggie v2.12 net.sf.basedb.reggie
#491 Laterality is not stored for NoSpecimen items in some cases Nicklas Nordborg defect minor Reggie v2.12 net.sf.basedb.reggie
#492 Do not allow specimen tube registration to select a different laterality than what already exists Nicklas Nordborg defect minor Reggie v2.12 net.sf.basedb.reggie
#494 Show number of items waiting for processing on the index page Nicklas Nordborg enhancement minor Reggie v2.12 net.sf.basedb.reggie
#495 The RNA QC registration wizard should use default path and filter on file subtypes Nicklas Nordborg enhancement minor Reggie v2.12 net.sf.basedb.reggie
#496 Sample source reports should initialize table data from new sites correctly olle defect minor Reggie v2.12 net.sf.basedb.reggie
#498 SCAN-B sites data should be updated with new entry for "Uppsala" olle task minor Reggie v2.12 net.sf.basedb.reggie
#500 Plugin configurations should be grouped below their plug-ins Nicklas Nordborg enhancement minor Reggie v2.13 net.sf.basedb.reggie
#506 Installation wizard doesn't check if biomaterial list is shared olle defect minor Reggie v2.13 net.sf.basedb.reggie
#509 Error icons after successful registration of caliper lib results olle defect minor Reggie v2.13 net.sf.basedb.reggie
#513 Make it easier to spot problems in installation wizard Nicklas Nordborg enhancement minor Reggie v2.13 net.sf.basedb.reggie
#514 Do not enter date if time is missing in specimen tube registration olle enhancement minor Reggie v2.13 net.sf.basedb.reggie
#515 Store sequence for barcodes as annotations on tags Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#517 Ensure that the "Failure" option is not selected by mistake Nicklas Nordborg enhancement minor Reggie v2.13 net.sf.basedb.reggie
#518 Installation wizard must be run twice Nicklas Nordborg defect minor Reggie v2.13 net.sf.basedb.reggie
#522 Move Histology information to left column in Case summary page Nicklas Nordborg enhancement minor Reggie v2.13 net.sf.basedb.reggie
#523 Show/hide detail rows in Case summary Nicklas Nordborg enhancement minor Reggie v2.13 net.sf.basedb.reggie
#538 Count and display number of libraries with low and high concentration in create pooled library wizards Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#543 Different default values in 'Blood registration wizard' depending on site Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#544 Re-design lab protocol and registration wizards for histology Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#549 Installation wizard should share biomaterial lists with WRITE permission Nicklas Nordborg defect minor Reggie v2.14 net.sf.basedb.reggie
#551 Add 'install' target to normalizers build script Martin Svensson enhancement minor Normalization package v1.1 net.sf.basedb.normalizers
#554 Do not show *.dil items in case summary Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#555 Specify amount to use from *.dil items in pool Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#556 Sample sheet exporter should use ClusterOperator annotation for the Operator column Nicklas Nordborg defect minor Reggie v2.14 net.sf.basedb.reggie
#557 Don't remove histology work lists after registration Nicklas Nordborg defect minor Reggie v2.14 net.sf.basedb.reggie
#558 Remove Operator annotation Nicklas Nordborg enhancement minor Reggie v2.14 net.sf.basedb.reggie
#560 Use annotations on Histology work list to indicate progress Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#561 Error icons after successful registration of caliper RNAQC results Nicklas Nordborg defect minor Reggie v2.15 net.sf.basedb.reggie
#563 Report servlet code should be refactored for blood sample filter olle enhancement minor Reggie v2.15 net.sf.basedb.reggie
#575 Add sequencing information to case summary Nicklas Nordborg enhancement minor Reggie v2.15 net.sf.basedb.reggie
#579 Store serial number of sequencers as annotations on hardware items Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#581 Monthly operation list export should only include patients in region "RCC syd" olle enhancement minor Reggie v2.15 net.sf.basedb.reggie
#582 Change 'LymfnodeRegional' to 'LymphnodeRegional' for 'SpecimenType' annotation olle enhancement minor Reggie v2.15 net.sf.basedb.reggie
#587 Improve session timeout handling Nicklas Nordborg enhancement minor Reggie v2.15 net.sf.basedb.reggie
#589 FTP service should install client item when service is started first time Nicklas Nordborg enhancement minor FTP Server v1.3 net.sf.basedb.ftp
#602 Focus fields on the YubiKey tab Nicklas Nordborg enhancement minor YubiKey v1.1 net.sf.basedb.yubikey
#603 Default sequencing cycles for NextSeq should be 76-6-76 Nicklas Nordborg defect minor Reggie v2.15.3 net.sf.basedb.reggie
#606 Switch to JDOM 2 Nicklas Nordborg task minor LabEnv v1.3 net.sf.basedb.labenv
#610 Mail server prints debug output as default olle enhancement minor LabEnv v1.2 net.sf.basedb.labenv
#613 Auto-detect tab or comma in Caliper-files Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#619 Switching between cases will not always work Nicklas Nordborg defect minor Reggie v2.16 net.sf.basedb.reggie
#620 Tell browsers not to cache AJAX response data Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#622 Updating a blood sample for a case with follow-up blood samples fails Nicklas Nordborg defect minor Reggie v2.16 net.sf.basedb.reggie
#623 Improve performance of the "Missing consent" export wizard Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#624 Improve performance of the "Missing data" export wizard Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#625 Prevent registration of patients with identical data Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#627 Improve error visualization in wizards Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#628 Add right-click menu to create pools wizard Nicklas Nordborg enhancement minor Reggie v2.18 net.sf.basedb.reggie
#632 Increase max volume limit in pooling wizard to 20µl Nicklas Nordborg enhancement minor Reggie v2.16 net.sf.basedb.reggie
#643 Pathology referral form registration doesn't validate RNA later time Nicklas Nordborg defect minor Reggie v2.16.1 net.sf.basedb.reggie
#654 Synchronize default options for pipeline analysis Nicklas Nordborg enhancement minor Reggie v2.16.1 net.sf.basedb.reggie
#657 Include Reggie version number in wizards Nicklas Nordborg enhancement minor Reggie v2.16.1 net.sf.basedb.reggie
#664 Display pool names in confirm demux wizard Nicklas Nordborg enhancement minor Reggie v2.16.2 net.sf.basedb.reggie
#665 Display pool name in warning messages Nicklas Nordborg enhancement minor Reggie v2.16.2 net.sf.basedb.reggie
#668 Cache result of queries used to count items on Reggie index page Nicklas Nordborg enhancement minor Reggie v2.17 net.sf.basedb.reggie
#670 Echo commands used for tophat, etc to *.out files Nicklas Nordborg enhancement minor Reggie v2.17 net.sf.basedb.reggie
#675 Running a mask/align job as debug for a non-debug demux doesn't change the outcome Nicklas Nordborg defect minor Reggie v2.17 net.sf.basedb.reggie
#677 ant 'clean' should delete downloaded BASE JAR files Nicklas Nordborg task minor Reggie v2.17 net.sf.basedb.reggie
#680 Cleanup script for PostgreSQL development clone Nicklas Nordborg task minor Reggie v2.18 net.sf.basedb.reggie
#685 New Bowtie version 2.2.4 Nicklas Nordborg enhancement minor Reggie v2.17 net.sf.basedb.reggie
#686 Limit jobs to 16 slots by default Nicklas Nordborg enhancement minor Reggie v2.17 net.sf.basedb.reggie
#691 Items in case summary are not sorted Nicklas Nordborg defect minor Reggie v2.18 net.sf.basedb.reggie
#692 Some icons in case summary are broken in print version Nicklas Nordborg defect minor Reggie v2.18 net.sf.basedb.reggie
#693 Move debug utilities to a toolbar at bottom of page Nicklas Nordborg enhancement minor Reggie v2.18 net.sf.basedb.reggie
#698 Set number of nodes in the demux wizard Nicklas Nordborg enhancement minor Reggie v2.17.2 net.sf.basedb.reggie
#705 Remove internal sorting methods in retraction servlet Nicklas Nordborg enhancement minor Reggie v2.18 net.sf.basedb.reggie
#710 Flow cells can be counted multiple times for 'Register sequencing started' Nicklas Nordborg defect minor Reggie v2.18.1 net.sf.basedb.reggie
#711 The 'Confirm sequencing completed' wizard should not set FirstBaseReportFailed on flow cell Nicklas Nordborg enhancement minor Reggie v2.18.1 net.sf.basedb.reggie
#712 The 'Skin options' menu is only visible for root user defect minor Skin-collection 1.1 net.sf.basedb.skincollection
#714 Get rid of warning messages from HttpMethodBase olle enhancement minor LabEnv v1.3 net.sf.basedb.labenv
#715 Do not query the sensor for it's name every time olle enhancement minor LabEnv v1.3 net.sf.basedb.labenv
#721 Item not found: BioMaterialList[id=0] when trying to download HE glass labels Nicklas Nordborg defect minor Reggie v3.0 net.sf.basedb.reggie
#722 The count for Gene report wizard doesn't decrease after starting gene report Nicklas Nordborg defect minor Reggie v3.0 net.sf.basedb.reggie
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