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Ticket Summary Owner Type Priority Milestone Component
#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
#724 Summary counts on index page Nicklas Nordborg task minor Reggie v3.0 net.sf.basedb.reggie
#737 Show last update date+time for counters Nicklas Nordborg enhancement minor Reggie v3.1 net.sf.basedb.reggie
#738 Remove Cufflinks code from AlignJobCreator Nicklas Nordborg defect minor Reggie v3.2 net.sf.basedb.reggie
#739 Gene report doesn't pick up default path to template.pdf Nicklas Nordborg defect minor Reggie v3.2 net.sf.basedb.reggie
#741 AutoProcessing flag remains set on raw bioassays Nicklas Nordborg defect minor Reggie v3.2 net.sf.basedb.reggie
#744 Lab protocol for RNAQC on BioAnalyzer Nicklas Nordborg task minor Reggie v3.2 net.sf.basedb.reggie
#745 Incorrect QiaCube positions in DNA/RNA/FlowThrough registration wizard Nicklas Nordborg defect minor Reggie v3.2 net.sf.basedb.reggie
#747 Label file generated by the partition wizard should have even number of lables for each specimen Nicklas Nordborg enhancement minor Reggie v3.2 net.sf.basedb.reggie
#748 DNA/RNA/FlowThrough registration should have an option to load latest lot number Nicklas Nordborg enhancement minor Reggie v3.2 net.sf.basedb.reggie
#749 Allow extraction of less than 12 samples Nicklas Nordborg enhancement minor Reggie v3.5 net.sf.basedb.reggie
#751 Set max-base-version to 3.5.0 Nicklas Nordborg task minor Reggie v3.2 net.sf.basedb.reggie
#755 Display unit for PF_READS in "Confirm demux" wizard Nicklas Nordborg enhancement minor Reggie v3.2.1 net.sf.basedb.reggie
#761 Improve printing lists with multiple filter rows Nicklas Nordborg enhancement minor Print package v1.3 net.sf.basedb.print
#766 The popup menu in the Assign barcode wizard is transparent Nicklas Nordborg defect minor Reggie v3.2.2 net.sf.basedb.reggie
#788 NullPointerException when registering libraries Nicklas Nordborg defect minor Reggie v3.4 net.sf.basedb.reggie
#794 Improve visual difference between samples missing/having IHC annotation Nicklas Nordborg enhancement minor Reggie v3.5 net.sf.basedb.reggie
#798 Display thumbnail of gene report pdf in raw bioassays list and view page Nicklas Nordborg enhancement minor Reggie v3.5 net.sf.basedb.reggie
#799 TypeError: bestStain is null in case summary Jari Häkkinen defect minor Reggie v3.5 net.sf.basedb.reggie
#800 Add counter for total number of scored histology samples Nicklas Nordborg enhancement minor Reggie v3.5 net.sf.basedb.reggie
#803 Handle NanoDrop concentrations < 0 Nicklas Nordborg enhancement minor Reggie v3.5 net.sf.basedb.reggie
#805 LinkedSpecimen should set value for items with missing date Nicklas Nordborg enhancement minor Reggie v3.6 net.sf.basedb.reggie
#807 Flag RNA checkboxes should not be checked when inactive Nicklas Nordborg enhancement minor Reggie v3.6 net.sf.basedb.reggie
#814 New 1x16 pool layout that is offset to the left Nicklas Nordborg enhancement minor Reggie v3.7 net.sf.basedb.reggie
#819 Printable lab protocol from Create aliquots on Bioanalyzer/Caliper plates wizard Nicklas Nordborg enhancement minor Reggie v3.7 net.sf.basedb.reggie
#820 Add "Inconclusive" as an option to the IHCQuality annotation Nicklas Nordborg enhancement minor Reggie v3.7 net.sf.basedb.reggie
#823 Do not include items with only Read permission in selection lists Nicklas Nordborg enhancement minor Reggie v4.0 net.sf.basedb.reggie
#824 fix_tophat_unmapped_reads.py has been renamed to tophat-recondition.py Nicklas Nordborg enhancement minor Reggie v4.0 net.sf.basedb.reggie
#829 Display RNA box position in the lab protocol from "Create aliquots on Bioanalyzer/Caliper plates" wizard Nicklas Nordborg enhancement minor Reggie v4.0 net.sf.basedb.reggie
#831 Losing connection to Open grid cluster Nicklas Nordborg defect minor Reggie v4.0 net.sf.basedb.reggie
#832 Specimen tube registration wizard should create new storage boxes Nicklas Nordborg task minor Reggie v4.0 net.sf.basedb.reggie
#833 The "Plasma/serum" checkbox in the Blood referral form registration wizard (step 3) should not be checked for site '99' Nicklas Nordborg enhancement minor Reggie v4.0 net.sf.basedb.reggie
#839 Change YellowLabel status in "Pathology referral form registration" wizard Nicklas Nordborg enhancement minor Reggie v4.1 net.sf.basedb.reggie
#843 Set <max-base-version> to 3.8.0 olle task minor LabEnv v1.4 net.sf.basedb.labenv
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