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Ticket Summary Owner Type Priority Milestone Component
#854 Fix "Remaining quantity" filter in "Manual select" function Nicklas Nordborg defect minor Reggie v4.2 net.sf.basedb.reggie
#859 ProjectArchive should be shared with USE permission to the project Nicklas Nordborg enhancement minor Reggie v4.2 net.sf.basedb.reggie
#862 Import frozen tissue date wizard should have PatientCurator role Nicklas Nordborg defect minor Reggie v4.2.1 net.sf.basedb.reggie
#866 Implement the "Start page" extension Nicklas Nordborg task minor net.sf.basedb.reggie
#877 Add counter for consent forms Nicklas Nordborg enhancement minor Reggie v4.3 net.sf.basedb.reggie
#882 It is not possible for a user with PatientCurator role to use the "Re-create report PDFs" button in the YellowLabel wizard Nicklas Nordborg defect minor Reggie v4.4 net.sf.basedb.reggie
#884 Check timeouts for SSH commands Nicklas Nordborg enhancement minor Reggie v4.4 net.sf.basedb.reggie
#896 INCA import should include laterality mapping column olle task minor Reggie v4.6 net.sf.basedb.reggie
#907 Remove code that can create patient items from the follow-up blood registration wizard Nicklas Nordborg enhancement minor Reggie v4.7 net.sf.basedb.reggie
#909 All counters disappear if the ProjectArchive server is not available Nicklas Nordborg defect minor Reggie v4.7 net.sf.basedb.reggie
#918 Make it possible to filter on the Name column in the YellowLabel tracking wizard Nicklas Nordborg enhancement minor Reggie v4.8 net.sf.basedb.reggie
#920 GUI changes to delivery client Nicklas Nordborg enhancement minor Reggie v4.8 net.sf.basedb.reggie
#924 The progress bar may hide the final status message in wizards Nicklas Nordborg enhancement minor Reggie v4.9 net.sf.basedb.reggie
#925 Item not found: Group[....] in "Mark extracts for retraction" wizard Nicklas Nordborg defect minor Reggie v4.9 net.sf.basedb.reggie
#927 Set cluster node on jobs Nicklas Nordborg enhancement minor Reggie v4.x net.sf.basedb.reggie
#929 The "All cases" field display null when running the Mark extracts for retraction wizard on a case with consent=no Nicklas Nordborg defect minor Reggie v4.9 net.sf.basedb.reggie
#930 The "Register sequencing started" may register without a start date Nicklas Nordborg defect minor Reggie v4.9 net.sf.basedb.reggie
#936 Improve the display of "Missing" in the YellowLabel tracking wizard Nicklas Nordborg enhancement minor Reggie v4.9.1 net.sf.basedb.reggie
#937 Improve filters in YellowLabel tracking wizard Nicklas Nordborg enhancement minor Reggie v4.9.1 net.sf.basedb.reggie
#942 Manually registering a sequencing as ended changes the job status to ERROR Nicklas Nordborg defect minor Reggie v4.9.1 net.sf.basedb.reggie
#944 Some sections in the installation wizard are hidden Nicklas Nordborg enhancement minor Reggie v4.9.1 net.sf.basedb.reggie
#945 Re-design the installation wizard Nicklas Nordborg enhancement minor Reggie v4.10 net.sf.basedb.reggie
#951 BA PDF file should be optional in the "mRNA registration and quality control results" wizard Nicklas Nordborg enhancement minor Reggie v4.9.3 net.sf.basedb.reggie
#961 The partition wizard should set MultPieces to false if the checkbox is not checked Nicklas Nordborg enhancement minor Reggie v4.10 net.sf.basedb.reggie
#970 Specimen tube registration: Limit the value in "Number of tubes" to a single digit Nicklas Nordborg enhancement minor Reggie v4.10 net.sf.basedb.reggie
#986 Redesign the release exporter plug-in to make the cohort tables optional Nicklas Nordborg enhancement minor Reggie v4.11 net.sf.basedb.reggie
#991 Add "unclassified" to list of allowed values for the PILOT_Subtype annotation Nicklas Nordborg defect minor Reggie v4.11.2 net.sf.basedb.reggie
#1002 The release exporter should ignore directories and files that it has not permission to read Nicklas Nordborg defect minor Reggie v4.13 net.sf.basedb.reggie
#1004 Auto-confirmation after demux should start Tophat/Hisat jobs independently of each other Nicklas Nordborg enhancement minor Reggie v4.13 net.sf.basedb.reggie
#1010 2by16offset is missing from PoolSchema annotation Nicklas Nordborg defect minor Reggie v4.14 net.sf.basedb.reggie
#1011 Demux warning about a library with low PF_READS should include barcode Nicklas Nordborg enhancement minor Reggie v4.14 net.sf.basedb.reggie
#1012 Stratagene secondary analysis data files should be saved to the external archive Nicklas Nordborg enhancement minor Reggie v4.14 net.sf.basedb.reggie
#1020 Change novel-splicesite-outfile parameter to Hisat Nicklas Nordborg enhancement minor Reggie v4.15 net.sf.basedb.reggie
#1033 The INCA export wizard should only export personal numbers Nicklas Nordborg enhancement minor Reggie v4.16 net.sf.basedb.reggie
#1040 Set max BASE version to 3.13 Nicklas Nordborg task minor Reggie v4.16 net.sf.basedb.reggie
#1042 The release exporter fails if the release server has a specified port Nicklas Nordborg defect minor Reggie v4.16 net.sf.basedb.reggie
#1045 Display FrozenTissueDate annotation in case summary Nicklas Nordborg enhancement minor Reggie v4.17 net.sf.basedb.reggie
#1047 HaplotypeCaller should be wrapped with stdwrap.sh Nicklas Nordborg enhancement minor Reggie v4.18 net.sf.basedb.reggie
#1052 The FrozenTissueDate importer fails if ProvID is the first or last column Nicklas Nordborg defect minor Reggie v4.18 net.sf.basedb.reggie
#1058 The "Download labels" button in the DNA/RNA/FlowThrough registration wizard doesn't work Nicklas Nordborg defect minor Reggie v4.19 net.sf.basedb.reggie
#1059 NullPointerException when running the Genotype quality control wizard and no patient has been registered for a specimen Nicklas Nordborg defect minor Reggie v4.19 net.sf.basedb.reggie
#1060 Copy consent in referral form registration wizard Nicklas Nordborg enhancement minor Reggie v4.19 net.sf.basedb.reggie
#1065 It should be possible to search with PAD and RCCID number in case summary Nicklas Nordborg enhancement minor Reggie v4.19.1 net.sf.basedb.reggie
#1066 Specimen tube registration wizard should allow different sampling and RNA later dates Nicklas Nordborg enhancement minor Reggie v4.20 net.sf.basedb.reggie
#1069 Reggie should check actual active roles and not just membership Nicklas Nordborg defect minor Reggie v4.20 net.sf.basedb.reggie
#1079 The FrozenTissue date importer should ignore lines without date Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1082 HaplotypeCaller should not write command line parameters in result file Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1083 Add mBAF plot column to derived bioassay list Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1085 Remove the temporary hack for handling FlowThrough names with .f suffix Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1088 Keep Session Alive problems Nicklas Nordborg defect minor Reggie v4.21 net.sf.basedb.reggie
#1089 The Delivery client login should specify which login manager it uses Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1101 Annotation type categories for raw data types Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1102 The level3 exporter should use script templates enhancement minor Relax v1.4 net.sf.basedb.relax
#1105 Lower-case 'c/d' suffix in the specimen tube registration wizard should be auto-converted to upper case Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1106 A pre-registered consent should prevent the "copy consent" function from appearing Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1107 Search by PATnnnn names in case summary Nicklas Nordborg enhancement minor Reggie v4.21 net.sf.basedb.reggie
#1111 Changes in the INCA import Nicklas Nordborg enhancement minor Reggie v4.22 net.sf.basedb.reggie
#1112 Add a predefined option in the referral form registration when a case is registered without referral form Nicklas Nordborg enhancement minor Reggie v4.22 net.sf.basedb.reggie
#1113 Switch to JSON.simple 1.1.1-1 Nicklas Nordborg task minor Reggie v4.22 net.sf.basedb.reggie
#1114 Remove null="false" from "otp_requried" column definition Nicklas Nordborg defect minor OTP login v1.3 net.sf.basedb.otp
#1158 FASTQ files for external samples should not have the prefix in their names Nicklas Nordborg enhancement minor Reggie v4.23 net.sf.basedb.reggie
#1163 Start demux wizard may display the same sequencing run multiple times if it is marked for re-process Nicklas Nordborg defect minor Reggie v4.23 net.sf.basedb.reggie
#1166 Add configuration setting for disabling counting stray folders Nicklas Nordborg enhancement minor Reggie v4.23 net.sf.basedb.reggie
#1167 Safer debugging of release exporter plug-in Nicklas Nordborg enhancement minor Reggie v4.23 net.sf.basedb.reggie
#1169 The private-key file of a file-server is ignored in the installation servlet Nicklas Nordborg defect minor Reggie v4.23 net.sf.basedb.reggie
#1170 The private-key file of a file-server is ignored in the installation servlet Nicklas Nordborg defect minor Relax v1.6 net.sf.basedb.relax
#1171 Hisat alignment stops without error if the genotype VCF file can't be parsed Nicklas Nordborg enhancement minor Reggie v4.23 net.sf.basedb.reggie
#1173 Link a single <host> entry to more than one OpenGrid cluster Nicklas Nordborg enhancement minor Reggie v4.23 net.sf.basedb.reggie
#16 BasicReporter and BasicSpot Johan Enell enhancement trivial onk.lu.se
#24 vagina Jari Häkkinen defect trivial se.lu.thep.affymetrix
#26 Print result table as Output txt Johan Enell enhancement trivial se.lu.onk.ztest
#27 No limit on result list Johan Enell defect trivial se.lu.onk.ztest
#31 More reporter info Johan Enell enhancement trivial se.lu.onk.ztest
#34 move base.css Johan Enell task trivial ZZ Other tickets se.lu.onk.ztest
#36 naked girls free Jari Häkkinen enhancement trivial se.lu.thep.affymetrix
#52 Add educational material and use cases. Jari Häkkinen task trivial se.lu.thep.wenni 0.7 se.lu.thep.wenni
#124 files in Normalization package state they're are part of Illumina package Martin Svensson defect trivial Normalization package v1.0 net.sf.basedb.normalizers
#255 link to APT plug-in times out Jari Häkkinen defect trivial ZZ Other tickets tracpages
#352 'Consent date' annotation is not added to the 'Case' annotation type category Nicklas Nordborg defect trivial Reggie v2.2 net.sf.basedb.reggie
#519 Date fields should not allow 6-digit dates olle defect trivial Reggie v2.13 net.sf.basedb.reggie
#535 The Flagged RNA dialog doesn't round numeric values Nicklas Nordborg enhancement trivial Reggie v2.14 net.sf.basedb.reggie
#536 Case summary display should remember the 'pageType' parameter Nicklas Nordborg defect trivial Reggie v2.14 net.sf.basedb.reggie
#570 Installation wizard incorrectly display '0 more...' Nicklas Nordborg defect trivial Reggie v2.15 net.sf.basedb.reggie
#576 Error message container for case summary hidden behind tool bar olle defect trivial Reggie v2.15 net.sf.basedb.reggie
#590 Couting number of items on the index page block interactions Nicklas Nordborg defect trivial Reggie v2.15 net.sf.basedb.reggie
#607 Date /time format is different in configuration file and GUI olle Request trivial LabEnv v1.2 net.sf.basedb.labenv
#626 NullPointerException when registering follow-up blood Nicklas Nordborg defect trivial Reggie v2.16 net.sf.basedb.reggie
#633 Adapter peak fraction=0 is displayed as 'unknown' in the pooling wizard Nicklas Nordborg defect trivial Reggie v2.16 net.sf.basedb.reggie
#639 Case summary may throw ItemNotFoundException Nicklas Nordborg defect trivial Reggie v2.16 net.sf.basedb.reggie
#648 More help texts in the specimen tube registration wizard Nicklas Nordborg enhancement trivial Reggie v2.16.1 net.sf.basedb.reggie
#649 Better balance in progress when demuxing Nicklas Nordborg enhancement trivial Reggie v2.16.1 net.sf.basedb.reggie
#666 Default number of slots for demux should be 4 Nicklas Nordborg enhancement trivial Reggie v2.16.2 net.sf.basedb.reggie
#694 Path-element tags should use subclass instad of clazz Nicklas Nordborg defect trivial Reggie v2.17.1 net.sf.basedb.reggie
#731 Installation wizard should enable AutoProcessing annotation for raw bioassays Nicklas Nordborg defect trivial Reggie v3.1 net.sf.basedb.reggie
#743 The second trimmomatic step in demux script may not include options Nicklas Nordborg defect trivial Reggie v3.2 net.sf.basedb.reggie
#760 Prepare for adding help texts in reggie wizards Nicklas Nordborg task trivial Reggie v3.2.1 net.sf.basedb.reggie
#817 Always display rna box position in normalization protocol Nicklas Nordborg enhancement trivial Reggie v3.7 net.sf.basedb.reggie
#840 Change cutoff for Caliper HiSense to 50ng/µl Nicklas Nordborg enhancement trivial Reggie v4.1 net.sf.basedb.reggie
#872 Register Reggie as a start page Nicklas Nordborg task trivial Reggie v4.4 net.sf.basedb.reggie
#886 Add thousand separator to counter on Reggie start page Nicklas Nordborg enhancement trivial Reggie v4.4 net.sf.basedb.reggie
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