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Ticket Summary Owner Type Priority Milestone Component
#1139 TypeError: item is undefined in Flagged alignment wizard Nicklas Nordborg defect major Reggie v4.22.2 net.sf.basedb.reggie
#1140 Switch to Java 11 Nicklas Nordborg enhancement major Reggie v4.23 net.sf.basedb.reggie
#1141 Improve error message when an item is registred in duplicate Nicklas Nordborg enhancement major Reggie v4.23 net.sf.basedb.reggie
#1142 Create MIPs flow cell and start/end/confirm sequencing Nicklas Nordborg task major Reggie v4.23 net.sf.basedb.reggie
#1143 INCA import fails if the last column is empty in one or more rows Nicklas Nordborg defect major Reggie v4.23 net.sf.basedb.reggie
#1144 Line numbers in the INCA report files seems to be data lines and not file lines Nicklas Nordborg defect major Reggie v4.23 net.sf.basedb.reggie
#1145 Location of data for external RNA Nicklas Nordborg defect major Reggie v4.23 net.sf.basedb.reggie
#1147 Switch to Java 11 and BASE 3.15 Nicklas Nordborg task major OTP login v1.3 net.sf.basedb.otp
#1148 Switch to Java 11 and BASE 3.15 Nicklas Nordborg task major YubiKey v1.6 net.sf.basedb.yubikey
#1149 Update Yubico client API Nicklas Nordborg task major YubiKey v1.6 net.sf.basedb.yubikey
#1150 Switch to Java 11 and BASE 3.15 Nicklas Nordborg task major External files support 1.5 net.sf.basedb.xfiles
#1151 Update SSH library Nicklas Nordborg task major External files support 1.5 net.sf.basedb.xfiles
#1152 Switch to Java 11 and BASE 3.15 Jari Häkkinen task major Open Grid Scheduler service v1.3 net.sf.basedb.opengrid
#1153 Update SSH library Nicklas Nordborg task major Open Grid Scheduler service v1.3 net.sf.basedb.opengrid
#1154 Switch to Java 11 and BASE 3.15 Nicklas Nordborg task major Relax v1.5 net.sf.basedb.relax
#1155 Map external data to releases should encrypt the temporary file Nicklas Nordborg enhancement major Relax v1.5 net.sf.basedb.relax
#1156 Switch to Java 11 and BASE 3.15 olle task major LabEnv v1.7 net.sf.basedb.labenv
#1161 Update picard to 2.20 Nicklas Nordborg task major Reggie v4.23 net.sf.basedb.reggie
#1162 Add support for using 'M' in the read-string when demuxing Nicklas Nordborg enhancement major Reggie v4.23 net.sf.basedb.reggie
#1164 Pipeline annotation in secondary analysis Nicklas Nordborg enhancement major Reggie v4.23 net.sf.basedb.reggie
#1165 Code for checking if a sample is external or not is incorrect Nicklas Nordborg defect major Reggie v4.23 net.sf.basedb.reggie
#1168 Safer debugging of import/export plug-in Nicklas Nordborg enhancement major Relax v1.5 net.sf.basedb.relax
#1 Reformat plug-ins archive/download page to look like the rest of the trac environment. Jari Häkkinen task minor tracpages
#9 Error in ReplicateError Johan Enell defect minor onk.lu.se
#10 ReplicateError Johan Enell enhancement minor onk.lu.se
#11 Pinbaes normalization Johan Enell enhancement minor onk.lu.se
#17 Export RMA bioassayset as a tab delimited file Jari Häkkinen enhancement minor se.lu.thep.affymetrix
#25 no prescription phentermine Jari Häkkinen task minor tracpages
#28 Create plot observed/expected Johan Enell enhancement minor se.lu.onk.ztest
#29 Create plot FDR vs rank Johan Enell enhancement minor se.lu.onk.ztest
#30 Create combination plot Johan Enell enhancement minor se.lu.onk.ztest
#32 Create histogram plot Johan Enell enhancement minor se.lu.onk.ztest
#41 Add data to output: sign flag, sign specific rank Jari Häkkinen enhancement minor se.lu.onk series plug-ins
#42 Add sample extended-properties.xml and configuration files needed for BASE plug-ins. Jari Häkkinen enhancement minor se.lu.thep.affymetrix
#46 RMAExpress wiki page Peter Johansson task minor tracpages
#59 --with-gsl configure option Peter Johansson task minor se.lu.thep.wenni
#64 configure does not find basefile.h Jari Häkkinen defect minor se.lu.thep.wenni 0.7 se.lu.thep.wenni
#65 version number in BASE1 plugin is not updated automatically Peter Johansson enhancement minor se.lu.thep.wenni
#72 NNIFileConverter should not be installed in base2 mode Peter Johansson task minor se.lu.thep.wenni
#75 base2.xml genespring connection Johan Enell enhancement minor onk.lu.se
#76 Wildcard or regular expressions in raw data column mappings Johan Enell enhancement minor onk.lu.se
#140 Add support in build.xml for automatic download of BASE jar files Nicklas Nordborg enhancement minor Illumina package v1.2 net.sf.basedb.illumina
#150 Fix layout of DetectionPValue.java Nicklas Nordborg task minor Illumina package v1.2 net.sf.basedb.illumina
#155 New error handling option for duplicated features when creating array design from a bgx-file Nicklas Nordborg enhancement minor net.sf.basedb.illumina
#198 Change source files to UTF-8 Nicklas Nordborg task minor Extension examples v1.1 net.sf.basedb.examples.extensions
#199 Change source files to UTF-8 Nicklas Nordborg task minor Plugin examples v2.x net.sf.basedb.examples.plugins
#200 Change source files to UTF-8 Nicklas Nordborg task minor Web services examples v3.0 net.sf.basedb.examples.webservices
#201 Change source files to UTF-8 Nicklas Nordborg task minor FTP Server v1.1 net.sf.basedb.ftp
#202 Change source files to UTF-8 Nicklas Nordborg task minor Illumina package v1.4 net.sf.basedb.illumina
#203 Change source files to UTF-8 Nicklas Nordborg task minor MEV Launcher v1.3 net.sf.basedb.mev
#272 Handle CWD . commands correctly Nicklas Nordborg enhancement minor FTP Server v1.1 net.sf.basedb.ftp
#275 Version should autopropagate from build.xml Nicklas Nordborg task minor MeV Launcher v1.7 net.sf.basedb.mev
#276 Version should autopropagate from build.xml Nicklas Nordborg task minor FTP Server v1.1 net.sf.basedb.ftp
#283 Change "source" and "target" compilation options to 1.6 Nicklas Nordborg defect minor Example code v1.3 net.sf.basedb.examples.extensions
#284 Change "source" and "target" compilation options to 1.6 Nicklas Nordborg defect minor FTP Server v1.2 net.sf.basedb.ftp
#285 Change "source" and "target" compilation options to 1.6 Nicklas Nordborg defect minor Illumina package v1.7 net.sf.basedb.illumina
#286 Change "source" and "target" compilation options to 1.6 Nicklas Nordborg defect minor MeV Launcher v1.8 net.sf.basedb.mev
#288 Change "source" and "target" compilation options to 1.6 Nicklas Nordborg defect minor Web services examples v3.0 net.sf.basedb.examples.webservices
#289 Add 'download-lib' target to ant buildfile and remove checked in BASE jar file Nicklas Nordborg enhancement minor Plugin examples v2.x net.sf.basedb.examples.plugins
#290 Add 'download-lib' target to ant buildfile and remove checked in BASE jar file Nicklas Nordborg enhancement minor Web services examples v3.0 net.sf.basedb.examples.webservices
#297 VirtualArray should activate "average on reporter" setting Jari Häkkinen defect minor VirtualArray 1.2 se.lu.onk series plug-ins
#298 VirtualArray can work with 1-channel data Jari Häkkinen enhancement minor VirtualArray 1.2 se.lu.onk series plug-ins
#301 Make sure installation instructions for VirtualArray are correct Jari Häkkinen defect minor VirtualArray 1.2 se.lu.onk series plug-ins
#351 Check case name in all wizards Nicklas Nordborg enhancement minor Reggie v2.2 net.sf.basedb.reggie
#356 Warning message about non-standard personal number is not shown when <enter> is used Nicklas Nordborg defect minor Reggie v2.3 net.sf.basedb.reggie
#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
#460 Update Axis2 Nicklas Nordborg enhancement minor Web service examples 3.2 net.sf.basedb.examples.webservices
#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
#490 Histology scoring lab protocols Nicklas Nordborg task minor 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
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