Implementation Items: Browse | Download .csv

ID Summary Open Date State Priority Assigned To Submitted By found_in_label status target_version fixed_in_label item_type point_estimate test_script fixed_in_revision loe_best_case loe_expected loe_worst_case environment traces_to_uc traces_to_supp release_notes description_of_fix loe_explanation 8328 Add Comment handling to MAGE-TAB parsing * 2007-08-09 08:52 Open 2 Nobody Eric Tavela Submitted Feature Enhancement 8329 Add Date, Performer, Description handing to SDRF parser * 2007-08-09 08:54 Open 2 Nobody Eric Tavela Submitted Feature Enhancement 8330 Expand MageTabParserTest * 2007-08-09 09:01 Open 2 Nobody Eric Tavela Submitted Code Improvement Import Data Files 8331 Expand MageTabTranslatorTest * 2007-08-09 09:02 Open 2 Nobody Eric Tavela Submitted Code Improvement Import Data Files 8410 Design and implement self-registering data file handlers * 2007-08-14 05:35 Open 3 Nobody Eric Tavela Submitted Code Improvement 9735 Use of Affymetrix API requires explicity call to System.gc() (potential performance issue) * 2007-10-25 17:45 Open 1 Nobody Eric Tavela Submitted Code Improvement 9761 Move all static text in to resource bundles * 2007-10-26 16:46 Open 2 Nobody Scott Miller Submitted Code Improvement 10096 Improve Unexpected Error Handling * 2007-11-08 10:32 Open 3 Daniel Kokotov Scott Miller To Be Assessed deferred Code Improvement 10109 No security check with JAVA API * 2007-11-08 14:37 Open 3 Ye Wu Ye Wu CAARRAY_R2_0_0_QA8 Fixed 2.0.0 CAARRAY_R2_0_0_BETA2 Defect qa vm Acquire Experiment Data via AP fixed in r4923 fix addresses missing Experiment filter. 10166 Duplicate persons exist * 2007-11-09 15:30 Open 3 Ye Wu Ye Wu CAARRAY_R2_0_0_QA8 Deferred deferred Defect qa vm Acquire Experiment Data via AP Manage Experiment Permissions Manage Collaborators Manage Users Support Multiple Roles per Use see notes 10192 Select associations for annotations ui causes extra whitespace in IE * 2007-11-13 14:34 Open 2 Nobody Scott Miller Submitted Code Improvement 10213 Auditable / lastUpdated needed (ProjectDaoImpl.save) * 2007-11-13 17:41 Open 1 Nobody Todd Parnell Submitted Code Improvement 10214 Querying from one local instance of caArray to another using caGRID not available * 2007-11-13 17:55 Open 4 Nobody Tom Boal CAARRAY_R2_0_0_QA8 To Be Assessed deferred Defect Navigate Repository 10227 Intermittent JAVA runtime exception * 2007-11-14 10:29 Open 4 Ye Wu Ye Wu CAARRAY_R2_0_0_QA8 Fixed 2.0.0 CAARRAY_R2_0_0_BETA2 Defect qa vm Acquire Experiment Data via AP 10264 Sample submission * 2007-11-14 16:21 Open 3 Brent Gendleman Jill Hadfield CAARRAY_R2_0_0_QA8 Declined CAARRAY_R2_0_0_QA8 Defect Submit Experiment Proposal 10265 Errors in Organism options * 2007-11-14 16:32 Open 3 Brent Gendleman Jill Hadfield CAARRAY_R2_0_0_QA8 Declined CAARRAY_R2_0_0_QA8 Defect Submit Experiment Proposal 10269 getIncrementingCopyName needs to bypass filters * 2007-11-14 19:26 Open 2 Daniel Kokotov Todd Parnell To Be Assessed deferred Code Improvement 10270 Illumina Genotyping Locus X DNA report is not parsed * 2007-11-14 20:02 Open 2 Nobody Tom Boal CAARRAY_R2_0_0_QA8 Analyzed deferred Defect 30 qa vm Acquire Experiment Data via AP 10277 ADDRESS incorrectly parsed; duplicate addresses * 2007-11-15 11:16 Open 3 Makiko Duncan Tom Boal CAARRAY_R2_0_0_QA8 Deferred deferred Defect qa vm Manage Users Register for an Account caCORE - CSM 10340 Entering "PubMed ID" value pulls data from NCBI pubmed server * 2007-11-19 09:42 Open 2 Makiko Duncan Tom Boal Submitted New Feature Manage Publications 10378 Fine grained access control * 2007-11-19 17:22 Open 2 Nobody Todd Parnell Submitted Code Improvement 10409 imported CEL files vanish into thin air * 2007-11-20 19:52 Open 2 Brent Gendleman Tom Boal CAARRAY_R2_0_0_ALPHA1 Declined Defect qa vm Import Data Files 10479 Coverage > 80/70 * 2007-11-26 15:00 Open 4 Daniel Kokotov Todd Parnell To Be Assessed deferred Code Improvement 10511 Import Array Design: Can associate any Array design with any manufacturer (incorrect) * 2007-11-27 15:08 Open 3 Ronald Keene Ronald Keene CAARRAY_R2_0_0_ALPHA2 Declined deferred Defect qa vm Manage Array Designs 10570 [#7959] UC7224: Import Experiment Data - MAGE-TAB Set (API test) fails on QA * 2007-11-28 20:37 Open 3 Tom Boal Tom Boal CAARRAY_R2_0_0_BETA1 Declined Defect qa vm Acquire Experiment Data via AP 10574 Add support for auditing * 2007-11-29 10:47 Open 3 Nobody Juli Klemm Submitted New Feature 10638 Validating IDF & SDRF * 2007-12-03 11:05 Open 3 Xiaopeng Bian Xiaopeng Bian Fixed 2.0.0 CAARRAY_R2_0_0_BETA10 Defect 10640 Experiment Workspace: Public Experiments Tab not showing experiment after Browsability state changed * 2007-12-03 11:31 Open 4 Ronald Keene Ronald Keene CAARRAY_R2_0_0_BETA2 Declined 2.0.0 Defect qa vm Manage Experiment Permissions Not a bug. See comment for explanation 10648 Misleading Browse/search page for logged-in user * 2007-12-03 13:43 Open 3 Ronald Keene Ronald Keene CAARRAY_R2_0_0_BETA2 Declined Defect qa vm Navigate Repository Search Repository 10744 after login session times out, "logout" still displays in upper rt hand corner * 2007-12-06 11:21 Open 3 Brent Gendleman Jill Hadfield CAARRAY_R2_0_0_BETA2 Declined 2.0.0 CAARRAY_R2_0_0_BETA3 Defect qa vm Login Session Timeout - 15 min will not fix 10746 idf and sdrf file parsing and display * 2007-12-06 11:34 Open 3 Xiaopeng Bian Xiaopeng Bian CAARRAY_R2_0_0_ALPHA2 Fixed 2.0.0 CAARRAY_R2_0_0_BETA5 Defect 10752 Performing Manage Data Tasks without being in Edit mode * 2007-12-06 12:23 Open 2 Jill Hadfield Jill Hadfield CAARRAY_R2_0_0_BETA2 Declined Defect Manage Experiment Data Files 10755 Unable to search from arraydesign to arraydesigndetails * 2007-12-06 13:01 Open 4 Eric Tavela Ye Wu CAARRAY_R2_0_0_BETA2 Duplicate 2.0.0 CAARRAY_R2_0_0_BETA6 Defect Acquire Experiment Data via AP 10810 java.util.zip.ZipException: error in opening zip file * 2007-12-10 09:12 Open 4 Tom Boal Tom Boal CAARRAY_R2_0_0_BETA3 Declined Defect qa vm Import Data Files 10908 GSK MAGE-TAB Validation - Size Issue * 2007-12-12 14:59 Open 4 Xiaopeng Bian Xiaopeng Bian Fixed 2.0.0 CAARRAY_R2_0_0_RC1 Defect 10909 still validating after 3 hours * 2007-12-12 15:34 Open 3 Xiaopeng Bian Xiaopeng Bian CAARRAY_R2_0_0_BETA4 Fixed 2.0.0 CAARRAY_R2_0_0_BETA6 Defect 11088 File Status Transition from Uploaded to Validated Failure * 2007-12-20 11:16 Open 4 Xiaopeng Bian Xiaopeng Bian CAARRAY_R2_0_0_BETA5 Clarification Required 2.0.0 Defect 11468 MAGE-TAB Validation: Inconsistent Data and Design Not Caught in SDRF * 2008-01-08 14:16 Open 2 Nobody Xiaopeng Bian CAARRAY_R2_0_0_BETA6 Analyzed deferred Defect 30 qa vm 11588 MAGE-TAB : Import fails with server-side exception (no feedback given to user) -- Could not execute JDBC batch update * 2008-01-14 14:53 Open 4 Steve Matyas Steve Matyas CAARRAY_R2_0_0_BETA7 Fixed 2.0.0 CAARRAY_R2_0_0_BETA8 Defect dev 11598 MAGE-TAB: Import: Description missing/omitted for Source * 2008-01-14 18:12 Open 4 Steve Matyas Steve Matyas CAARRAY_R2_0_0_BETA7 Fixed CAARRAY_R2_0_0_BETA8 Defect SdrfDocument was ignoring the Description during parsing. I've added proper handling to add description to biomaterials. 11686 JAVA API Search for ArrayDesignDetails throws exceptions * 2008-01-16 12:10 Open 3 Eric Tavela Ye Wu Verification failed 2.0.0 CAARRAY_R2_0_0_BETA8 Defect 30 qa vm 11688 Upload array design: DAOException: Unable to save entity * 2008-01-16 12:37 Open 4 Paul Duvall Tom Boal CAARRAY_R2_0_0_BETA6 Verification failed 2.0.0 CAARRAY_R2_0_0_RC5 Defect installer Manage Array Designs with our revamped blob storage the max packet exceptions should no longer occur 11780 SDRF file does not validate if data files are uploaded first * 2008-01-20 17:35 Open 4 Makiko Duncan Juli Klemm Dev Build Duplicate 2.2.0 Defect dev Validate Experiment Data Files 2.0.1 11816 Redesign remote api for aquiring array design details * 2008-01-23 01:49 Open 2 Daniel Kokotov Daniel Kokotov CAARRAY_R2_0_0_BETA10 Submitted deferred Defect Acquire Experiment Data via AP 2.0.1 11926 Use different database for executing unit and integration tests * 2008-01-28 11:35 Open 3 Douglas Harley Daniel Kokotov Analyzed 2.3.0 Code Improvement 1 2 3 11953 Recieved out of memory error while searching LogicalProbe object * 2008-01-28 16:25 Open 3 Daniel Kokotov Ye Wu Analyzed deferred Defect qa vm 2.0.1 12031 Object graph trimming/initialization leads to poor performance with large data sets * 2008-01-31 11:05 Open 3 Daniel Kokotov Eric Tavela CAARRAY_R2_0_0_RC4 To Be Assessed deferred Defect dev Acquire Experiment Data via AP 2.0.1 12033 Timeout period for upload of Array Designs not configurable on local installations * 2008-01-31 11:50 Open 2 Makiko Duncan Tom Boal GA_R2_0_0 Declined 2.2.0 Documentation Update Installation Guide 12110 Add indexes to all fields that can be sorted / searched on in commonly accessed pages * 2008-02-01 16:18 Open 3 Daniel Kokotov Daniel Kokotov CAARRAY_R2_0_0_RC5 Submitted deferred Defect qa vm 12119 Allow files greater than 1 GB to be uploaded * 2008-02-03 23:53 Open 3 Nobody Juli Klemm Submitted Feature Enhancement 12282 Add generic getAll method to SearchDAO, punt individual methods of that form * 2008-02-06 17:29 Open 2 Daniel Kokotov Daniel Kokotov To Be Assessed deferred Code Improvement 12580 Build targets database:recreate-database: and database:drop-schema: give hundreds of MySQLSyntaxErrorException messages * 2008-02-20 17:40 Open 3 Nobody Tom Boal GA_R2_0_0 To Be Assessed Defect installer Installation Guide 12637 Install guide says edit mysqld file, which doesn't exist * 2008-02-22 13:11 Open 3 Nobody Tom Boal GA_R2_0_0 Submitted Defect installer Installation Guide 12652 JDBCExceptionReporter.error(114) | Table 'caarraydb.CSM_APPLICATION' doesn't exist * 2008-02-25 12:53 Open 3 Paul Duvall Tom Boal GA_R2_0_0 Submitted Defect installer 12664 Consider removing descriptions from lists of items * 2008-02-25 18:24 Open 3 Nobody Steve Lustbader deferred Defect 12673 validation.email settings are hard-coded in upt-install.properties * 2008-02-26 11:32 Open 3 Tom Boal Tom Boal GA_R2_0_0 Submitted Defect installer Installation Guide If we can get another email address for general purpose then yes. This is for troubleshooting. I'd like to change it in the future to an NCI address. 12734 /etc/init.d/mysql file contains neither start() section nor /usr/bin/mysqld_safe reference * 2008-02-27 15:50 Open 3 Paul Duvall Tom Boal GA_R2_0_0 Submitted Defect installer Installation Guide 12856 Configure MySQL to run as service on RHEL, get error on reboot ( avc: denied { append } for pid ) * 2008-03-03 14:21 Open 3 Nobody Tom Boal GA_R2_0_0 Submitted Defect installer Installation Guide 12857 Unclear where to add new parameter values when editing server-config.wsdd file * 2008-03-03 14:54 Open 3 Nobody Tom Boal GA_R2_0_0 Submitted Defect installer Installation Guide 12875 Try to restart JBoss4.0.4 GridServices: javax.naming.CommunicationException: Could not obtain connection to any of these urls: localhost:1099 * 2008-03-04 12:33 Open 3 Nobody Tom Boal GA_R2_0_0 To Be Assessed Defect installer Installation Guide 13001 Legacy data may contain incorrect Array information * 2008-03-12 12:37 Open 3 Nobody Steve Lustbader Analyzed deferred Defect 30 13068 Provide an upgrade mechanism for compex, interdependent upgrade steps * 2008-03-17 17:24 Open 4 Nobody Eric Tavela Submitted Code Improvement 13101 Add pretty URLs (of the http://array.nci.nih.gov/caarray/project/admin-00001) for other concepts in the system * 2008-03-18 13:50 Open 3 Daniel Kokotov Daniel Kokotov To Be Assessed deferred New Feature 13114 Add ability to see position of imports in Queue and perhaps managing the queue * 2008-03-18 18:03 Open 3 Nobody Daniel Kokotov Submitted New Feature 13123 Display MAGE-TAB Characteristics in the Order provided in the SDRF * 2008-03-19 15:00 Open 3 Nobody Juli Klemm Submitted Feature Enhancement 13126 Support Illumina bgx files for array designs * 2008-03-19 23:31 Open 4 Nobody Juli Klemm Analyzed deferred New Feature 40 60 120 Manage Array Designs there is a lot of uncertainty as there are multiple types of ilklumina designs (expression vs genotyping) which have differing info. also the loe depends on how much of the data in the new format we wamnt to support 13164 Duplicate entries in Organism table * 2008-03-21 19:29 Open 4 Makiko Duncan Tom Boal 2_0_1_RC1 Submitted 2.3.0 Defect Submit Experiment Proposal 13178 Local installer doesn't successfully shut down jboss; port 31098 is thus still in use and BUILD FAILS * 2008-03-24 16:27 Open 3 Makiko Duncan Tom Boal 2_0_1_RC1 Submitted deferred Defect installer Installation Guide 13181 Support Illumina DNA methylation array designs. * 2008-03-24 20:42 Open 3 Nobody Rashmi Srinivasa To Be Assessed deferred New Feature 13235 Support protocol applications to raw data files * 2008-03-26 17:21 Open 3 Nobody Juli Klemm Submitted New Feature 13236 Support Nimblegen GFF tiling array designs * 2008-03-26 17:24 Open 3 Nobody Juli Klemm Submitted New Feature 13237 Expand/re-evaluate the Assay Type list * 2008-03-26 17:28 Open 3 Nobody Juli Klemm GA_R2_0_0 Analyzed deferred Defect 1 2 3 installer 13238 Remove restriction of one assay type per array design * 2008-03-26 17:31 Open 3 Brian Pickeral Juli Klemm GA_R2_0_0 Analyzed 2.3.0 Defect 10 12 16 installer 13316 Experiment Description and Array Design Description are free text fields with no apparent limits * 2008-03-31 13:11 Open 3 Makiko Duncan Tom Boal 2_0_1_RC3 Submitted Defect qa vm Submit Experiment Proposal 13332 Draft Experiments should have No Visibility * 2008-03-31 22:56 Open 4 Max Shestopalov Juli Klemm Coding Completed 2.1.0 2_3_0_ALPHA1 Feature Enhancement 8754 13347 2.0.1 Upgrade installer: Interactive Installer 'n' response should return application to previous state * 2008-04-01 14:06 Open 3 Makiko Duncan Ronald Keene 2_0_1_RC3 Submitted 2_0_1_RC3 Defect installer 2.0.1 13360 Implement tab counts consistently across the application * 2008-04-01 17:49 Open 3 Nobody Daniel Kokotov Submitted deferred New Feature 13361 Display of scientific symbols * 2008-04-01 17:50 Open 3 Nobody Daniel Kokotov Submitted New Feature 13486 Array design Importing for 5 days, without either completing import or Import Failed * 2008-04-07 11:41 Open 3 Makiko Duncan Tom Boal 2_0_1_RC4 Submitted Defect qa vm Manage Array Designs 13504 Document how to implement changes to object model (UML, caDSR, caGrid, etc.) * 2008-04-07 18:03 Open 3 Nobody Eric Tavela Documentation Update 13547 MAGE-TAB IDF file with a protocol name with no asscoicated protocol type causes misallocation of protocol name * 2008-04-08 19:31 Open 3 Makiko Duncan Tom Boal 2_0_1_RC4 Submitted Defect Import Data Files 13549 grow protocols with MAGE-TAB experiments are ignored in GUI after import * 2008-04-08 19:47 Open 3 Makiko Duncan Tom Boal 2_0_1_RC4 Submitted Defect qa standalone Import Data Files 13550 Protocol application image and array data not populated from MAGE-TAB * 2008-04-09 09:13 Open 2 Nobody Steve Lustbader Submitted Feature Enhancement 13563 Parse New Fields: Clinical Diagnosis, Histologic Diagnosis, Tissue Anatomic Site, Pathologic Status * 2008-04-09 13:52 Open 4 Makiko Duncan Makiko Duncan Submitted deferred New Feature 13597 Hybridization/AbstractBioMaterial.protocolApplications should be one-to-many * 2008-04-10 16:33 Open 2 Nobody Steve Lustbader Submitted Code Improvement 13598 IDF with missing Experiment Design imports, yet its marked as a required field in the GUI * 2008-04-10 16:48 Open 3 Makiko Duncan Tom Boal 2_0_1_RC4 Submitted Defect qa standalone Import Data Files 13664 Grid client run from command line produces exception * 2008-04-16 10:28 Open 3 Makiko Duncan Ronald Keene 2_0_1_RC4 Submitted Defect local 13665 Java heap space error when running API CaArraySearchService on DesignElementList * 2008-04-16 10:49 Open 4 Makiko Duncan Tom Boal 2_0_1_RC4 Submitted Defect lsd qa standalone Acquire Experiment Data via AP 13699 Large upload job doesn't indicate completion, and Manage Data page makes it hard to infer completion. * 2008-04-18 11:18 Open 4 Makiko Duncan Rashmi Srinivasa 2_0_2_RC1 To Be Assessed deferred Defect prod Download Experiment Data 13769 Sorting on File Name in Manage Data page is very slow. * 2008-04-23 11:31 Open 3 Daniel Kokotov Rashmi Srinivasa 2_0_2_RC1 Submitted Defect qa vm Manage Experiment Data Files 13807 populate "accession vlaue" of vocabulary through magetab * 2008-04-24 15:34 Open 3 Nobody Xiaopeng Bian Submitted New Feature 13854 Latest caarray-client.zip in SVN is corrupted: not a valid archive * 2008-04-28 11:56 Open 3 Makiko Duncan Tom Boal 2_0_1_RC2 Submitted Defect lsd Acquire Experiment Data via AP 13859 No API provided to logout through the Remote Java API, causing anonymous user to gain access to previous credentialed user's private data. * 2008-04-28 13:24 Open 4 Nobody Rashmi Srinivasa 2_0_2_RC4 Declined deferred Defect prod Acquire Experiment Data via AP 13949 reuse existing genes by symbol name in GENE table * 2008-05-01 15:00 Open 3 Makiko Duncan Tom Boal Submitted Feature Enhancement 13966 Attempt to insert MeasurementBasedCharacteristics throws SQLException * 2008-05-02 13:53 Open 3 Nobody Eric Tavela 2_0_2_GA Defect 14023 Limit Material Type and Protocol Type terms to the MGED Ontologies * 2008-05-06 11:05 Open 3 Makiko Duncan Juli Klemm Submitted Feature Enhancement 14079 Allow file import for those files that import before the import job fails * 2008-05-08 10:58 Open 3 Makiko Duncan Leonie Misquitta Submitted Feature Enhancement Import Data Files 14303 idf, sdrf file pass validation but data files failed for array design file can not be found * 2008-05-17 00:14 Open 4 Xiaopeng Bian Xiaopeng Bian 2_1_0_GA Declined 2.2.0 Defect qa standalone 14371 Provide UI-based mechanism for resolving import failure * 2008-05-21 05:38 Open 4 Juli Klemm Juli Klemm 2_0_1_RC4 Clarification Required Defect prod local 14441 caArray 2.0.2 upgrade installer: Badly formed URL * 2008-05-23 11:10 Open 3 Makiko Duncan Ronald Keene 2_0_2_GA Submitted Defect installer 14506 look into adding a gzip filter of html content * 2008-05-28 16:23 Open 2 Nobody Max Shestopalov 2_1_0_ALPHA1 Defect 14580 Refactor progress bar JS for global use * 2008-06-02 13:32 Open 2 Daniel Kokotov Daniel Kokotov To Be Assessed deferred Code Improvement 14630 A collaborator that uploads files cannot see them in the manage data tab * 2008-06-03 18:27 Open 4 Daniel Kokotov Daniel Kokotov 2_1_0_ALPHA2 To Be Assessed 2.3.0 Defect Manage Experiment Permissions Submit Experiment Proposal 14669 Add ability to download array design files * 2008-06-05 21:19 Open 3 Makiko Duncan Daniel Kokotov Submitted New Feature Manage Array Designs 14676 Affymetrix CDF Handler does not connect logical probes, physical probes, and features * 2008-06-06 11:30 Open 3 Nobody Steve Lustbader 2_1_0_ALPHA2 Analyzed deferred Defect 30 4 10 24 local 14708 Data retrieval API ignores design elements specified in request and returns data for all. * 2008-06-09 13:02 Open 4 Daniel Kokotov Rashmi Srinivasa 2_0_2_PATCH1_RC2 Analyzed deferred Defect 30 prod Acquire Experiment Data via AP 14771 Provide a well-known URL to navigate to any biomaterial page. * 2008-06-10 22:58 Open 3 Makiko Duncan Rashmi Srinivasa Submitted New Feature 14772 Provide the ability to reuse biomaterials across experiments. * 2008-06-10 23:01 Open 3 Makiko Duncan Rashmi Srinivasa Submitted New Feature 14818 Support the capture of external Experiment ID * 2008-06-13 14:51 Open 3 Makiko Duncan Juli Klemm Submitted New Feature Submit Experiment Proposal 14833 A single Human_WG-6 imported array design is both Affymetrix and Illumina at the same time * 2008-06-16 13:08 Open 4 Makiko Duncan Tom Boal 2_1_0_ALPHA2 To Be Assessed deferred Defect stage Manage Array Designs 14918 Add support to SearchDao for queryUniqueResult() and queryRequiredUniqueResult * 2008-06-18 15:25 Open 3 Nobody Steve Matyas Submitted Code Improvement 14927 Import data files: Poor communication of not importing dataset when message of importing was given by UI * 2008-06-19 11:50 Open 2 Nobody Ronald Keene 2_1_0_ALPHA3 Analyzed deferred Defect 30 4 5 10 qa vm qa standalone Manage Experiment Data Files Import Data Files Validate Experiment Data Files there is a lot of uncertainly with this issue as the fix is potentially risky, since it commits the transaction much earlier than before 14949 duplicate tag and buttons * 2008-06-20 15:19 Open 3 Makiko Duncan Wei Lin 2_0_2_PATCH1_GA Submitted Defect prod 14969 Add support for the newer Illumina Group Probe Profile format generated by BeadStudio 3 * 2008-06-23 16:28 Open 5 Nobody Rashmi Srinivasa Duplicate Defect 40 60 estimate based on our understanding that the data and quantitation types in the new format are roughly similar to the older format. the large worst case reflects the possibility that is not the case 14988 Return only probe names in the DataSet instead of individual DesignElement objects to make it efficient. * 2008-06-25 15:03 Open 4 Nobody Rashmi Srinivasa Submitted Feature Enhancement 14994 support US data format. * 2008-06-26 14:38 Open 3 Makiko Duncan Xiaopeng Bian Submitted Feature Enhancement 14996 a way to identify owned experiments. * 2008-06-26 14:50 Open 3 Makiko Duncan Xiaopeng Bian Submitted New Feature 15040 Use array design manufacturer to set LSID and perform validation * 2008-06-30 14:39 Open 3 Makiko Duncan Steve Lustbader Code Improvement 15138 Usability: Repeated searches are hard to do (no link to Search caArray portlet) * 2008-07-07 11:15 Open 3 Makiko Duncan Tom Boal 2_1_0_ALPHA4 Submitted Defect qa standalone Search Repository 15151 Download Queue and available files should line up. * 2008-07-07 22:54 Open 2 Nobody Stewart Stevens 2_0_2_PATCH1_GA Defect 15168 Implement caGrid security * 2008-07-08 15:56 Open 5 Steve Lustbader Makiko Duncan Analyzed 2.3.0 New Feature 60 160 Acquire Experiment Data via AP caCORE - caGRID large loe ranges reflect a lot of remaining uncertainties about how this will work. 15171 UI page duplicated - Application should be displaying a session expired or login page * 2008-07-08 16:24 Open 2 Leonie Misquitta Leonie Misquitta 2_1_0_ALPHA4 Declined 2.2.0 Defect qa standalone Import Data Files 15194 Release Notes Menu Item Links to Wrong File * 2008-07-09 14:13 Open 2 Nobody Todd Parnell 2_0_2_PATCH1_GA Submitted Defect prod 15218 Make Collaborator Search Fields Case Insensitive * 2008-07-10 12:41 Open 3 Don Swan Don Swan Declined Feature Enhancement 15223 Change text of Validated (Not Parsed) status to Validated (will not be parsed) * 2008-07-10 15:56 Open 3 Makiko Duncan Xiaopeng Bian Submitted Feature Enhancement 15229 Add "select referenced files" to select data files referenced from a mage-tab IDF * 2008-07-11 12:38 Open 5 Leonie Misquitta Leonie Misquitta Fixed 2.3.0 2_3_0_ALPHA1 Feature Enhancement 8663 15238 NCI-60 aCGH data * 2008-07-11 17:00 Open 3 Xiaopeng Bian Xiaopeng Bian To Be Assessed Defect 15250 Rembrandt data load - import failed * 2008-07-14 18:13 Open 4 Leonie Misquitta Leonie Misquitta 2_1_0_RC1 Duplicate Defect qa standalone duplicate of 13660 15282 client.jar does not support clients using JBOSS 4.0.4 * 2008-07-15 16:45 Open 4 Makiko Duncan Makiko Duncan Clarification Required deferred Defect 15319 support for multiple extract column * 2008-07-18 10:17 Open 3 Makiko Duncan Xiaopeng Bian Submitted New Feature 15421 Illumina data passes validation but fails import without any message * 2008-07-22 06:27 Open 3 Leonie Misquitta Juli Klemm 2_1_0_RC2 Fixed 2.3.0 2_3_0_ALPHA1 Defect 8726 12 16 24 qa standalone 2.1.1 15431 Grid service does not return association from Hybridization to RawArrayData correctly. * 2008-07-22 10:44 Open 3 Makiko Duncan Rashmi Srinivasa 2_0_2_PATCH2_GA Fixed 2.1.0 2_0_2_Patch2_GA Defect prod Acquire Experiment Data via AP 15443 Ability to change experiment ownership * 2008-07-22 16:39 Open 4 Daniel Kokotov Makiko Duncan Submitted 2.3.0 New Feature 15478 Import option page displayed bottom of the screen. * 2008-07-23 17:10 Open 3 Makiko Duncan Arathi Reddy 2_1_0_RC2 Submitted Defect qa standalone 15521 UC7241- Include all collaboration groups in the "manage collaboration group" regardless of user * 2008-07-25 10:17 Open 3 Makiko Duncan Leonie Misquitta Submitted New Feature Manage Collaborators 15578 Redesign Grid API to support backwards compatibililty via external data model * 2008-07-28 10:54 Open 5 Daniel Kokotov Makiko Duncan Analyzed 2.3.0 New Feature 120 150 200 loe's are very ballpark for now. as we finalize the new APIs and model, we will replace this issue by more fine grained one with more well-defined LOEs. This is here primarily for initial planning purposes 15581 Improve Search Performance: Investigate Lucene or other full text approaches * 2008-07-28 12:18 Open 3 Daniel Kokotov Makiko Duncan To Be Assessed deferred Code Improvement Search Repository 15618 Use latest BDA utilities in the build and remove duplication * 2008-07-29 19:17 Open 3 Douglas Harley Daniel Kokotov To Be Assessed 2.3.0 Code Improvement 15619 Get rid of unnecessary execution of outdated migration scripts * 2008-07-29 19:19 Open 3 Douglas Harley Daniel Kokotov Fixed 2.3.0 2_3_0_ALPHA1 Code Improvement 1 2 4 15620 Enhance static analysis functionality in caArray build. * 2008-07-29 19:23 Open 2 Douglas Harley Daniel Kokotov Analyzed deferred Code Improvement 5 6 10 15635 Add (and configure in Eclipse) source jars for all main libraries * 2008-07-30 15:15 Open 2 Douglas Harley Daniel Kokotov To Be Assessed deferred Code Improvement 15636 Use installers for deploying to the tiers * 2008-07-30 15:17 Open 2 Douglas Harley Daniel Kokotov To Be Assessed deferred Code Improvement qa vm stage prod dev lsd qa standalone 15651 Import functionality missing error message for files that fail validation * 2008-07-31 13:40 Open 3 Makiko Duncan Leonie Misquitta 2_1_0_RC3 Clarification Required deferred Defect qa standalone Import Data Files Validate Experiment Data Files 15730 Of 29 Publication records on PROD, 9 are duplicates * 2008-08-01 20:46 Open 3 Makiko Duncan Tom Boal 2_0_2_PATCH2_GA Declined Defect prod Manage Publications 15755 Restrict non-MAGE-TAB imports to 150 files * 2008-08-04 16:13 Open 5 Leonie Misquitta Daniel Kokotov Declined Feature Enhancement 7979 not needed any more 15827 caArray 1.6 migration of identical caArray 1.6 experiments to caArray 2.0 PROD * 2008-08-06 14:08 Open 3 Makiko Duncan Tom Boal 2_0_2_PATCH2_GA Submitted Defect prod 15837 Clear button option on Collabration Groups page display 's members list. * 2008-08-06 16:16 Open 3 Nobody Arathi Reddy 2_1_0_RC5 Submitted deferred stage 15858 A public caArray 1.6 Experiment becomes private, and nondownloadable, after migration to caArray 2.0 * 2008-08-06 18:17 Open 2 Makiko Duncan Tom Boal 2_0_2_PATCH2_GA Submitted Defect prod 15885 Array Design does not display a message for duplicate array designs when editing the attributes * 2008-08-07 09:43 Open 4 Leonie Misquitta Bill Mason 2_1_0_RC5 Verified by QA 2.3.0 2_2_0_RC2 Defect 8072 8 8 16 stage Manage Array Designs 15968 Database migration hangs when a migration file is missing * 2008-08-11 10:20 Open 2 Nobody Brian Pickeral GA_R2_0_0 Submitted 16055 Collaborator cannot see uploaded files even with read-write permissions to experiment. * 2008-08-13 20:37 Open 4 Makiko Duncan Rashmi Srinivasa 2_1_0_GA Duplicate Defect prod Manage Experiment Permissions 16117 Contact page: Multiple listing of contact information when submitted through Mage-tab * 2008-08-15 15:49 Open 3 Makiko Duncan Ronald Keene 2_1_0_GA Submitted Defect prod 16124 Enhance Manage Collaborators Usability * 2008-08-15 19:05 Open 2 Makiko Duncan Daniel Kokotov Analyzed Feature Enhancement 1 2 2.5 Manage Collaborators 16125 Experiment permission screen makes it difficult to see what user has access to what, as well as who has access to what sample * 2008-08-15 19:19 Open 3 Makiko Duncan Daniel Kokotov Analyzed Feature Enhancement 16 8 6 Manage Experiment Permissions note that the LOE is doing the full scope of the suggestions. For only doing #1, it would be 2-4 hours. 16142 Make images and styles customizable by local installer. * 2008-08-18 11:35 Open 3 Makiko Duncan Rashmi Srinivasa 2_1_0_GA Submitted New Feature installer lsd local 16190 Allow release note link to be controlled from the properties file * 2008-08-19 19:07 Open 4 Ronald Keene Daniel Kokotov Fixed 2.1.1 2_1_1_RC1 Code Improvement 8115 2 3 4 As noted in GF 16378, this allows the url to be specified in default.properties. It is not meant to allow the URL to be controlled by local installers or various tier property files 16197 caArray Installation Guide: Continuous Improvement * 2008-08-20 10:46 Open 3 Makiko Duncan Ronald Keene 2_1_0_GA Submitted Documentation Update Installation Guide 16200 Upgrade to CSM 4.1 * 2008-08-20 12:44 Open 5 Steve Lustbader Douglas Harley 2_1_0_GA 2.3.0 Defect 16225 Enhance browse functionality * 2008-08-21 11:23 Open 3 Makiko Duncan Daniel Kokotov To Be Assessed Feature Enhancement 16228 List Selector Tag - showFilter feature is not behaving properly * 2008-08-21 11:44 Open 3 Brian Pickeral Brian Pickeral GA_R2_0_0 Analyzed 2.3.0 Defect 1 2 3 16240 AssayType should be an Entity * 2008-08-22 09:03 Open 3 Brian Pickeral Brian Pickeral GA_R2_0_0 Analyzed 2.3.0 Defect 6 10 12 16243 CSS Vulnerability exists in many places in the application * 2008-08-22 12:59 Open 5 Brian Pickeral Daniel Kokotov 2_1_0_GA Fixed 2.1.1 2_1_1_RC1 Defect 12 16 24 qa vm stage prod dev installer lsd local qa standalone Pass NCI Web App Security Scan loe is for doing both sanitizing on display and on entry. only doing it on display is easier 16271 Distribution zips should have a single top-level directory of the form caarray_[artifactname]_[version]/ * 2008-08-25 14:11 Open 2 Douglas Harley Daniel Kokotov Analyzed 2.3.0 Code Improvement 3 4 6 16273 Need a way to remove an experiment from workspace and other views after it has been submitted * 2008-08-25 15:41 Open 3 Makiko Duncan Daniel Kokotov To Be Assessed deferred Feature Enhancement 16322 cel file fail validation * 2008-08-28 12:35 Open 3 Makiko Duncan Xiaopeng Bian 2_1_0_GA Defect prod 16326 Handle PGF/CLF files with overlapping chip types * 2008-08-28 13:46 Open 3 Nobody Steve Lustbader 2_1_1_RC1 deferred Feature Enhancement 4 8 20 Manage Array Designs 16350 Improve handling of test data (in test-data directory) * 2008-08-29 12:34 Open 4 Daniel Kokotov Daniel Kokotov Fixed 2.3.0 2_3_0_ALPHA1 Code Improvement 8557 3 5 8 16351 Multiple contact * 2008-08-29 12:41 Open 3 Makiko Duncan Xiaopeng Bian 2_1_0_GA Defect 16352 can not assign or created collaboration group * 2008-08-29 12:49 Open 3 Makiko Duncan Xiaopeng Bian 2_1_0_GA Defect 16353 Only show array design edit file button if the file can be edited * 2008-08-29 12:53 Open 2 Steve Lustbader Steve Lustbader 2_1_1_RC1 To Be Assessed 2.3.0 Feature Enhancement 2 4 8 Manage Array Designs 16354 Remove unneeded tags in subversion * 2008-08-29 13:24 Open 2 Nobody Steve Lustbader Code Improvement 16430 Delete array designs in background * 2008-09-05 15:55 Open 4 Makiko Duncan Steve Lustbader 2_1_1_RC2 Analyzed deferred Feature Enhancement 8 20 30 Manage Array Designs 16436 Determine support strategy for Firefox 2/3 * 2008-09-08 00:05 Open 3 Makiko Duncan Daniel Kokotov To Be Assessed deferred Feature Enhancement OS/Browser - Frirefox 2 16445 Magage Array Design: No status = "deleting" when performing and array design delete * 2008-09-08 11:14 Open 3 Makiko Duncan Ronald Keene 2_1_1_RC2 Submitted Defect local Manage Array Designs 16448 Manage Data page: Filtering drop downs contain invalid list items * 2008-09-08 12:25 Open 3 Makiko Duncan Ronald Keene 2_1_1_RC1 Submitted Defect qa standalone Manage Experiment Data Files 16468 While Importing the files Upload button function can be disabled * 2008-09-09 15:00 Open 3 Makiko Duncan Arathi Reddy 2_1_1_RC2 Submitted Feature Enhancement qa standalone Update Experiment Proposal 16528 MySQL link in caArray Installation Guide is malformed * 2008-09-15 13:31 Open 3 Jill Hadfield Tom Boal 2_1_1_RC3 Fixed Defect installer Installation Guide 16530 Allow import of accession code for a Term using MAGE-TAB * 2008-09-15 13:41 Open 3 Makiko Duncan Rashmi Srinivasa Submitted Feature Enhancement Import Data Files 16571 display of source and sample detail * 2008-09-17 12:00 Open 3 Makiko Duncan Xiaopeng Bian 2_1_0_GA Feature Enhancement 16572 caArray installer DB configuration only works if "localhost" is specified as database.server property value. * 2008-09-17 12:03 Open 3 Douglas Harley Douglas Harley GA_R2_0_0 Analyzed Defect 5 16 40 16592 Local Installer: Grid index server property should default to PROD * 2008-09-18 14:00 Open 3 Leonie Misquitta Ronald Keene 2_1_1_RC3 Fixed 2.1.1 2_1_1_RC4 Feature Enhancement 8276 1 1 2 installer local 16596 Node name is hardcoded in header * 2008-09-18 15:26 Open 2 Douglas Harley Daniel Kokotov Analyzed 2.3.0 Defect 3 43 6 16608 CQL queries returning incorrect results via the Grid API * 2008-09-19 10:33 Open 3 Daniel Kokotov Rashmi Srinivasa To Be Assessed Defect prod Acquire Experiment Data via AP 16610 Support API access by Java 1.6 clients * 2008-09-19 11:03 Open 3 Makiko Duncan Rashmi Srinivasa 2_1_0_GA Submitted Feature Enhancement prod Acquire Experiment Data via AP 16621 "HT_HG-U133A" as known as "U133AAofAv2" * 2008-09-19 16:24 Open 3 Makiko Duncan Xiaopeng Bian 2_1_1_RC3 Feature Enhancement 16629 PGF Array Design Import is too Slow * 2008-09-22 12:07 Open 3 Nobody Steve Lustbader To Be Assessed deferred Feature Enhancement qa standalone Manage Array Designs 16630 Mouse over descriptions for icons are not displayed in Firefox 2.0.0.16 * 2008-09-22 12:25 Open 2 Makiko Duncan Makiko Duncan 2_1_0_GA Submitted deferred Defect 16640 MAGE-TAB data.txt not auto-recognized as Mage Tab Data Matrix files * 2008-09-22 16:11 Open 3 Makiko Duncan Leonie Misquitta 2_1_1_RC3 Feature Enhancement 16677 case insensitive validation * 2008-09-24 11:59 Open 3 Makiko Duncan Xiaopeng Bian Feature Enhancement 16723 Update EVS concept mapping for Gene.entrezgeneID * 2008-09-25 18:07 Open 3 Steve Lustbader Steve Lustbader 2_1_0_GA Analyzed 2.3.0 Code Improvement 1 1 1 prod 16729 caArray installer should set jboss-4.0.4.GA/server/default/deploy/wsrf.war/WEB-INF/web.xml defaultPort parameter based upon property value. * 2008-09-26 09:52 Open 3 Leonie Misquitta Douglas Harley 2_1_0_GA Fixed 2_1_1_RC4 Feature Enhancement 8268 3 8 12 16767 caArray installer should remove unneeded all and minimal JBoss server configurations for grid service. * 2008-09-26 14:35 Open 3 Leonie Misquitta Douglas Harley 2_1_0_GA Fixed 2_1_1_RC4 Feature Enhancement 8269 1 2 3 16773 Need an ability to customize the local installation of caArray * 2008-09-26 16:52 Open 3 Nobody Makiko Duncan Submitted New Feature 16838 prod db pruning * 2008-09-30 11:21 Open 3 Nobody Max Shestopalov 2_2_0_ALPHA1 Defect 16913 Image files not handled correctly during import/validate. * 2008-10-03 11:20 Open 4 Makiko Duncan Rashmi Srinivasa 2_1_1_RC3 Submitted Defect stage Import Data Files Validate Experiment Data Files 16948 Allow PI to change Permissions of an Experiment * 2008-10-06 15:08 Open 3 Makiko Duncan Don Swan Feature Enhancement 16967 Installer- upgrade - Incomplete deployment errors in the build log file * 2008-10-07 14:21 Open 3 Leonie Misquitta Leonie Misquitta 2_1_1_RC4 Fixed lsd 16968 Installer- upgrade - install:jboss:stop: target freezes, build does not progress * 2008-10-07 14:53 Open 3 Leonie Misquitta Leonie Misquitta 2_1_1_RC4 Fixed lsd 16969 Installer -upgrade - grid.static.hostname should correspond to domain.name from previous version installed * 2008-10-07 15:00 Open 3 Douglas Harley Leonie Misquitta 2_1_1_RC4 Submitted Defect 16973 Limit username and pw field to a reasonable max size * 2008-10-07 17:48 Open 3 Daniel Kokotov Makiko Duncan Submitted deferred Code Improvement 16987 Ability to reset status of files stuck in Importing/Validating state. * 2008-10-08 15:14 Open 3 Makiko Duncan Rashmi Srinivasa Submitted Feature Enhancement Manage Experiment Data Files 17020 2.1.1 Local Install Guide refers to caArray 2.1.0 in Table of Contents * 2008-10-09 15:44 Open 3 Jill Hadfield Tom Boal 2_1_1_RC5 Fixed Documentation Update Installation Guide 17022 Installer - grid jboss fails startup correctly because app jboss start and ear file deployment has not completed * 2008-10-09 16:04 Open 3 Douglas Harley Leonie Misquitta 2_1_1_RC4 Submitted Defect 17024 2.1.1 Local Install Guide refers to 2_1_0.zip rather than 2_1_1.zip * 2008-10-09 16:20 Open 3 Jill Hadfield Tom Boal 2_1_1_RC5 Fixed installer Installation Guide 17037 User can create duplicate experimental factors * 2008-10-10 10:14 Open 3 Makiko Duncan Steve Lustbader Analyzed Defect 4 8 16 Update Experiment Proposal 17118 Complete MAGE-TAB export feature by adding remaining fields * 2008-10-15 12:39 Open 4 Makiko Duncan Rashmi Srinivasa Submitted deferred Feature Enhancement Download Experiment Data 17138 CQL query searching for experiments by tissue site causes transaction timeout * 2008-10-15 15:33 Open 4 Makiko Duncan Rashmi Srinivasa 2_1_0_GA Submitted Defect prod Acquire Experiment Data via AP 17171 MAGE-TAB Import fails if hyb references existing data files * 2008-10-16 17:06 Open 3 Daniel Kokotov Steve Lustbader 2_1_1_RC5 Analyzed Defect 8 12 24 Import Data Files 17308 Support Agilent data file import * 2008-10-23 02:15 Open 4 Rashmi Srinivasa Makiko Duncan To Be Assessed deferred New Feature Import Data Files 17416 caArray installer gathers JBoss password info, but never uses it to secure JBoss. * 2008-10-27 18:47 Open 3 Douglas Harley Douglas Harley 2_1_1_RC5 Fixed 2.1.1 2_1_1_INSTALLER Defect 8430 2 5 8 17420 The caArray installer should allow configurable JBoss administrator username (currently hard-coded to "admin") as the password is configurable. * 2008-10-28 10:41 Open 3 Douglas Harley Douglas Harley 2_1_1_RC5 Analyzed Feature Enhancement 2 4 8 17430 Split up import jobs into multiple transactions * 2008-10-28 12:25 Open 4 Nobody Daniel Kokotov To Be Assessed deferred New Feature Import Data Files 17443 Create UI for editing of configuration options editable at runtime * 2008-10-28 17:26 Open 3 Makiko Duncan Daniel Kokotov To Be Assessed New Feature 17453 Allow deletion of hybridizations without deleting the uploaded files themselves. * 2008-10-29 11:35 Open 3 Makiko Duncan Rashmi Srinivasa To Be Assessed Feature Enhancement Manage Experiment Data Files 17495 Distinguish between logged-in and anonymous users when setting access control. * 2008-10-30 15:20 Open 3 Makiko Duncan Rashmi Srinivasa To Be Assessed Feature Enhancement Manage Experiment Permissions 17497 Error uploading duplicate array design * 2008-10-30 15:50 Open 3 Makiko Duncan Bill Mason 2_2_0_ALPHA1 Defect qa standalone Manage Array Designs 17513 Authentication support for TCGA controlled-access data tier. * 2008-10-31 10:29 Open 3 Makiko Duncan Rashmi Srinivasa To Be Assessed New Feature Manage Experiment Permissions 17545 Organisms link is broken on Browse page for Installer 2.1.1 on Windows and linux mechine * 2008-11-03 12:08 Open 3 Nobody Arathi Reddy 2_1_1_INSTALLER To Be Assessed deferred installer lsd local 17547 Local installation with ldap.authentication.disabled=true does not disable LDAP * 2008-11-03 13:25 Open 3 Douglas Harley Tom Boal 2_1_1_INSTALLER To Be Assessed Defect local Register for an Account 17566 Javascript does not perform well on pages that display a large number of files. * 2008-11-04 10:59 Open 3 Nobody Rashmi Srinivasa 2_2_0_ALPHA1 To Be Assessed Defect qa standalone Manage Experiment Permissions Flat Web Page - 10 sec 17585 Installer- unable to create distribution zips - build failed due to possible ivy-bda issues * 2008-11-04 15:53 Open 4 Leonie Misquitta Leonie Misquitta 2_2_0_ALPHA1 Fixed Defect installer 17627 Ant complains about "Trying to override old definition of task" * 2008-11-05 15:54 Open 2 Douglas Harley Daniel Kokotov To Be Assessed deferred Code Improvement 17630 GUI INSTALLER for tag CAARRAY_2_2_0_GUI_INSTALLER. jar unable to delete directory * 2008-11-05 16:42 Open 3 Douglas Harley Arathi Reddy 2_2_0_ALPHA1 installer 17634 caArray should use managed connections for authentication/authorization. * 2008-11-05 18:22 Open 2 Douglas Harley Douglas Harley 2_1_1_INSTALLER deferred Feature Enhancement 17635 New caArray-related artifacts in commonlibrary need to have dependencies specified in ivy.xml files. * 2008-11-05 22:39 Open 3 Douglas Harley Douglas Harley Analyzed Defect 16 30 40 17636 caArray needs "Eclipse Enclosing Project" to conform to BDA team recommendations. * 2008-11-05 23:34 Open 3 Douglas Harley Douglas Harley 2_1_1_INSTALLER Fixed 2.0.2 Code Improvement 8 12 16 17671 Add support for publishing distributable artifacts to NCI commonlibrary * 2008-11-07 13:18 Open 2 Douglas Harley Daniel Kokotov To Be Assessed deferred Code Improvement 17679 The caArray installation guide documentation should point at BDA LSD wiki to remove redundancy. * 2008-11-07 18:14 Open 3 Makiko Duncan Douglas Harley In Progress 2.3.0 Documentation Update 2 6 8 17695 The caArray build script ivy dependency managment needs to be streamlined/made optional. * 2008-11-10 15:46 Open 3 Douglas Harley Douglas Harley 2_2_0_RC1 Fixed 2.3.0 2_3_0_ALPHA1 Feature Enhancement 8762 8 32 40 17743 Empty Characteristic is imported as a blank Characteristic * 2008-11-12 15:14 Open 3 Nobody Bill Mason 2_2_0_ALPHA1 deferred qa standalone Import Data Files 17754 Build should copy (replacing existing one) the mysql connector jar in JBOSS's lib directory on deployment * 2008-11-13 13:22 Open 3 Douglas Harley Daniel Kokotov To Be Assessed deferred Code Improvement 17766 Tumor grading null value displayed as "->" in the UI * 2008-11-14 11:22 Open 3 Nobody Leonie Misquitta 2_2_0_ALPHA1 Duplicate 2.2.0 Defect qa standalone Download Experiment Data obsoleted by the fix to issue 16421, which won't let a blank TumorGrading (or any other characteristic) get created. 17768 Biologically questionable- Multiple sources associated with single sample passes validation/import * 2008-11-14 12:47 Open 3 Nobody Leonie Misquitta 2_2_0_ALPHA1 deferred Defect qa standalone Validate Experiment Data Files Import Data Files 17781 Mage-tab set passes validation but fails import without message in UI -log file shows java.lang.IllegalStateException error * 2008-11-17 11:11 Open 5 Douglas Harley Leonie Misquitta 2_2_0_ALPHA1 To Be Assessed 2.3.0 Defect qa standalone Import Data Files 17785 Installer must support configuring SSL support in JBoss * 2008-11-17 12:10 Open 5 Steven Saksa Tom Boal 2_2_0_ALPHA1 Submitted 2.3.0 Defect local Pass NCI Web App Security Scan 17808 Parse Illumina Sample Probe data files generated by BeadStudio 3. * 2008-11-18 13:40 Open 4 Nobody Rashmi Srinivasa To Be Assessed deferred Feature Enhancement Import Data Files 17812 View rendering should be done in a second transaction * 2008-11-18 15:27 Open 3 Nobody Daniel Kokotov To Be Assessed 2.4.0 Code Improvement 17841 Separate MAGE-TAB export code from import code * 2008-11-19 14:18 Open 3 Nobody Steve Lustbader 2_2_0_RC1 To Be Assessed Code Improvement 17883 Latest caArray Install Guide has properties editing instructions too late to prevent backslash errors * 2008-11-20 15:46 Open 3 Jill Hadfield Tom Boal 2_1_1_GA Submitted Defect local Installation Guide 17900 Need to add functionality to caArray installer to determine if duplicate hybridizations behavior panel is displayed to users. * 2008-11-21 11:35 Open 5 Douglas Harley Douglas Harley 2_2_0_RC1 Analyzed 2.3.0 Feature Enhancement 8 12 24 17901 caArray upgrade installer should gather as much possible info automatically. * 2008-11-21 11:52 Open 2 Douglas Harley Douglas Harley 2_2_0_RC1 Analyzed deferred Feature Enhancement 16 24 32 17968 upload MAGE-TAB files for sequence data: e.g. solexa_example.idf and solexa_example.sdrf * 2008-11-25 15:14 Open 3 Nobody Tom Boal Submitted deferred New Feature Import Data Files 17972 Allow replacement of already-imported data files with newer versions. * 2008-11-25 15:31 Open 4 Max Shestopalov Rashmi Srinivasa To Be Assessed 2.3.0 Feature Enhancement Import Data Files 17977 geWorkbench queries to caArray are slow or time out. * 2008-11-25 22:15 Open 4 Daniel Kokotov Rashmi Srinivasa 2_1_1_GA In Progress 2.3.0 Defect prod stage Acquire Experiment Data via AP 17978 Restrict vocabulary and protocol editing to Curator role. * 2008-11-25 22:24 Open 3 Nobody Rashmi Srinivasa To Be Assessed Feature Enhancement Manage Vocabulary Manage Protocols 17999 Installer should support deployment configuration recommended by caGrid Deployment Technical Guide * 2008-11-26 14:42 Open 3 Douglas Harley Rashmi Srinivasa To Be Assessed 2.3.0 New Feature installer 18090 Provide a read-only role that can be used for the security scan user. * 2008-12-02 12:32 Open 4 Daniel Kokotov Rashmi Srinivasa To Be Assessed 2.3.0 Feature Enhancement Manage Users Pass NCI Web App Security Scan 18091 Improve User Guide to explain Register and Manage Users process with UPT. * 2008-12-02 12:36 Open 3 Douglas Harley Rashmi Srinivasa To Be Assessed 2.3.0 Documentation Update Register for an Account Manage Users 18096 Experiment Design Types and Experiment Design Description are inaccurately labelled as required fields. * 2008-12-02 13:16 Open 3 Nobody Tom Boal 2_2_0_RC1 Submitted Defect local Submit Experiment Proposal 18204 Don't page results of sample-level security search * 2008-12-05 12:12 Open 3 Daniel Kokotov Steve Lustbader 2_2_0_RC1 Submitted Feature Enhancement Manage Experiment Permissions 18207 Allow the ability to download array designs. * 2008-12-05 12:59 Open 4 Leonie Misquitta Rashmi Srinivasa Fixed 2.3.0 2_3_0_ALPHA1 New Feature 8617 Manage Array Designs 18254 Fix "Broken link" issues reported by security scan * 2008-12-09 13:27 Open 2 Max Shestopalov Rashmi Srinivasa 2_2_0_RC1 Verification failed 2.3.0 2_2_0_RC2 Defect 8593/4 stage Pass NCI Web App Security Scan removed links to help.js and print.js. removed links to images from css file that were no longer used. 18372 Array design import is slow on STAGE * 2008-12-12 10:45 Open 3 Leonie Misquitta Rashmi Srinivasa 2_1_1_GA To Be Assessed 2.3.0 Defect stage Manage Array Designs 18387 Some data file types hang on attempt to import. * 2008-12-12 12:41 Open 4 Leonie Misquitta Rashmi Srinivasa 2_2_0_RC1 Fixed 2.3.0 2_3_0_ALPHA1 Defect 8703 Import Data Files 18388 Handling of investigators and main point of contact should be clarified. * 2008-12-12 12:51 Open 3 Nobody Rashmi Srinivasa 2_2_0_RC1 To Be Assessed 2.3.0 Feature Enhancement Submit Experiment Proposal 18460 Centralize array design duplicate checking * 2008-12-16 11:36 Open 2 Nobody Steve Lustbader 2_1_1_RC1 Code Improvement Manage Array Designs 18520 Registration email sent by caArray contains ambiguously specified State. * 2008-12-18 14:27 Open 3 Nobody Douglas Harley 2_2_0_RC2 Analyzed 2.3.0 Defect 2 6 12 18525 MANAGE USERS hyperlink points to page that doesn't concern managing users * 2008-12-18 16:26 Open 3 Tom Boal Tom Boal 2_2_0_RC2 Declined 2.3.0 Defect installer Manage Users 18546 If one of the required fields on registration page fails validation the requested roles checkboxes all go unchecked again. * 2008-12-19 12:59 Open 3 Nobody Douglas Harley 2_2_0_RC2 deferred 18561 Copy test-data only when data artifacts have changed. * 2008-12-22 14:24 Open 3 Douglas Harley Douglas Harley 2_2_0_RC2 Analyzed 2.3.0 Code Improvement 18608 Sample search based on organism should look at experiment's organism if biomaterial's organism does not exist. * 2008-12-29 11:17 Open 3 Max Shestopalov Rashmi Srinivasa Fixed 2.3.0 2_3_0_ALPHA1 Feature Enhancement 8753 qa standalone Search Repository 18625 Sample table on Manage Permission on UI overflow the screen * 2008-12-31 11:26 Open 3 Max Shestopalov Arathi Reddy 2_2_0_RC2 Submitted 2.3.0 Defect Manage Experiment Permissions 18652 Genepix import or validation should fail if SDRF Sample Name does not match the one in the corresponding data file.   2009-01-06 10:32 Open 3 Max Shestopalov Rashmi Srinivasa 2_2_0_RC2 Submitted 2.3.0 Defect stage Validate Experiment Data Files 18682 Data uploads are freezing   2009-01-08 10:35 Open 3 Nobody Naveed Khan 2_2_0_RC2 Duplicate Defect stage Upload Indicator 18729 add sorting by Provider in Source search results   2009-01-12 13:41 Open 3 Max Shestopalov Max Shestopalov 2_2_0_RC1 Fixed 2.3.0 2_3_0_ALPHA1 Code Improvement 8753 18732 Implement section 508 compliance (Reduction of issues by 30%)   2009-01-12 14:55 Open 4 Daniel Kokotov Makiko Duncan Submitted 2.3.0 Defect Provide Alt Text - 508 Complli 18733 Adding button to upload popup page redirecting user back to uploads if datafiles uploaded are larger than 2GB   2009-01-12 15:00 Open 3 Makiko Duncan Leonie Misquitta 2_2_0_RC3 Submitted deferred Feature Enhancement Manage Experiment Data Files 18755 Fix various problems with UPT administrator email address in caArray installer.   2009-01-13 14:11 Open 4 Douglas Harley Douglas Harley 2_2_0_RC3 Analyzed 2.3.0 Defect 18758 Support caArray Grid Service in JBOSS 4.0.5   2009-01-13 14:54 Open 4 Nobody Makiko Duncan Submitted 2.3.0 Feature Enhancement CBIIT Tech Stack - JBoss 18781 Incorrect Message   2009-01-14 15:35 Open 3 Nobody Naveed Khan 2_2_0_RC3 Submitted deferred Defect Manage Vocabulary 18786 increase the length of the Authors column in the "Publication" database table   2009-01-14 16:23 Open 3 Nobody Jia Liu 2_1_1_GA Feature Enhancement 18804 Improve browse performance by only enforcing field-level browse policy at remote API boundary   2009-01-15 16:13 Open 4 Daniel Kokotov Daniel Kokotov In Progress 2.3.0 Code Improvement 18805 Punt unused Experiment fields   2009-01-15 16:15 Open 3 Daniel Kokotov Daniel Kokotov In Progress 2.3.0 Code Improvement 18817 Refactor Download Data UI to support common cases better   2009-01-15 18:10 Open 3 Makiko Duncan Daniel Kokotov Submitted 2.3.0 Feature Enhancement Download Experiment Data 18860 Need to replace use of xmlconfig tool usage with xmltask in caArray installer.   2009-01-21 11:58 Open 3 Douglas Harley Douglas Harley 2_2_0_RC3 Analyzed 2.3.0 Code Improvement 18907 Collapse the two experiment states - Draft and In Progress - into one state.   2009-01-23 09:15 Open 4 Makiko Duncan Rashmi Srinivasa To Be Assessed 2.3.0 Feature Enhancement Submit Experiment Proposal 18908 Keep an audit trail of permissions changes made to an experiment.   2009-01-23 09:23 Open 4 Makiko Duncan Rashmi Srinivasa To Be Assessed 2.3.0 New Feature Submit Experiment Proposal Manage Experiment Permissions 18911 AbstractDataColumn is not decipherable by a non-Java client.   2009-01-23 11:13 Open 5 Makiko Duncan Rashmi Srinivasa Submitted 2.3.0 Defect Acquire Experiment Data via AP 18942 The caArray GUI installer status logging should be at info level, not verbose.   2009-01-26 12:53 Open 3 Leonie Misquitta Douglas Harley 2_2_0_RC3 Fixed 2.3.0 2_3_0_ALPHA1 Defect 8762 18949 Visibility of pre-2.1.0 Draft experiments is incorrect.   2009-01-26 15:00 Open 4 Leonie Misquitta Rashmi Srinivasa 2_2_0_RC3 Submitted 2.3.0 Defect Submit Experiment Proposal Manage Experiment Permissions 18967 Enhance MAGE-TAB update feature to add/modify factor values for existing hybridizations.   2009-01-27 10:16 Open 3 Makiko Duncan Rashmi Srinivasa 2_2_0_RC3 To Be Assessed Feature Enhancement Import Data Files 19034 Change the Make Experiment Public button to a Lock Experiment button.   2009-01-29 15:48 Open 4 Makiko Duncan Rashmi Srinivasa 2_2_0_RC3 To Be Assessed 2.3.0 Feature Enhancement Submit Experiment Proposal Manage Experiment Permissions 19035 Email notification of state change or permissions change   2009-01-29 15:52 Open 3 Makiko Duncan Rashmi Srinivasa 2_2_0_RC3 To Be Assessed 2.3.0 New Feature Submit Experiment Proposal Manage Experiment Permissions 19044 Need to add single-command-build and single command-deployment support to caArray build for BDA certification compliance.   2009-01-29 18:15 Open 4 Makiko Duncan Douglas Harley 2_2_0_RC3 Defect 19061 Factor Values in internal domain model must be made consistent with external model/Measurement Characteristics   2009-01-30 11:43 Open 4 Makiko Duncan Rashmi Srinivasa 2_2_0_RC3 Submitted 2.3.0 Defect Validate Experiment Data Files Import Data Files 19062 Factor Values followed by Term Source REFs are not supported.   2009-01-30 11:46 Open 3 Makiko Duncan Rashmi Srinivasa 2_2_0_RC3 Submitted 2.3.0 Defect Validate Experiment Data Files Import Data Files     Next 50 -->

Priority Colors: