Timeline
Dec 12, 2014:
- 3:38 PM Changeset [3035] by
-
Refs #718. Outermost Ant build file
build.xmlin/updated by … - 3:29 PM Ticket #718 (MeLuDi v.1.0 bug fixes and improvements) created by
- This ticket covers bug fixes and improvements to MeLuDi v.1.0.
- 2:54 PM Changeset [3034] by
- References #717: Auto-confirmation service Stared to implement actual …
- 12:44 PM Changeset [3033] by
- References #717: Auto-confirmation service Refactor session control …
- 10:41 AM Changeset [3032] by
-
References #717: Auto-confirmation service
Added
AutoConfirmService… - 7:54 AM Milestone MeLuDi v1.0 completed
- The first release of the MeLuDi extension to BASE, a package of …
- 7:48 AM PluginDownload edited by
- Added information on MeLuDi 1.0 (diff)
- 7:32 AM Changeset [3031] by
- Tagging release MeLuDi? 1.0
Dec 11, 2014:
- 4:48 PM Ticket #690 (MeLuDi - Registration wizard for melanoma-lung cancer projects) closed by
- fixed: Ticket closed as MeLuDi version 1.0 has been created.
- 4:34 PM net.sf.basedb.meludi edited by
- MeLuDi BASE extension version 1.0 (diff)
- 4:00 PM Changeset [3030] by
-
Refs #690. Javascript file
labelgeneration.jsin … - 3:43 PM Changeset [3029] by
- References #717: Auto-confirmation service Added "Auto-confirm" …
- 3:04 PM Changeset [3028] by
- Refs #690. MeLuDi BASE extension updated to version 1.0: A. New and …
- 1:53 PM Ticket #717 (Auto-confirmation service) created by
- For the secondary analysis we should implement an auto-confirmation …
- 1:39 PM Ticket #716 (Add support for Reggie to the gold skin) closed by
- fixed: (In [3027]) Fixes #716: Add support for Reggie to the gold skin The …
- 1:39 PM Changeset [3027] by
- Fixes #716: Add support for Reggie to the gold skin The major visible …
- 1:36 PM Ticket #716 (Add support for Reggie to the gold skin) created by
- Most parts of Reggie use classes, etc. defined in BASE, there are a …
- 1:34 PM Changeset [3026] by
- References #702: Use skin features in BASE 3.4 Turned out that color …
Dec 9, 2014:
- 3:08 PM Ticket #711 (The 'Confirm sequencing completed' wizard should not set ...) closed by
- fixed: (In [3025]) Fixes #711: The 'Confirm sequencing completed' wizard …
- 3:08 PM Changeset [3025] by
- Fixes #711: The 'Confirm sequencing completed' wizard should not set …
- 2:58 PM Ticket #710 (Flow cells can be counted multiple times for 'Register sequencing started') closed by
- fixed: (In [3024]) Fixes #710: Flow cells can be counted multiple times for …
- 2:58 PM Changeset [3024] by
- Fixes #710: Flow cells can be counted multiple times for 'Register …
- 2:43 PM Ticket #713 (Comment for bioplate in RNA dilution registration is not updated) closed by
- fixed: (In [3023]) Fixes #713: Comment for bioplate in RNA dilution …
- 2:43 PM Changeset [3023] by
- Fixes #713: Comment for bioplate in RNA dilution registration is not …
- 11:42 AM Changeset [3022] by
- References #706: Update LabEnv? to use BASE database capabilties …
- 10:17 AM Changeset [3021] by
- References #706: Update LabEnv? to use BASE database capabilties …
- 8:40 AM Ticket #715 (Do not query the sensor for it's name every time) closed by
- fixed: (In [3020]) Fixes #715: Do not query the sensor for it's name every time
- 8:40 AM Changeset [3020] by
- Fixes #715: Do not query the sensor for it's name every time
- 8:40 AM Ticket #715 (Do not query the sensor for it's name every time) created by
- Every time a sensor is queried for the current temperature and …
- 8:29 AM Ticket #714 (Get rid of warning messages from HttpMethodBase) closed by
- fixed: (In [3019]) Fixes #714: Get rid of warning messages from …
- 8:29 AM Changeset [3019] by
- Fixes #714: Get rid of warning messages from HttpMethodBase? Reading …
- 7:53 AM Ticket #714 (Get rid of warning messages from HttpMethodBase) created by
- Every time a request is made to one of the sensors a warning message …
- 7:44 AM Changeset [3018] by
- References #706: Update LabEnv? to use BASE database capabilties …
Dec 8, 2014:
- 1:46 PM Changeset [3017] by
- References #706: Update LabEnv? to use BASE database capabilties …
- 1:35 PM Ticket #608 (Update Labenv to new scripting pattern) closed by
- fixed: Ticket closed as the requested modifications have been added. If …
- 7:58 AM Changeset [3016] by
- Preparing bugfix branch for Reggie 2.18
- 7:56 AM Changeset [3015] by
- Creating bugfix branch for Reggie 2.18
- 7:52 AM Ticket #713 (Comment for bioplate in RNA dilution registration is not updated) created by
- When starting the wizard, the bioplate comment is set to the …
Dec 5, 2014:
- 1:10 PM Changeset [3014] by
- References #706: Update LabEnv? to use BASE database capabilties …
- 12:31 PM Ticket #606 (Switch to JDOM 2) closed by
- fixed
- 12:31 PM Changeset [3013] by
- References #606: Switch to JDOM 2 New JDOM 2.0.5 replaces 1.1.3. Also …
- 11:50 AM Changeset [3012] by
- References #606: Switch to JDOM 2 Switched to depend on BASE 3.4
- 11:48 AM Changeset [3011] by
- References #608: Update Labenv to new scripting pattern The "LabEnv?" …
- 11:06 AM Ticket #712 (The 'Skin options' menu is only visible for root user) closed by
- fixed: (In [3010]) Fixes #712: The 'Skin options' menu is only visible for …
- 11:06 AM Changeset [3010] by
- Fixes #712: The 'Skin options' menu is only visible for root user
- 11:06 AM Ticket #712 (The 'Skin options' menu is only visible for root user) created by
- The menu item is configured to be visible for users with WRITE …
Dec 4, 2014:
- 2:04 PM Ticket #711 (The 'Confirm sequencing completed' wizard should not set ...) created by
- This flag may already be present from the previous (Register …
- 1:59 PM Ticket #710 (Flow cells can be counted multiple times for 'Register sequencing started') created by
- The counter next to the 'Register sequencing started' wizard can count …
- 12:41 PM Ticket #605 (Switch to JDOM 2) closed by
- fixed: (In [3009]) Fixes #605: Switch to JDOM 2
- 12:41 PM Changeset [3009] by
- Fixes #605: Switch to JDOM 2
- 11:02 AM Ticket #709 (Depend on BASE 3.4) closed by
- fixed: (In [3008]) Fixes #709: Depend on BASE 3.4 Updated to BASE version …
- 11:02 AM Changeset [3008] by
- Fixes #709: Depend on BASE 3.4 Updated to BASE version 3.4.0. Removed …
- 10:55 AM Ticket #709 (Depend on BASE 3.4) created by
- Time to move on to the upcoming BASE version. Also means that we can …
- 10:32 AM PluginDownload edited by
- Released skin collection 1.0 (diff)
- 10:23 AM Milestone Skin-collection 1.0 completed
- See Skin collection extension page …
- 10:02 AM Changeset [3007] by
- Preparing for future release Skin collection 1.1
- 10:00 AM net.sf.basedb.skincollection edited by
- Released skin collection 1.0 (diff)
- 9:55 AM Changeset [3006] by
- Tagging skin collection 1.0.
- 9:54 AM Changeset [3005] by
- Preparing to release skin collection 1.0
- 9:08 AM Changeset [3004] by
- Preparing for future release Reggie 2.19
- 9:06 AM net.sf.basedb.reggie/HistoryOfReggie edited by
- Added Reggie 2.18 screenshot (diff)
- 8:58 AM Milestone Reggie v2.18 completed
- Improvements towards streamlining lab work for "real-time" sample …
- 8:57 AM PluginDownload edited by
- Released Reggie 2.18 (diff)
- 8:57 AM net.sf.basedb.reggie edited by
- Released Reggie 2.18 (diff)
- 8:54 AM Ticket #674 (Generate document with report of sequencing results) closed by
- fixed
- 8:53 AM Changeset [3003] by
- Tagging Reggie 2.18
- 8:52 AM Changeset [3002] by
- References #674: Generate document with report of sequencing results …
- 8:17 AM Changeset [3001] by
- Preparing to release Reggie 2.18
- 8:13 AM Milestone Reggie v2.17.3 completed
- Bug fixes for Reggie 2.17.2. See [wiki:net.sf.basedb.reggie Reggie …
- 8:12 AM Changeset [3000] by
- Merge unreleased changes on 2.17-stable (#700) to trunk.
Dec 3, 2014:
- 1:34 PM Changeset [2999] by
- References #674: Generate document with report of sequencing results …
- 1:27 PM Changeset [2998] by
- References #674: Generate document with report of sequencing results …
- 1:10 PM Changeset [2997] by
- References #674: Generate document with report of sequencing results …
- 1:08 PM Changeset [2996] by
- Revert [2995] since it was missing a commit message.
- 1:05 PM Changeset [2995] by
- 8:16 AM Changeset [2994] by
- Refs #608. LabEnv updated to new scripting pattern: 1. XML …
- 8:14 AM Changeset [2993] by
- References #674: Generate document with report of sequencing results …
- 7:57 AM Changeset [2992] by
- Refs #608. LabEnv updated to new scripting pattern: 1. XML …
Dec 2, 2014:
- 2:08 PM Changeset [2991] by
- References #674: Generate document with report of sequencing results …
- 12:49 PM Changeset [2990] by
- References #674: Generate document with report of sequencing results …
- 12:16 PM Changeset [2989] by
- Refs #608. LabEnv updated to new scripting pattern: 1. XML …
- 10:48 AM Changeset [2988] by
- References #674: Generate document with report of sequencing results …
Dec 1, 2014:
- 1:39 PM Changeset [2987] by
-
Refs #690. Plug-in configuration XML file
plugin-configurations.xml… - 11:53 AM Changeset [2986] by
- Fixes #708: Add example skin BASE 3.4 JAR files.
Nov 28, 2014:
- 1:43 PM Ticket #708 (Add example skin) closed by
- fixed: (In [2985]) Fixes #708: Add example skin Added the "Pink Panther" …
- 1:43 PM Changeset [2985] by
- Fixes #708: Add example skin Added the "Pink Panther" skin. It's not …
- 1:22 PM Ticket #708 (Add example skin) created by
- It would be nice to have a simple example skin that demonstrates a few …
Nov 27, 2014:
- 1:37 PM Changeset [2984] by
- Removing explicit reference to JRE6 to make Eclipse stop complaining …
- 1:34 PM Ticket #707 (Switch to Slf4j) closed by
- fixed: (In [2983]) Fixes #707: Switch to Slf4j
- 1:34 PM Changeset [2983] by
- Fixes #707: Switch to Slf4j
- 1:34 PM Ticket #707 (Switch to Slf4j) created by
- We don't use any logging in the example code, but since the BASE core …
- 1:22 PM Ticket #706 (Update LabEnv to use BASE database capabilties instead of SQLite) created by
- The LabEnv extension currently uses an SQLite database for storing …
Nov 25, 2014:
- 3:26 PM Changeset [2982] by
- References #696: Implement some skin examples for BASE A little bit …
- 3:18 PM Ticket #701 (Check compability with BASE 3.4) closed by
- fixed
- 2:59 PM Changeset [2981] by
- References #701: Check compability with BASE 3.4 Some minor issues …
- 2:57 PM Ticket #705 (Remove internal sorting methods in retraction servlet) closed by
- fixed: (In [2980]) Fixes #705: Remove internal sorting methods in retraction …
- 2:57 PM Changeset [2980] by
- Fixes #705: Remove internal sorting methods in retraction servlet
- 2:53 PM Ticket #705 (Remove internal sorting methods in retraction servlet) created by
- Sorting is preferably done by the database.
- 2:50 PM Ticket #704 (NullPointerException in retraction servlet when entering a case name ...) closed by
- fixed: (In [2979]) Fixes #704: NullPointerException? in retraction servlet …
- 2:50 PM Changeset [2979] by
- Fixes #704: NullPointerException? in retraction servlet when entering a …
- 2:39 PM Ticket #704 (NullPointerException in retraction servlet when entering a case name ...) created by
- Stack trace from Reggie 2.17.3-dev […] Seems like …
- 1:04 PM Changeset [2978] by
- References #696: Implement some skin examples for BASE Adding a …
- 1:03 PM net.sf.basedb.skincollection edited by
- (diff)
- 9:12 AM Changeset [2977] by
- References #696: Implement some skin examples for BASE Updated README.
- 9:07 AM net.sf.basedb.skincollection/ScreenShots edited by
- (diff)
- 9:05 AM net.sf.basedb.skincollection/ScreenShots created by
- 9:03 AM net.sf.basedb.skincollection created by
- Adding wiki page for the skin collection extension
- 8:33 AM Changeset [2976] by
- References #679: Configuration file improvments Error message was …
- 8:19 AM Changeset [2975] by
- References #696: Implement some skin examples for BASE Changed …
- 7:48 AM Ticket #703 (Make print package compatible with skins) closed by
- fixed: (In [2974]) Fixes #703: Make print package compatible with skins
- 7:48 AM Changeset [2974] by
- Fixes #703: Make print package compatible with skins
- 7:29 AM Ticket #703 (Make print package compatible with skins) created by
- The current print package is ok, but there are some things that can be …
Nov 24, 2014:
- 3:33 PM Ticket #672 (RNA concentration normalization wizard) closed by
- fixed
- 2:21 PM Changeset [2973] by
- References #674: Generate document with report of sequencing results. …
- 2:16 PM Changeset [2972] by
- References #696: Implement some skin examples for BASE Added color …
- 11:21 AM Changeset [2971] by
- References #696: Implement some skin examples for BASE Need more …
- 11:20 AM Changeset [2970] by
- References #701: Check compability with BASE 3.4 Print buttons on lab …
- 11:01 AM Ticket #702 (Use skin features in BASE 3.4) created by
- BASE 3.4 introduces the possibility to install 'skins' to change the …
- 11:00 AM Ticket #701 (Check compability with BASE 3.4) created by
- BASE 3.4 introduces the possibility to install 'skins' to change the …
- 9:27 AM Changeset [2969] by
- References #696: Implement some skin examples for BASE Added …
Nov 21, 2014:
- 2:35 PM Changeset [2968] by
- References #696: Implement some skin examples for BASE Added "Server …
- 12:55 PM Changeset [2967] by
- References #696: Implement some skin examples for BASE Added "Gold" …
Nov 20, 2014:
- 12:31 PM Changeset [2966] by
- Refs #690. Since no biopsy type annotation is currently used in …
- 11:25 AM Changeset [2965] by
-
Refs #690. Javascript file
persinfo.jsinresources/personal/… - 9:17 AM Changeset [2964] by
- Refs #690. The case registration section is updated with an initial …
- 8:01 AM Ticket #700 (Missing '-' between plate name and library name in start alignment and ...) closed by
- fixed: (In [2963]) Fixes #700: Missing '-' between plate name and library …
- 8:01 AM Changeset [2963] by
- Fixes #700: Missing '-' between plate name and library name in start …
- 7:59 AM Ticket #700 (Missing '-' between plate name and library name in start alignment and ...) created by
Nov 19, 2014:
- 3:34 PM Changeset [2962] by
- Refs #690. Two new sites, "Karlskrona" and "Växjö" added, both …
- 2:03 PM Changeset [2961] by
- References #674: Generate document with report of sequencing results …
- 1:34 PM Changeset [2960] by
- Merge Reggie 2.17.2 to trunk.
- 1:01 PM Changeset [2959] by
- Preparing for future release Reggie 2.17.3
- 12:59 PM Milestone Reggie v2.17.2 completed
- Bug fixes for Reggie 2.17.1. See [wiki:net.sf.basedb.reggie Reggie …
- 12:57 PM net.sf.basedb.reggie edited by
- Released Reggie 2.17.2 (diff)
- 12:56 PM Ticket #697 (Can't start alignment if there are libraries without a library plate) closed by
- fixed
- 12:54 PM Changeset [2958] by
- Tagging Reggie 2.17.2
- 12:53 PM Ticket #699 (Library registration doesn't warn about missing values in Caliper well ...) closed by
- fixed: (In [2957]) Fixes #699: Caliper importer doesn't warn about missing …
- 12:53 PM Changeset [2957] by
- Fixes #699: Caliper importer doesn't warn about missing values in …
- 11:58 AM Ticket #699 (Library registration doesn't warn about missing values in Caliper well ...) created by
- If a Caliper well table CSV file contains a row for a sample that has …
- 10:57 AM Changeset [2956] by
- Preparing to release Reggie 2.17.2
- 10:51 AM Changeset [2955] by
- References #697: Can't start alignment if there are libraries without …
- 9:27 AM Changeset [2954] by
- References #697: Can't start alignment if there are libraries without …
- 8:48 AM Ticket #698 (Set number of nodes in the demux wizard) closed by
- fixed: (In [2953]) Fixes #698: Set number of nodes in the demux wizard
- 8:48 AM Changeset [2953] by
- Fixes #698: Set number of nodes in the demux wizard
- 8:39 AM Changeset [2952] by
- References #697: Can't start alignment if there are libraries without …
- 7:52 AM Ticket #698 (Set number of nodes in the demux wizard) created by
- The number of nodes to use for a demux job is currently configured in …
- 7:49 AM Ticket #697 (Can't start alignment if there are libraries without a library plate) created by
- The javascript is not prepared for this case since it tries to add the …
Nov 18, 2014:
- 1:10 PM Changeset [2951] by
-
Refs #690. Text file
READMEupdated to describe MeLuDi v.1.0-a01. - 10:43 AM Changeset [2950] by
- Refs #690. Currently unused files and directories removed (file …
- 10:40 AM Changeset [2949] by
-
Refs #690. Ant build file
build.xmlupdated to not include removed … - 8:46 AM Changeset [2948] by
- Refs #690. Currently unused files and directories removed, forcing …
- 8:18 AM Changeset [2947] by
- Refs #690. SVN properties svn:ignore updated/created for two …
Nov 17, 2014:
- 11:21 AM Changeset [2946] by
-
Refs #690. Java servlet
ExportServletremoved, since it is not used … - 10:00 AM Changeset [2945] by
-
Refs #690. Java classes/files updated to allow a "
MeLuDi" column to … - 9:52 AM Changeset [2944] by
-
Refs #690. Java servlet class/file
InstallServlet.javain … - 9:26 AM Changeset [2943] by
- Merge Reggie 2.17.1 to trunk.
- 9:23 AM Changeset [2942] by
- Preparing for future release Reggie 2.17.2
- 9:21 AM Milestone Reggie v2.17.1 completed
- Bug fixes for Reggie 2.17. See [wiki:net.sf.basedb.reggie Reggie …
- 9:21 AM net.sf.basedb.reggie edited by
- Released Reggie 2.17.1 (diff)
- 9:18 AM Changeset [2941] by
- Tagging Reggie 2.17.1
- 9:17 AM Changeset [2940] by
- Preparing to release Reggie 2.17.1
- 8:48 AM Changeset [2939] by
-
Refs #690. CSS files
case_summary.cssandprintable.cssin … - 8:41 AM Changeset [2938] by
-
Refs #690. Javascript file
case-summary.jsinresources/scripts/… - 8:29 AM Changeset [2937] by
-
Refs #690. Files
READMEandRELEASEupdated to refer tomeludi… - 8:14 AM Changeset [2936] by
-
Refs #690. File
LICENSEupdated to refer toMeLuDiinstead ofReggie. - 7:45 AM Changeset [2935] by
-
Refs #690. File
meludi.jarremoved from source code control, since … - 7:39 AM Changeset [2934] by
-
Refs #690. File
json-simple-1.1.1.jarinlib/compile/removed, …
Nov 14, 2014:
- 4:08 PM Changeset [2933] by
- Refs #690. Initial check-in of source code for MeLuDi BASE extension. …
- 3:02 PM Changeset [2932] by
- References #696: Implement some skin examples for BASE Initial …
- 1:57 PM Ticket #628 (Add right-click menu to create pools wizard) closed by
- fixed: (In [2931]) Fixes #628: Add right-click menu to create pools wizard
- 1:57 PM Changeset [2931] by
- Fixes #628: Add right-click menu to create pools wizard
- 1:56 PM Changeset [2930] by
- References #672: RNA concentration normalization wizard .n instead of …
- 12:50 PM Changeset [2929] by
- Adding trunk and tags to skin-collection.
- 12:49 PM Changeset [2928] by
- Fixing typo.
- 12:49 PM Changeset [2927] by
- Adding root folder for "Skin-collection" extension.
- 12:45 PM Ticket #696 (Implement some skin examples for BASE) created by
- See http://base.thep.lu.se/ticket/1886 and …
- 8:28 AM Ticket #695 (New reporter annotations) created by
- The default GTF file we use (UCSC_hg38_knownGenes_22sep2014.gtf) has …
- 8:25 AM Ticket #694 (Path-element tags should use subclass instad of clazz) closed by
- fixed: (In [2926]) Fixes #694: Path-element tags should use subclass instad …
- 8:25 AM Changeset [2926] by
- Fixes #694: Path-element tags should use subclass instad of clazz
- 8:22 AM Ticket #694 (Path-element tags should use subclass instad of clazz) created by
- The case summary page uses clazz which effectively replaces the …
Nov 13, 2014:
- 9:54 AM Ticket #693 (Move debug utilities to a toolbar at bottom of page) closed by
- fixed: (In [2925]) Fixes #693: Move debug utilities to a toolbar at bottom of …
- 9:54 AM Changeset [2925] by
- Fixes #693: Move debug utilities to a toolbar at bottom of page Fixed …
- 9:35 AM Changeset [2924] by
- References #693: Move debug utilities to a toolbar at bottom of page …
Nov 12, 2014:
- 2:55 PM Ticket #693 (Move debug utilities to a toolbar at bottom of page) created by
- In some wizards there are debug utilities, for example, for generating …
- 2:50 PM Changeset [2923] by
- References #672: RNA concentration normalization wizard Adding a …
- 9:31 AM Ticket #635 (Include analysis information in the case summary) closed by
- fixed
- 9:11 AM Ticket #673 (Register RNA QC results from BioAnalyzer runs) closed by
- fixed: (In [2922]) Fixes #673: Register RNA QC results from BioAnalyzer? runs …
- 9:11 AM Changeset [2922] by
- Fixes #673: Register RNA QC results from BioAnalyzer? runs Manual …
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