Timeline



Apr 2, 2015:

2:13 PM Changeset [3225] by olle
Refs #759. MeLuDI updated with a new wizard "Lab tracking sheet/report …
10:04 AM Changeset [3224] by olle
Refs #759. MeLuDI DNA/RNA registration/quantification wizard updated …
8:59 AM Changeset [3223] by olle
Refs #759. MeLuDI DNA/RNA extraction wizards value edit pop-up dialogs …

Apr 1, 2015:

3:32 PM Changeset [3222] by olle
Refs #759. JSP file extraction_registration.jsp in …
3:06 PM Changeset [3221] by olle
Refs #759.Bug fixed in java servlet class/file …
10:07 AM Changeset [3220] by olle
Refs #759. MeLuDI DNA/RNA extraction wizards minor updates to the …

Mar 31, 2015:

2:07 PM Changeset [3219] by Nicklas Nordborg
References #750: Changes required for BASE version 3.5 Fix use of …
1:58 PM Changeset [3218] by Nicklas Nordborg
References #750: Changes required for BASE version 3.5 Fixes all …
11:58 AM Ticket #765 (Add 3x16 pool schema to create mRNA plate wizard) created by Nicklas Nordborg
This layout should use the 6 center columns. There should also be 3 …

Mar 30, 2015:

2:13 PM Changeset [3217] by Nicklas Nordborg
References #750: Changes required for BASE version 3.5 Updated …
1:51 PM Changeset [3216] by Nicklas Nordborg
Creating branch for ticket 750: Changes required for BASE version 3.5
1:50 PM Changeset [3215] by Nicklas Nordborg
Should have made copy from trunk!
1:47 PM Changeset [3214] by Nicklas Nordborg
Creating branch for ticket 750: Changes required for BASE version 3.5
12:56 PM Ticket #764 (Support for neoprep in the library preparation) created by Nicklas Nordborg
With the neoprep we will be able to go directly from RNA to libraries. …
12:46 PM Ticket #763 (Change limit for NotEnoughRemaininQuantity flag in the extraction wizard) created by Nicklas Nordborg
The limit is currently set to 1.1µg. The neoprep only require 100ng …
12:44 PM Ticket #762 (Pre-normalization changes due to NeoPrep) created by Nicklas Nordborg
The neoprep require only 100ng of input rna in 25-45µl. The current …

Mar 27, 2015:

12:26 PM Changeset [3213] by olle
Refs #759. MeLuDI Lab tracking protocol for Allprep isolation wizard …
9:56 AM Changeset [3212] by olle
Refs #759. MeLuDI DNA/RNA extraction wizards updated to display …

Mar 26, 2015:

11:35 AM Ticket #761 (Improve printing lists with multiple filter rows) closed by Nicklas Nordborg
fixed: (In [3211]) Fixes #761: Improve printing lists with multiple filter …
11:35 AM Changeset [3211] by Nicklas Nordborg
Fixes #761: Improve printing lists with multiple filter rows Added …
11:18 AM Changeset [3210] by olle
Refs #759. Updates regarding spelling of project name. The desired …
9:20 AM Changeset [3209] by olle
Refs #759. MeLuDi Lab tracking protocol for Allprep isolation wizard …

Mar 25, 2015:

3:56 PM Ticket #761 (Improve printing lists with multiple filter rows) created by Nicklas Nordborg
The current print functionality works but the formatting when there …

Mar 24, 2015:

4:23 PM Changeset [3208] by olle
Refs #759. MeLuDi DNA/RNA registration/quantification wizard updated …

Mar 23, 2015:

9:17 AM Changeset [3207] by olle
Refs #759. MeLuDi case summary updated in the specimen info, to show …

Mar 20, 2015:

1:47 PM Changeset [3206] by olle
Refs #759. MeLuDi counter, data access object, and servlet code …
12:45 PM Changeset [3205] by olle
Refs #759. MeLuDi Lab tracking protocol for Allprep isolation wizard …
8:35 AM Changeset [3204] by olle
Refs #759. MeLuDi DNA/RNA registration/quantification wizard updated …
8:14 AM Changeset [3203] by olle
Refs #759. MeLuDi DNA/RNA extraction wizards updated to print an …

Mar 19, 2015:

3:38 PM Changeset [3202] by olle
Refs #759. MeLuDi DNA/RNA extraction wizards updated to not depend on …
1:30 PM Changeset [3201] by olle
Refs #759. MeLuDi DNA/RNA extraction wizards updated to draw vertical …
12:03 PM Changeset [3200] by olle
Refs #759. Javascript file extraction_registration.js in …
11:28 AM Changeset [3199] by olle
Refs #759. MeLuDi DNA/RNA extraction wizards updated to add an extra …
8:54 AM Changeset [3198] by Nicklas Nordborg
Preparing for future release Reggie 3.2.1
8:53 AM Milestone Reggie v3.2.1 completed
8:53 AM PluginDownload edited by Nicklas Nordborg
Released Reggie 3.2.1 (diff)
8:52 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 3.2.1 (diff)
8:51 AM reggie-3.2.1.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 3.2.1
8:49 AM Changeset [3197] by Nicklas Nordborg
Tagging Reggie 3.2.1
8:49 AM Changeset [3196] by Nicklas Nordborg
Preparing to release Reggie 3.2.1
8:46 AM Ticket #760 (Prepare for adding help texts in reggie wizards) closed by Nicklas Nordborg
fixed: (In [3195]) Fixes #760: Prepare for adding help texts in reggie …
8:46 AM Changeset [3195] by Nicklas Nordborg
Fixes #760: Prepare for adding help texts in reggie wizards Added …
8:23 AM Ticket #760 (Prepare for adding help texts in reggie wizards) created by Nicklas Nordborg
It would be nice to have some help buttons here and there in Reggie. …
8:18 AM Ticket #758 (Open grid sceduler jobs with no job id in BASE) closed by Nicklas Nordborg
fixed: (In [3194]) Fixes #758: Open grid sceduler jobs with no job id in BASE …
8:18 AM Changeset [3194] by Nicklas Nordborg
Fixes #758: Open grid sceduler jobs with no job id in BASE This was a …
7:38 AM Changeset [3193] by olle
Refs #759 Updates due to version number change to "1.3-dev". 1. …

Mar 18, 2015:

3:15 PM Milestone MeLuDi v1.2 completed
Updates of the MeLuDi extension to BASE, a package of registration …
3:13 PM Ticket #759 (MeLuDi v.1.2 bug fixes and improvements) created by olle
This ticket covers bug fixes and improvements to MeLuDi v.1.2.
3:03 PM PluginDownload edited by olle
Added information on MeLuDi 1.2 (diff)
2:59 PM net.sf.basedb.meludi edited by olle
Added information on MeLuDi 1.2 (diff)
2:58 PM Ticket #725 (MeLuDi v.1.1 bug fixes and improvements) closed by olle
fixed: Ticket closed as MeLuDi version 1.2 has been created.
2:43 PM meludi-1.2.tar.gz attached to net.sf.basedb.meludi by olle
MeLuDi BASE extension package version 1.2
2:36 PM Changeset [3192] by olle
Tagging release 1.2
2:20 PM Changeset [3191] by olle
Refs #725. Javascript file case_summary.js in resources/reports/
2:09 PM Ticket #758 (Open grid sceduler jobs with no job id in BASE) created by Nicklas Nordborg
For some reason a (cufflinks) job was submitted to the cluster but no …
1:52 PM Changeset [3190] by olle
Refs #725. Outermost README file updated for MeLuDi 1.2.
1:30 PM Changeset [3189] by olle
Refs #725. Updates due to version number change to "1.2". 1. …
1:17 PM Ticket #757 (Some latest RNAQC items are not fetched in the Flagged RNA wizard) closed by Nicklas Nordborg
fixed: (In [3188]) Fixes #757: Some latest RNAQC items are not fetched in the …
1:17 PM Changeset [3188] by Nicklas Nordborg
Fixes #757: Some latest RNAQC items are not fetched in the Flagged RNA …
1:14 PM Changeset [3187] by olle
Refs #725. Java servlet class/file ExtractionServlet.java in …
12:02 PM Changeset [3186] by Nicklas Nordborg
References #757: Some latest RNAQC items are not fetched in the …
11:52 AM Changeset [3185] by olle
Refs #725. Javascript file meludi-2.js in resources/ updated in …
11:25 AM Changeset [3184] by olle
Refs #725. CSS file meludi-2.css in resources/css/ updated with …
10:09 AM Changeset [3183] by olle
Refs #725. MeLuDi updated in the "DNA/RNA …
9:22 AM Ticket #756 (Display numbers with two decimals in the Flagged RNA wizard) closed by Nicklas Nordborg
fixed: (In [3182]) Fixes #756: Display numbers with two decimals in the …
9:22 AM Changeset [3182] by Nicklas Nordborg
Fixes #756: Display numbers with two decimals in the Flagged RNA …
8:36 AM Ticket #755 (Display unit for PF_READS in "Confirm demux" wizard) closed by Nicklas Nordborg
fixed: (In [3181]) Fixes #755: Display unit for PF_READS in "Confirm demux" wizard
8:36 AM Changeset [3181] by Nicklas Nordborg
Fixes #755: Display unit for PF_READS in "Confirm demux" wizard
7:49 AM Ticket #757 (Some latest RNAQC items are not fetched in the Flagged RNA wizard) created by Nicklas Nordborg
The common pattern seems to be that the missing RNAQC items are not …

Mar 17, 2015:

11:56 AM Ticket #756 (Display numbers with two decimals in the Flagged RNA wizard) created by Nicklas Nordborg
All numbers in the Flagged RNA wizard are typically displayed with …
11:54 AM Ticket #755 (Display unit for PF_READS in "Confirm demux" wizard) created by Nicklas Nordborg
This value is currently displayed without unit.
11:51 AM Changeset [3180] by olle
Refs #725. MeLuDi updated in the functionality for the DNA/RNA …

Mar 16, 2015:

8:07 AM net.sf.basedb.meludi.notes1_2 edited by olle
Added note about adding extraction protocols. (diff)

Mar 12, 2015:

11:27 AM net.sf.basedb.meludi.notes1_2 created by olle
First version of the MeLuDi 1.2 update notes page.

Mar 9, 2015:

3:51 PM Ticket #753 (Case summary breaks if no stained histology has GoodStain) closed by Nicklas Nordborg
fixed
3:51 PM Ticket #754 (Make case summary display more tolerant aginst problems) closed by Nicklas Nordborg
fixed: (In [3179]) Fixes #754: Make case summary display more tolerant aginst …
3:51 PM Changeset [3179] by Nicklas Nordborg
Fixes #754: Make case summary display more tolerant aginst problems …
3:49 PM Ticket #754 (Make case summary display more tolerant aginst problems) created by Nicklas Nordborg
See #753 for a recent problem. It would be nice if the case summary …
3:46 PM Changeset [3178] by Nicklas Nordborg
References #753: Case summary breaks if no stained histology has …
2:20 PM Ticket #753 (Case summary breaks if no stained histology has GoodStain) created by Nicklas Nordborg
Left column display ok down to Histology section. The "Score" section …
9:06 AM Changeset [3177] by olle
Refs #725. Wizards "Lab tracking protocol for Allprep isolation" and …

Mar 6, 2015:

4:06 PM Changeset [3176] by olle
Refs #725. MeLuDi updated with basic functionality for the DNA/RNA …
3:23 PM Changeset [3175] by Jari Häkkinen
Fixing typo.
1:42 PM net.sf.basedb.reggie/HistoryOfReggie edited by Nicklas Nordborg
Added Reggie 3.2 screenshot (diff)
1:41 PM reggie-3.2.png attached to net.sf.basedb.reggie/HistoryOfReggie by Nicklas Nordborg
Reggie 3.2
1:36 PM Changeset [3174] by Nicklas Nordborg
Preparing for future release Reggie 3.3
1:34 PM Milestone Reggie v3.2 completed
See Reggie extension page for more information.
1:33 PM net.sf.basedb.reggie/notes32 edited by Nicklas Nordborg
Added link to pipeline scripts (diff)
1:32 PM PluginDownload edited by Nicklas Nordborg
Released Reggie 3.2 (diff)
1:30 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 3.2 (diff)
1:25 PM reggie-3.2.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 3.2
1:23 PM Changeset [3173] by Nicklas Nordborg
Tagging Reggie 3.2
1:23 PM Changeset [3172] by Nicklas Nordborg
Preparing to release Reggie 3.2
11:17 AM Ticket #752 (Schedule new RNAQC from Flagged RNA wizard) created by Nicklas Nordborg
RNA items may be flagged due to low RQS/RIN value. It would be useful …
9:28 AM Ticket #751 (Set max-base-version to 3.5.0) closed by Nicklas Nordborg
fixed: (In [3171]) Fixes #751: Set max-base-version to 3.5.0
9:28 AM Changeset [3171] by Nicklas Nordborg
Fixes #751: Set max-base-version to 3.5.0
9:27 AM Ticket #751 (Set max-base-version to 3.5.0) created by Nicklas Nordborg
See #750 for information about upcoming changes to BASE 3.5. Changes …
9:25 AM Ticket #750 (Changes required for BASE version 3.5) created by Nicklas Nordborg
BASE 3.5 will not be binary compatible with earlier BASE 3.x versions …
9:17 AM net.sf.basedb.reggie/notes32 created by Nicklas Nordborg
Update notes for Reggie 3.2
8:58 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Preparing for release by adding a link to update notes for reggie 3.2 (diff)
8:55 AM Ticket #455 (Flagged RNA re-processing wizard) closed by Nicklas Nordborg
fixed
8:54 AM Ticket #740 (Add support for reprocessing specimen) closed by Nicklas Nordborg
fixed
8:53 AM Changeset [3170] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Limit width of …
8:31 AM Ticket #746 (IHC-quality annotation) closed by Nicklas Nordborg
fixed: (In [3169]) Fixes #746: IHC-quality annotation Added IHCQuality
8:31 AM Changeset [3169] by Nicklas Nordborg
Fixes #746: IHC-quality annotation Added IHCQuality annotation type …

Mar 5, 2015:

2:44 PM Ticket #748 (DNA/RNA/FlowThrough registration should have an option to load latest ...) closed by Nicklas Nordborg
fixed: (In [3168]) Fixes #748: DNA/RNA/FlowThrough registration should have …
2:44 PM Changeset [3168] by Nicklas Nordborg
Fixes #748: DNA/RNA/FlowThrough registration should have an option to …
2:27 PM Ticket #749 (Allow extraction of less than 12 samples) created by Nicklas Nordborg
The current implementation of the DNA/RNA/FlowThrough registration …
10:31 AM Ticket #748 (DNA/RNA/FlowThrough registration should have an option to load latest ...) created by Nicklas Nordborg
The registration form should be empty to begin with but there should …
10:28 AM Ticket #747 (Label file generated by the partition wizard should have even number ...) closed by Nicklas Nordborg
fixed: (In [3167]) Fixes #747: Label file generated by the partition wizard …
10:28 AM Changeset [3167] by Nicklas Nordborg
Fixes #747: Label file generated by the partition wizard should have …
9:26 AM Ticket #747 (Label file generated by the partition wizard should have even number ...) created by Nicklas Nordborg
The label file is divided into two sections. The first section is the …
8:41 AM Changeset [3166] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Cleaning up the …
7:59 AM Changeset [3165] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Added 'Create …
Note: See TracTimeline for information about the timeline view.