Timeline


and

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
Preparing for future release Reggie 3.2.1
8:53 AM Milestone Reggie v3.2.1 completed
8:53 AM PluginDownload edited by nicklas
Released Reggie 3.2.1 (diff)
8:52 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 3.2.1 (diff)
8:51 AM reggie-3.2.1.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 3.2.1
8:49 AM Changeset [3197] by nicklas
Tagging Reggie 3.2.1
8:49 AM Changeset [3196] by nicklas
Preparing to release Reggie 3.2.1
8:46 AM Ticket #760 (Prepare for adding help texts in reggie wizards) closed by nicklas
fixed: (In [3195]) Fixes #760: Prepare for adding help texts in reggie …
8:46 AM Changeset [3195] by nicklas
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
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
fixed: (In [3194]) Fixes #758: Open grid sceduler jobs with no job id in BASE …
8:18 AM Changeset [3194] by nicklas
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
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
fixed: (In [3188]) Fixes #757: Some latest RNAQC items are not fetched in the …
1:17 PM Changeset [3188] by nicklas
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
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
fixed: (In [3182]) Fixes #756: Display numbers with two decimals in the …
9:22 AM Changeset [3182] by nicklas
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
fixed: (In [3181]) Fixes #755: Display unit for PF_READS in "Confirm demux" wizard
8:36 AM Changeset [3181] by nicklas
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
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
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
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
fixed
3:51 PM Ticket #754 (Make case summary display more tolerant aginst problems) closed by nicklas
fixed: (In [3179]) Fixes #754: Make case summary display more tolerant aginst …
3:51 PM Changeset [3179] by nicklas
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
See #753 for a recent problem. It would be nice if the case summary …
3:46 PM Changeset [3178] by nicklas
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
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
Fixing typo.
1:42 PM net.sf.basedb.reggie/HistoryOfReggie edited by nicklas
Added Reggie 3.2 screenshot (diff)
1:41 PM reggie-3.2.png attached to net.sf.basedb.reggie/HistoryOfReggie by nicklas
Reggie 3.2
1:36 PM Changeset [3174] by nicklas
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
Added link to pipeline scripts (diff)
1:32 PM PluginDownload edited by nicklas
Released Reggie 3.2 (diff)
1:30 PM net.sf.basedb.reggie edited by nicklas
Released Reggie 3.2 (diff)
1:25 PM reggie-3.2.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 3.2
1:23 PM Changeset [3173] by nicklas
Tagging Reggie 3.2
1:23 PM Changeset [3172] by nicklas
Preparing to release Reggie 3.2
11:17 AM Ticket #752 (Schedule new RNAQC from Flagged RNA wizard) created by nicklas
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
fixed: (In [3171]) Fixes #751: Set max-base-version to 3.5.0
9:28 AM Changeset [3171] by nicklas
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
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
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
Update notes for Reggie 3.2
8:58 AM net.sf.basedb.reggie edited by nicklas
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
fixed
8:54 AM Ticket #740 (Add support for reprocessing specimen) closed by nicklas
fixed
8:53 AM Changeset [3170] by nicklas
References #740: Add support for reprocessing specimen Limit width of …
8:31 AM Ticket #746 (IHC-quality annotation) closed by nicklas
fixed: (In [3169]) Fixes #746: IHC-quality annotation Added IHCQuality
8:31 AM Changeset [3169] by nicklas
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
fixed: (In [3168]) Fixes #748: DNA/RNA/FlowThrough registration should have …
2:44 PM Changeset [3168] by nicklas
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
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
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
fixed: (In [3167]) Fixes #747: Label file generated by the partition wizard …
10:28 AM Changeset [3167] by nicklas
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
The label file is divided into two sections. The first section is the …
8:41 AM Changeset [3166] by nicklas
References #455: Flagged RNA re-processing wizard Cleaning up the …
7:59 AM Changeset [3165] by nicklas
References #455: Flagged RNA re-processing wizard Added 'Create …

Mar 4, 2015:

6:49 PM net.sf.basedb.illumina edited by jari
Changelog for v1.7 should point at milestone for v1.7 (diff)
1:42 PM Changeset [3164] by nicklas
References #455: Flagged RNA re-processing wizard Added 'Re-process …
1:08 PM Changeset [3163] by nicklas
References #455: Flagged RNA re-processing wizard Added PrepCurator
11:37 AM Changeset [3162] by nicklas
References #455: Flagged RNA re-processing wizard Added 'Flagged …
10:44 AM Changeset [3161] by nicklas
References #455: Flagged RNA re-processing wizard Added 'Unflag' …
9:08 AM Changeset [3160] by nicklas
References #740: Add support for reprocessing specimen Typo.
9:07 AM Ticket #746 (IHC-quality annotation) created by nicklas
#736 added support for annotating slides with an IHC annotation. For …
9:03 AM Changeset [3159] by olle
Refs #725. Specimen tube registration without and with patient info …
9:01 AM Changeset [3158] by nicklas
References #455: Flagged RNA re-processing wizard Started with this …
8:36 AM Changeset [3157] by olle
Refs #725. Bug fixed in Javascript file persinfo.js in …

Mar 3, 2015:

7:31 AM Changeset [3156] by olle
Refs #725. Bug fixed in case registration with patient info when …

Feb 27, 2015:

10:38 AM Changeset [3155] by nicklas
References #740: Add support for reprocessing specimen Gray …
10:37 AM Ticket #744 (Lab protocol for RNAQC on BioAnalyzer) closed by nicklas
fixed: (In [3154]) Fixes #744: Lab protocol for RNAQC on BioAnalyzer?
10:37 AM Changeset [3154] by nicklas
Fixes #744: Lab protocol for RNAQC on BioAnalyzer?
8:04 AM Changeset [3153] by nicklas
References #740: Add support for reprocessing specimen Adjustments to …

Feb 26, 2015:

1:55 PM Ticket #745 (Incorrect QiaCube positions in DNA/RNA/FlowThrough registration wizard) closed by nicklas
fixed: (In [3152]) Fixes #745: Incorrect QiaCube? positions in …
1:55 PM Changeset [3152] by nicklas
Fixes #745: Incorrect QiaCube? positions in DNA/RNA/FlowThrough …
1:26 PM Changeset [3151] by nicklas
References #740: Add support for reprocessing specimen Some minor …
1:10 PM Changeset [3150] by nicklas
References #740: Add support for reprocessing specimen Registration …
10:59 AM Ticket #745 (Incorrect QiaCube positions in DNA/RNA/FlowThrough registration wizard) created by nicklas
The DNA/RNA/FlowThrough registration wizard only generate correct …
9:12 AM Changeset [3149] by nicklas
References #740: Add support for reprocessing specimen Loading new …
7:36 AM Changeset [3148] by olle
Refs #725. Case registration with and without patient info updated to …

Feb 25, 2015:

2:04 PM Changeset [3147] by nicklas
References #740: Add support for reprocessing specimen Comparing …
1:08 PM Changeset [3146] by nicklas
References #740: Add support for reprocessing specimen Label …
11:20 AM Changeset [3145] by nicklas
References #740: Add support for reprocessing specimen Started to …

Feb 24, 2015:

2:03 PM Changeset [3144] by nicklas
References #740: Add support for reprocessing specimen Adds counter …
12:48 PM Ticket #744 (Lab protocol for RNAQC on BioAnalyzer) created by nicklas
We need wizard for creating a lab protocol when running RNAQC on …
12:35 PM Ticket #741 (AutoProcessing flag remains set on raw bioassays) closed by nicklas
fixed: (In [3143]) Fixes #741: AutoProcessing? flag remains set on raw …
12:35 PM Changeset [3143] by nicklas
Fixes #741: AutoProcessing? flag remains set on raw bioassays The …
11:28 AM Ticket #739 (Gene report doesn't pick up default path to template.pdf) closed by nicklas
fixed: (In [3142]) Fixes #739: Gene report doesn't pick up default path to …
11:28 AM Changeset [3142] by nicklas
Fixes #739: Gene report doesn't pick up default path to template.pdf …
11:06 AM Ticket #743 (The second trimmomatic step in demux script may not include options) closed by nicklas
fixed: (In [3141]) Fixes #743: The second trimmomatic step in demux script …
11:06 AM Changeset [3141] by nicklas
Fixes #743: The second trimmomatic step in demux script may not …
11:06 AM Ticket #742 (Detect tiles with empty barcode files) closed by nicklas
fixed: (In [3140]) Fixes #742: Detect tiles with empty barcode files The …
11:06 AM Changeset [3140] by nicklas
Fixes #742: Detect tiles with empty barcode files The demux script …
10:55 AM Ticket #743 (The second trimmomatic step in demux script may not include options) created by nicklas
When generating the script for the second trimmomatic step the options …

Feb 23, 2015:

1:04 PM Ticket #742 (Detect tiles with empty barcode files) created by nicklas
The first step when demuxing is to call `picard …

Feb 20, 2015:

12:51 PM Ticket #741 (AutoProcessing flag remains set on raw bioassays) created by nicklas
The secondary analysis auto-confirmation wizard managed to process a …

Feb 19, 2015:

8:18 AM Ticket #740 (Add support for reprocessing specimen) created by nicklas
It should be possible to reprocess specimen items that has already …

Feb 18, 2015:

11:20 AM Ticket #739 (Gene report doesn't pick up default path to template.pdf) created by nicklas
In reggie-config.xml there is a setting for specifying the path to the …
Note: See TracTimeline for information about the timeline view.