Timeline



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 …

Mar 4, 2015:

6:49 PM net.sf.basedb.illumina edited by Jari Häkkinen
Changelog for v1.7 should point at milestone for v1.7 (diff)
1:42 PM Changeset [3164] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Added 'Re-process …
1:08 PM Changeset [3163] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Added PrepCurator
11:37 AM Changeset [3162] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Added 'Flagged …
10:44 AM Changeset [3161] by Nicklas Nordborg
References #455: Flagged RNA re-processing wizard Added 'Unflag' …
9:08 AM Changeset [3160] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Typo.
9:07 AM Ticket #746 (IHC-quality annotation) created by Nicklas Nordborg
#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 Nordborg
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 Nordborg
References #740: Add support for reprocessing specimen Gray …
10:37 AM Ticket #744 (Lab protocol for RNAQC on BioAnalyzer) closed by Nicklas Nordborg
fixed: (In [3154]) Fixes #744: Lab protocol for RNAQC on BioAnalyzer?
10:37 AM Changeset [3154] by Nicklas Nordborg
Fixes #744: Lab protocol for RNAQC on BioAnalyzer?
8:04 AM Changeset [3153] by Nicklas Nordborg
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 Nordborg
fixed: (In [3152]) Fixes #745: Incorrect QiaCube? positions in …
1:55 PM Changeset [3152] by Nicklas Nordborg
Fixes #745: Incorrect QiaCube? positions in DNA/RNA/FlowThrough …
1:26 PM Changeset [3151] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Some minor …
1:10 PM Changeset [3150] by Nicklas Nordborg
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 Nordborg
The DNA/RNA/FlowThrough registration wizard only generate correct …
9:12 AM Changeset [3149] by Nicklas Nordborg
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 Nordborg
References #740: Add support for reprocessing specimen Comparing …
1:08 PM Changeset [3146] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Label …
11:20 AM Changeset [3145] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Started to …

Feb 24, 2015:

2:03 PM Changeset [3144] by Nicklas Nordborg
References #740: Add support for reprocessing specimen Adds counter …
12:48 PM Ticket #744 (Lab protocol for RNAQC on BioAnalyzer) created by Nicklas Nordborg
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 Nordborg
fixed: (In [3143]) Fixes #741: AutoProcessing? flag remains set on raw …
12:35 PM Changeset [3143] by Nicklas Nordborg
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 Nordborg
fixed: (In [3142]) Fixes #739: Gene report doesn't pick up default path to …
11:28 AM Changeset [3142] by Nicklas Nordborg
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 Nordborg
fixed: (In [3141]) Fixes #743: The second trimmomatic step in demux script …
11:06 AM Changeset [3141] by Nicklas Nordborg
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 Nordborg
fixed: (In [3140]) Fixes #742: Detect tiles with empty barcode files The …
11:06 AM Changeset [3140] by Nicklas Nordborg
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 Nordborg
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 Nordborg
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 Nordborg
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 Nordborg
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 Nordborg
In reggie-config.xml there is a setting for specifying the path to the …

Feb 16, 2015:

3:10 PM Changeset [3139] by olle
Refs #725. P Project focus updated with new option "GIST …

Feb 11, 2015:

2:45 PM Changeset [3138] by Nicklas Nordborg
References #738: Remove Cufflinks code from AlignJobCreator? Removing …
2:36 PM Ticket #738 (Remove Cufflinks code from AlignJobCreator) closed by Nicklas Nordborg
fixed: (In [3137]) Fixes #738: Remove Cufflinks code from AlignJobCreator?
2:36 PM Changeset [3137] by Nicklas Nordborg
Fixes #738: Remove Cufflinks code from AlignJobCreator?
2:36 PM Ticket #738 (Remove Cufflinks code from AlignJobCreator) created by Nicklas Nordborg
The class that is responsible for creating and handling alignment jobs …
8:06 AM Changeset [3136] by Nicklas Nordborg
Preparing for future release YubiKey 1.3
8:05 AM Milestone YubiKey v1.2 completed
See YubiKey authentication extension for …
8:04 AM PluginDownload edited by Nicklas Nordborg
Released YubiKey? 1.2 (diff)
8:03 AM net.sf.basedb.yubikey edited by Nicklas Nordborg
Released YubiKey? 1.2 (diff)
8:02 AM yubikey-1.2.tar.gz attached to net.sf.basedb.yubikey by Nicklas Nordborg
YubiKey? 1.2
8:01 AM Changeset [3135] by Nicklas Nordborg
Tagging YubiKey 1.2
8:01 AM Changeset [3134] by Nicklas Nordborg
Preparing to release YubiKey 1.2
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