Timeline


and

Mar 22, 2016:

3:27 PM Ticket #874 (<reference-gidx> is incorrect in the default reggie-config.xml file) created by nicklas
This should be changed to: hg38/hg38.analysisSet/hg38.analysisSet.fa
2:33 PM Changeset [3809] by nicklas
Merge Reggie 4.2.1 to the trunk.
2:29 PM Milestone Reggie v4.2.1 completed
Bug fixes for Reggie 4.2. Revision Log: …
2:29 PM PluginDownload edited by nicklas
Released Reggie 4.2.1 (diff)
2:28 PM net.sf.basedb.reggie edited by nicklas
Released Reggie 4.2.1 (diff)
2:27 PM reggie-4.2.1.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 4.2.1
2:25 PM Changeset [3808] by nicklas
Tagging Reggie 4.2.1
2:25 PM Changeset [3807] by nicklas
Preparing to release Reggie 4.2.1
2:19 PM Ticket #873 (Target volume for NeoPrep should be changed from 12.5 to 15) closed by nicklas
fixed
2:11 PM Changeset [3806] by nicklas
References #873: Target volume for NeoPrep? should be changed from 12.5 …
1:58 PM Changeset [3805] by nicklas
References #873: Target volume for NeoPrep? should be changed from 12.5 …
1:28 PM Ticket #873 (Target volume for NeoPrep should be changed from 12.5 to 15) created by nicklas
See also #858. Turned out that 12.5µl was not practical since it was …
9:55 AM Ticket #866 (Implement the "Start page" extension) closed by nicklas
duplicate: Duplicated by #872.
8:51 AM Changeset [3804] by nicklas
References #868: Update SSH library Use a singleton Config instance …
8:37 AM Changeset [3803] by nicklas
References #867: Update SSH library Use a singleton Config instance …

Mar 21, 2016:

2:52 PM Changeset [3802] by nicklas
References #864: Implement a service that check and update file …
12:11 PM Changeset [3801] by olle
Refs #525. Java servlet class IncaServlet refactored to make code …

Mar 18, 2016:

2:27 PM Changeset [3800] by nicklas
References #861: YellowLabel? tracking wizard Gray background for …
1:16 PM Ticket #872 (Register Reggie as a start page) created by nicklas
BASE 3.8 provides a new extension point for setting the start page …
1:08 PM Ticket #871 (NullPointerException when selecting a software item in the gene/pilot ...) closed by nicklas
fixed: (In [3799]) Fixes #871: NullPointerException? when selecting a software …
1:08 PM Changeset [3799] by nicklas
Fixes #871: NullPointerException? when selecting a software item in the …
1:05 PM Ticket #871 (NullPointerException when selecting a software item in the gene/pilot ...) created by nicklas
When running the Gene and Pilot report wizard it is possible to select …
12:05 PM Changeset [3798] by nicklas
References #870 and #869. Updated README.
12:04 PM Ticket #869 (Switch to Java 8) closed by nicklas
fixed
12:03 PM Ticket #870 (Switch to BASE 3.7) closed by nicklas
fixed: (In [3797]) Fixes #870: Switch to BASE 3.7 Noted that the FTP …
12:03 PM Changeset [3797] by nicklas
Fixes #870: Switch to BASE 3.7 Noted that the FTP connection manager …
11:44 AM Ticket #870 (Switch to BASE 3.7) created by nicklas
The usual procedure is to always require the current BASE version.
11:42 AM Ticket #868 (Update SSH library) closed by nicklas
fixed: (In [3796]) Fixes #868: Update SSH library
11:42 AM Changeset [3796] by nicklas
Fixes #868: Update SSH library
11:40 AM Changeset [3795] by nicklas
Fixes #844: Switch to Java 8
11:30 AM Ticket #869 (Switch to Java 8) created by nicklas
Java 8 is recommended since BASE 3.6. See for example #783.
11:24 AM Ticket #868 (Update SSH library) created by nicklas
See #867.
11:24 AM Changeset [3794] by nicklas
References #867: Update SSH library Changed to SSHJ 0.15.0. New …
11:15 AM Ticket #867 (Update SSH library) created by nicklas
The SSH library we use for making SSH connections to other hosts seems …
10:49 AM Changeset [3793] by nicklas
References #863: Secondary analysis scripts should set permissions on …
9:07 AM Changeset [3792] by nicklas
References #863: Secondary analysis scripts should set permissions on …

Mar 17, 2016:

2:42 PM Changeset [3791] by nicklas
References #861: YellowLabel? tracking wizard The "Create Pilot report …
1:47 PM Changeset [3790] by nicklas
References #861: YellowLabel? tracking wizard Moved yellow label files …
1:37 PM Changeset [3789] by nicklas
References #861: YellowLabel? tracking wizard Added "Create Pilot …
1:34 PM Changeset [3788] by nicklas
References #861: YellowLabel? tracking wizard Moved code from the …
12:42 PM Changeset [3787] by nicklas
References #861: YellowLabel? tracking wizard Added "Mark as …
11:08 AM Changeset [3786] by olle
Refs #525. First version of the INCA data import. It is based on the …

Mar 16, 2016:

3:42 PM Changeset [3785] by nicklas
References #861: YellowLabel? tracking wizard Fixes filtering problems …
3:33 PM Changeset [3784] by nicklas
References #861: YellowLabel? tracking wizard Added CompletedDate
1:20 PM Changeset [3783] by nicklas
References #861: YellowLabel? tracking wizard Adding counter for …
12:54 PM Ticket #866 (Implement the "Start page" extension) created by nicklas
Reggie should add itself as a "Start page". See …
8:14 AM Ticket #865 (Stray files wizard) created by nicklas
The files in the project archive may not reflect what is registered in …
8:02 AM Ticket #864 (Implement a service that check and update file permission in ProjectArchive) created by nicklas
This is related to #863. The secondary analysis scripts will not give …
7:56 AM Ticket #863 (Secondary analysis scripts should set permissions on created files in ...) created by nicklas
This is related to #864. Files generated on the project archive file …

Mar 11, 2016:

9:20 AM Changeset [3782] by nicklas
References #861: YellowLabel? tracking wizard Added columns for Raw …

Mar 10, 2016:

3:40 PM Changeset [3781] by nicklas
Updating trunk version to 4.3-dev. It should have been done as part of …
3:37 PM Changeset [3780] by nicklas
References #861: YellowLabel? tracking wizard Added columns for RNA …
2:32 PM Changeset [3779] by nicklas
References #861: YellowLabel? tracking wizard Added the main list page …
8:46 AM Ticket #862 (Import frozen tissue date wizard should have PatientCurator role) closed by nicklas
fixed: (In [3778]) Fixes #862: Import frozen tissue date wizard should have …
8:46 AM Changeset [3778] by nicklas
Fixes #862: Import frozen tissue date wizard should have …
8:42 AM Ticket #862 (Import frozen tissue date wizard should have PatientCurator role) created by nicklas
The Import frozen tissue date wizard (see #808) is currently enabled …

Mar 9, 2016:

11:11 AM Ticket #861 (YellowLabel tracking wizard) created by nicklas
See #771. Implement a new wizard for tracking and summarize the …
9:16 AM Ticket #860 (NeoPrep need other barcode variants) closed by nicklas
fixed: (In [3777]) Fixes #860: NeoPrep? need other barcode variants
9:16 AM Changeset [3777] by nicklas
Fixes #860: NeoPrep? need other barcode variants
8:23 AM Changeset [3776] by nicklas
Creating bugfix branch for Reggie 4.2
8:21 AM Ticket #860 (NeoPrep need other barcode variants) created by nicklas
Turned out that the NeoPrep kits ships in three different sets: i. …

Mar 7, 2016:

8:36 AM net.sf.basedb.reggie/HistoryOfReggie edited by nicklas
Added Reggie 4.2 screenshot (diff)
8:35 AM reggie-4.2.png attached to net.sf.basedb.reggie/HistoryOfReggie by nicklas
Reggie 4.2
8:28 AM Milestone Reggie v4.2 completed
See Reggie extension page for more information.
8:28 AM PluginDownload edited by nicklas
Released Reggie 4.2 (diff)
8:25 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 4.2 (diff)
8:24 AM reggie-4.2.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 4.2
8:23 AM Changeset [3775] by nicklas
Tagging Reggie 4.2
8:22 AM Changeset [3774] by nicklas
Preparing to release Reggie 4.2
8:13 AM Ticket #770 (Retraction wizard - Step 3: Destruction) closed by nicklas
fixed
8:12 AM Ticket #858 (Target volume for NeoPrep should be changed from 45 to 12.5) closed by nicklas
fixed: (In [3773]) Fixes #858: Target volume for NeoPrep? should be changed …
8:12 AM Changeset [3773] by nicklas
Fixes #858: Target volume for NeoPrep? should be changed from 45 to 12.5

Mar 4, 2016:

3:09 PM Ticket #859 (ProjectArchive should be shared with USE permission to the project) closed by nicklas
fixed: (In [3772]) Fixes #859: ProjectArchive? should be shared with USE …
3:09 PM Changeset [3772] by nicklas
Fixes #859: ProjectArchive? should be shared with USE permission to the …
2:13 PM Ticket #859 (ProjectArchive should be shared with USE permission to the project) created by nicklas
It is currently shared with READ permission only and USE permission …
2:10 PM Ticket #858 (Target volume for NeoPrep should be changed from 45 to 12.5) created by nicklas

Feb 26, 2016:

3:02 PM Changeset [3771] by nicklas
References #771: Yellow label highlighting a representative specimen …
2:02 PM Changeset [3770] by nicklas
References #771: Yellow label highlighting a representative specimen …

Feb 24, 2016:

9:30 AM Ticket #847 (Highlight YellowLabel specimen in library preparation wizards) closed by nicklas
fixed
9:29 AM Ticket #855 (Retraction follow-up and destruction wizards should make it easier to ...) closed by nicklas
fixed
9:26 AM Changeset [3769] by nicklas
References #770: Retraction wizard - Step 3: Destruction Setting …
9:18 AM Ticket #856 (Highlight YellowLabel specimen in secondary analysis wizards) closed by nicklas
fixed: (In [3768]) Fixes #856: Highlight YellowLabel? specimen in secondary …
9:18 AM Changeset [3768] by nicklas
Fixes #856: Highlight YellowLabel? specimen in secondary analysis …

Feb 23, 2016:

2:16 PM Ticket #857 (Highlight YellowLabel specimen in Flagged RNA wizard) closed by nicklas
fixed: (In [3767]) Fixes #857: Highlight YellowLabel? specimen in Flagged RNA …
2:16 PM Changeset [3767] by nicklas
Fixes #857: Highlight YellowLabel? specimen in Flagged RNA wizard
1:33 PM Ticket #857 (Highlight YellowLabel specimen in Flagged RNA wizard) created by nicklas
See #771. RNA derived from YellowLabel specimen should just be …
1:30 PM Ticket #856 (Highlight YellowLabel specimen in secondary analysis wizards) created by nicklas
See #771. The wizards in the secondary analysis should just highlight …
1:23 PM Changeset [3766] by nicklas
References #855: Retraction fullow-up and destruction wizards should …
11:45 AM Changeset [3765] by nicklas
References #855: Retraction fullow-up and destruction wizards should …

Feb 22, 2016:

12:50 PM Changeset [3764] by nicklas
References #847: Highlight YellowLabel? specimen in library preparation …
8:34 AM Ticket #853 (RNA marked for ReProcess should be auto-selected even if no RNAQC ...) closed by nicklas
fixed: (In [3763]) Fixes #853: RNA marked for ReProcess? should be …
8:34 AM Changeset [3763] by nicklas
Fixes #853: RNA marked for ReProcess? should be auto-selected even if …
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