Timeline


and

Sep 3, 2014:

1:42 PM Ticket #626 (NullPointerException when registering follow-up blood) closed by nicklas
fixed: (In [2634]) Fixes #626: NullPointerException?? when registering …
1:39 PM Changeset [2634] by nicklas
Fixes #636: NullPointerException? when registering follow-up blood …
1:10 PM Changeset [2633] by nicklas
References #593 and #595. Added "delete items created by failed jobs" …
9:26 AM Ticket #628 (Add right-click menu to create pools wizard) created by nicklas
Right-clicking on a well in the lib plate should display a menu with …
9:20 AM net.sf.basedb.reggie edited by nicklas
Relesed Reggie 2.16-beta-3 (diff)
9:19 AM reggie-2.16-beta-3.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.16-beta-3
9:18 AM Changeset [2632] by nicklas
Tagging Reggie 2.16-beta-3
9:17 AM Changeset [2631] by nicklas
Preparing to release Reggie 2.16-beta-3
9:02 AM Changeset [2630] by nicklas
References #593: Start masking and alignment Save aligned data from …

Sep 2, 2014:

4:08 PM Ticket #627 (Improve error visualization in wizards) closed by nicklas
fixed: (In [2629]) Fixes #627: Improve error visualization in wizards Added …
4:08 PM Changeset [2629] by nicklas
Fixes #627: Improve error visualization in wizards Added a CSS …
4:05 PM Ticket #627 (Improve error visualization in wizards) created by nicklas
Sometimes it can be a bit hard to spot the error icon next to an input …
2:12 PM Changeset [2628] by nicklas
References #547: Start Demux and Merge Display warning if the …
12:05 PM Changeset [2627] by nicklas
References #547: Start Demux and Merge Sequencing runs are sorted by …
11:43 AM Changeset [2626] by nicklas
References #547 and #593. Use the "Send message when plugin completes" …
11:39 AM Changeset [2625] by nicklas
References #593: Start masking and alignment Add -f flag to 'mv' …
11:01 AM Changeset [2624] by nicklas
References #571: Update Reggie to new scripting pattern Bad tag in …
11:01 AM Changeset [2623] by nicklas
References #571: Update Reggie to new scripting pattern Changes to …
11:00 AM Changeset [2622] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
9:17 AM Ticket #626 (NullPointerException when registering follow-up blood) created by nicklas
This seems to happing if a CASE is linked to at least two SPECIMENT or …

Sep 1, 2014:

3:52 PM Changeset [2621] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
2:55 PM Changeset [2620] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
1:57 PM Changeset [2619] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
1:45 PM Changeset [2618] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
12:43 PM Changeset [2617] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
12:42 PM Changeset [2616] by nicklas
References #571: Update Reggie to new scripting pattern Found a bug …
8:06 AM Changeset [2615] by nicklas
References #571: Update Reggie to new scripting pattern Found some …

Aug 29, 2014:

3:36 PM Ticket #625 (Prevent registration of patients with identical data) closed by nicklas
fixed: (In [2614]) Fixes #625: Prevent registration of patients with …
3:36 PM Changeset [2614] by nicklas
Fixes #625: Prevent registration of patients with identical data When …
2:15 PM Changeset [2613] by nicklas
References #625: Prevent registration of patients with identical data …
12:20 PM Ticket #625 (Prevent registration of patients with identical data) created by nicklas
The scenario is that two different users are registering patient …
11:34 AM Changeset [2612] by nicklas
References #571: Update Reggie to new scripting pattern Fixed the …
11:01 AM Changeset [2611] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …

Aug 28, 2014:

4:02 PM Changeset [2610] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
3:29 PM Changeset [2609] by nicklas
References #571: Update Reggie to new scripting pattern New file part …
3:29 PM Changeset [2608] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
8:40 AM Ticket #624 (Improve performance of the "Missing data" export wizard) closed by nicklas
fixed: (In [2607]) Fixes #624: Improve performance of the "Missing data" …
8:40 AM Changeset [2607] by nicklas
Fixes #624: Improve performance of the "Missing data" export wizard

Aug 27, 2014:

3:48 PM Ticket #624 (Improve performance of the "Missing data" export wizard) created by nicklas
Similar to #623, but a bit more complicated since it checks data at …
3:29 PM Changeset [2606] by nicklas
References #623: Improve performance of the "Missing consent" export …
3:27 PM Ticket #623 (Improve performance of the "Missing consent" export wizard) closed by nicklas
fixed: (In [2605]) Fixes #623: Improve performance of the "Missing consent" …
3:27 PM Changeset [2605] by nicklas
Fixes #623: Improve performance of the "Missing consent" export wizard
2:58 PM Ticket #623 (Improve performance of the "Missing consent" export wizard) created by nicklas
This takes a very long time. The main reason seems to be that the …
2:56 PM Changeset [2604] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
2:17 PM Changeset [2603] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
12:47 PM Changeset [2602] by nicklas
References #571: Update Reggie to new scripting pattern Updated the …
11:37 AM Ticket #622 (Updating a blood sample for a case with follow-up blood samples fails) closed by nicklas
fixed: (In [2601]) Fixes #622: Updating a blood sample for a case with …
11:37 AM Changeset [2601] by nicklas
Fixes #622: Updating a blood sample for a case with follow-up blood …
11:30 AM Ticket #622 (Updating a blood sample for a case with follow-up blood samples fails) created by nicklas
After entering the case number the wizard display the following error …

Aug 26, 2014:

2:19 PM Ticket #621 (Second specimen tube is not linked if registered before pathology referral) closed by nicklas
fixed: (In [2600]) Fixes #621: Second specimen tube is not linked if …
2:19 PM Changeset [2600] by nicklas
Fixes #621: Second specimen tube is not linked if registered before …
1:58 PM Ticket #621 (Second specimen tube is not linked if registered before pathology referral) created by nicklas
This may be a rather exotic case: 1. Register a core-biopsy specimen …

Aug 25, 2014:

12:28 PM Changeset [2599] by nicklas
References #571: Update Reggie to new scripting pattern Started to …

Aug 22, 2014:

11:23 AM Ticket #620 (Tell browsers not to cache AJAX response data) closed by nicklas
fixed: (In [2598]) Fixes #620: Tell browsers not to cache AJAX response data
11:23 AM Changeset [2598] by nicklas
Fixes #620: Tell browsers not to cache AJAX response data
11:22 AM Ticket #620 (Tell browsers not to cache AJAX response data) created by nicklas
Not usually a problem with Firefox, but in case someone tries to use …

Aug 20, 2014:

9:23 AM net.sf.basedb.reggie edited by nicklas
Revoked Reggie 2.16-beta-2 (diff)
9:22 AM reggie-2.16-beta-2.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.16-beta-2
9:21 AM Changeset [2597] by nicklas
Tagging Reggie 2.16-beta-2
9:21 AM Changeset [2596] by nicklas
Preparing to release Reggie 2.16-beta-2
9:18 AM Changeset [2595] by nicklas
References #578: Move to BASE 3.3 Remove stuff not needed anymore. …

Aug 19, 2014:

2:29 PM Ticket #618 (Specimen tube item is registered with incorrect name) closed by nicklas
fixed: (In [2594]) Fixes #618: Specimen tube item is registered with …
2:29 PM Changeset [2594] by nicklas
Fixes #618: Specimen tube item is registered with incorrect name Set …
2:03 PM net.sf.basedb.reggie edited by nicklas
Revoked Reggie 2.16-beta-1 (diff)
2:01 PM Ticket #618 (Specimen tube item is registered with incorrect name) reopened by nicklas
The fix made actually made things worse than it was before... The …
11:22 AM Changeset [2593] by nicklas
Resetting debug flags.
11:18 AM Ticket #619 (Switching between cases will not always work) closed by nicklas
fixed: (In [2592]) Fixes #619: Switching between cases will not always work …
11:18 AM Changeset [2592] by nicklas
Fixes #619: Switching between cases will not always work Before using …
10:47 AM Ticket #619 (Switching between cases will not always work) created by nicklas
Consider a patient with multiple specimen with different case-ids that …
9:49 AM net.sf.basedb.reggie/notes216 edited by nicklas
Changing Picard link (diff)
8:32 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 2.16-beta-1 (diff)
8:30 AM reggie-2.16-beta-1.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.16-beta-1
8:30 AM Changeset [2591] by nicklas
Tagging Reggie 2.16-beta-1
8:28 AM Changeset [2590] by nicklas
Preparing to release Reggie 2.16-beta-1

Aug 18, 2014:

2:52 PM Ticket #614 (Improve error handling when executing jobs on the cluster) closed by nicklas
fixed
2:48 PM Ticket #595 (Confirm alignment) closed by nicklas
fixed
2:48 PM Ticket #593 (Start masking and alignment) closed by nicklas
fixed
2:48 PM Ticket #548 (Register Demux and Merge as ended) closed by nicklas
fixed
2:47 PM Ticket #547 (Start Demux and Merge) closed by nicklas
fixed
2:46 PM Ticket #533 (Add secondary analysis section to Reggie) closed by nicklas
fixed
2:44 PM Ticket #578 (Move to BASE 3.3) closed by nicklas
fixed
2:43 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) closed by nicklas
fixed
1:55 PM Milestone FTP Server v1.4 completed
For more information see the [wiki:net.sf.basedb.ftp FTP Server …
1:53 PM PluginDownload edited by nicklas
Released Ftp server 1.4 (diff)
1:52 PM net.sf.basedb.ftp edited by nicklas
Released Ftp server 1.4 (diff)
1:51 PM base-ftpserver-1.4.tar.gz attached to net.sf.basedb.ftp by nicklas
BASE FTP Server Extension 1.4
1:50 PM Changeset [2589] by nicklas
Preparing for future relase of FTP server 1.5
1:50 PM Changeset [2588] by nicklas
Tagging FTP server 1.4
1:49 PM Changeset [2587] by nicklas
Preparing to release FTP server 1.4
1:47 PM Milestone External files support 1.1 completed
An extension package containing support for additional protocols to …
1:47 PM PluginDownload edited by nicklas
Released Xfiles 1.1 (diff)
1:46 PM xfiles-1.1.tar.gz attached to net.sf.basedb.xfiles by nicklas
Xfiles 1.1
1:45 PM net.sf.basedb.xfiles edited by nicklas
Released Xfiles 1.1 (diff)
1:44 PM Changeset [2586] by nicklas
Preparing for future relase of Xfiles 1.2
1:43 PM Changeset [2585] by nicklas
Tagging Xfiles 1.1
1:43 PM Changeset [2584] by nicklas
Preparing to release Xfiles 1.1
11:30 AM Ticket #617 (Re-use server connections within a transaction) closed by nicklas
fixed
11:11 AM Changeset [2583] by nicklas
References #617: Re-use server connections within a transaction Fixes …
11:09 AM net.sf.basedb.reggie/notes216 edited by nicklas
More update notes for Reggie 2.16 (diff)

Aug 15, 2014:

2:56 PM Changeset [2582] by nicklas
References #547 and #593. Use temp folder provided by the grid …
1:19 PM Changeset [2581] by nicklas
References #547: Start Demux and Merge Use different number of tiles …
9:38 AM Changeset [2580] by nicklas
References #593: Start masking and alignment Use temporary filter in …
9:36 AM Changeset [2579] by nicklas
References #547: Start Demux and Merge Use temporary filter in …
9:34 AM Changeset [2578] by nicklas
References #595: Confirm alignment Linkf generated files with the …
8:02 AM Changeset [2577] by nicklas
References #548: Register Demux and Merge as ended To avoid too many …

Aug 14, 2014:

3:48 PM Ticket #618 (Specimen tube item is registered with incorrect name) closed by nicklas
fixed: (In [2576]) Fixes #618: Specimen tube item is registered with …
3:48 PM Changeset [2576] by nicklas
Fixes #618: Specimen tube item is registered with incorrect name
3:45 PM Ticket #618 (Specimen tube item is registered with incorrect name) created by nicklas
In rare cases a specimen tube can be named incorrectly: 1. Register …
1:29 PM Changeset [2575] by nicklas
References #595: Confirm alignment Do not need to open 2 DbControl:s.
9:41 AM Changeset [2574] by nicklas
References #595: Confirm alignment Better progress reporting during …
8:54 AM Changeset [2573] by nicklas
References #595: Confirm alignment Changes related to [2566] due to …

Aug 13, 2014:

3:51 PM Changeset [2572] by nicklas
References #617: Re-use server connections within a transaction …
11:31 AM Changeset [2571] by nicklas
References #617: Re-use server connections within a transaction …

Aug 12, 2014:

8:33 AM Ticket #617 (Re-use server connections within a transaction) created by nicklas
The current implementation opens a new connection for each remote file …

Aug 11, 2014:

2:43 PM Changeset [2570] by nicklas
References #548: Register Demux and Merge as ended Register FASTQ …
2:36 PM Ticket #616 (External files with a file server can't be downloaded) closed by nicklas
fixed: (In [2569]) Fixes #616: External files with a file server can't be …
2:36 PM Changeset [2569] by nicklas
Fixes #616: External files with a file server can't be downloaded
2:17 PM Ticket #616 (External files with a file server can't be downloaded) created by nicklas
There is a bug in the FTP server when trying to download an external …
10:55 AM Changeset [2568] by nicklas
References #593: Start masking and alignment Changes related to …
10:48 AM Changeset [2567] by nicklas
Removing scripts that are no longer used by reggie.
10:34 AM Changeset [2566] by nicklas
References #547: Start Demux and Merge Specify project name in the …
8:36 AM Changeset [2565] by nicklas
References #533: Add secondary analysis section to Reggie Installing …

Aug 8, 2014:

12:51 PM Changeset [2564] by nicklas
References #533: Add secondary analysis section to Reggie Forgot this …
11:58 AM Changeset [2563] by nicklas
References #533: Add secondary analysis section to Reggie Use …
8:01 AM Changeset [2562] by nicklas
References #533: Add secondary analysis section to Reggie Installing …

Aug 7, 2014:

3:33 PM Changeset [2561] by nicklas
References #548: Register Demux and Merge as ended checkMd5 …

Aug 6, 2014:

2:11 PM Changeset [2560] by nicklas
References #547 and #593. Do not use more threads than the number of …
12:55 PM Changeset [2559] by nicklas
References #614: Improve error handling when executing jobs on the …
12:50 PM Changeset [2558] by nicklas
Forgot to execute the last samtools command

Aug 5, 2014:

3:59 PM Changeset [2557] by nicklas
Added 'alignment_statisics.sh' which replaces the …
3:58 PM Changeset [2556] by nicklas
References #614: Improve error handling when executing jobs on the …
2:39 PM Changeset [2555] by nicklas
References #614: Improve error handling when executing jobs on the …
11:19 AM Changeset [2554] by nicklas
References #614: Improve error handling when executing jobs on the …
9:39 AM Changeset [2553] by nicklas
References #614: Improve error handling when executing jobs on the …
8:12 AM Changeset [2552] by nicklas
References #614: Improve error handling when executing jobs on the …
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