Timeline
Sep 3, 2014:
- 1:42 PM Ticket #626 (NullPointerException when registering follow-up blood) closed by
- fixed: (In [2634]) Fixes #626: NullPointerException? when registering …
- 1:39 PM Changeset [2634] by
- Fixes #636: NullPointerException when registering follow-up blood …
- 1:10 PM Tickets #593,595 batch updated by
- (In [2633]) References #593 and #595. Added "delete items created by …
- 1:10 PM Changeset [2633] by
- 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
- Right-clicking on a well in the lib plate should display a menu with …
- 9:20 AM net.sf.basedb.reggie edited by
- Relesed Reggie 2.16-beta-3 (diff)
- 9:18 AM Changeset [2632] by
- Tagging Reggie 2.16-beta-3
- 9:17 AM Changeset [2631] by
- Preparing to release Reggie 2.16-beta-3
- 9:02 AM Ticket #593 (Start masking and alignment) updated by
- (In [2630]) References #593: Start masking and alignment Save aligned …
- 9:02 AM Changeset [2630] by
- 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
- fixed: (In [2629]) Fixes #627: Improve error visualization in wizards Added …
- 4:08 PM Changeset [2629] by
- Fixes #627: Improve error visualization in wizards Added a CSS …
- 4:05 PM Ticket #627 (Improve error visualization in wizards) created by
- Sometimes it can be a bit hard to spot the error icon next to an input …
- 2:12 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2628]) References #547: Start Demux and Merge Display warning if …
- 2:12 PM Changeset [2628] by
- References #547: Start Demux and Merge Display warning if the …
- 12:05 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2627]) References #547: Start Demux and Merge Sequencing runs …
- 12:05 PM Changeset [2627] by
- References #547: Start Demux and Merge Sequencing runs are sorted by …
- 11:43 AM Tickets #547,593 batch updated by
- (In [2626]) References #547 and #593. Use the "Send message when …
- 11:43 AM Changeset [2626] by
- References #547 and #593. Use the "Send message when plugin completes" …
- 11:39 AM Ticket #593 (Start masking and alignment) updated by
- (In [2625]) References #593: Start masking and alignment Add -f flag …
- 11:39 AM Changeset [2625] by
- References #593: Start masking and alignment Add -f flag to 'mv' …
- 11:01 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2624]) References #571: Update Reggie to new scripting pattern …
- 11:01 AM Changeset [2624] by
- References #571: Update Reggie to new scripting pattern Bad tag in …
- 11:01 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2623]) References #571: Update Reggie to new scripting pattern …
- 11:01 AM Changeset [2623] by
- References #571: Update Reggie to new scripting pattern Changes to …
- 11:00 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2622]) References #571: Update Reggie to new scripting pattern …
- 11:00 AM Changeset [2622] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 9:17 AM Ticket #626 (NullPointerException when registering follow-up blood) created by
- This seems to happing if a CASE is linked to at least two SPECIMENT or …
Sep 1, 2014:
- 3:52 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2621]) References #571: Update Reggie to new scripting pattern …
- 3:52 PM Changeset [2621] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 2:55 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2620]) References #571: Update Reggie to new scripting pattern …
- 2:55 PM Changeset [2620] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 1:57 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2619]) References #571: Update Reggie to new scripting pattern …
- 1:57 PM Changeset [2619] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 1:45 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2618]) References #571: Update Reggie to new scripting pattern …
- 1:45 PM Changeset [2618] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 12:43 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2617]) References #571: Update Reggie to new scripting pattern …
- 12:43 PM Changeset [2617] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 12:42 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2616]) References #571: Update Reggie to new scripting pattern …
- 12:42 PM Changeset [2616] by
- References #571: Update Reggie to new scripting pattern Found a bug …
- 8:06 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2615]) References #571: Update Reggie to new scripting pattern …
- 8:06 AM Changeset [2615] by
- 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
- fixed: (In [2614]) Fixes #625: Prevent registration of patients with …
- 3:36 PM Changeset [2614] by
- Fixes #625: Prevent registration of patients with identical data When …
- 2:15 PM Ticket #625 (Prevent registration of patients with identical data) updated by
- (In [2613]) References #625: Prevent registration of patients with …
- 2:15 PM Changeset [2613] by
- References #625: Prevent registration of patients with identical data …
- 12:20 PM Ticket #625 (Prevent registration of patients with identical data) created by
- The scenario is that two different users are registering patient …
- 11:34 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2612]) References #571: Update Reggie to new scripting pattern …
- 11:34 AM Changeset [2612] by
- References #571: Update Reggie to new scripting pattern Fixed the …
- 11:01 AM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2611]) References #571: Update Reggie to new scripting pattern …
- 11:01 AM Changeset [2611] by
- References #571: Update Reggie to new scripting pattern Updated the …
Aug 28, 2014:
- 4:02 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2610]) References #571: Update Reggie to new scripting pattern …
- 4:02 PM Changeset [2610] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 3:29 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2609]) References #571: Update Reggie to new scripting pattern …
- 3:29 PM Changeset [2609] by
- References #571: Update Reggie to new scripting pattern New file part …
- 3:29 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2608]) References #571: Update Reggie to new scripting pattern …
- 3:29 PM Changeset [2608] by
- 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
- fixed: (In [2607]) Fixes #624: Improve performance of the "Missing data" …
- 8:40 AM Changeset [2607] by
- 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
- Similar to #623, but a bit more complicated since it checks data at …
- 3:29 PM Ticket #623 (Improve performance of the "Missing consent" export wizard) updated by
- (In [2606]) References #623: Improve performance of the "Missing …
- 3:29 PM Changeset [2606] by
- References #623: Improve performance of the "Missing consent" export …
- 3:27 PM Ticket #623 (Improve performance of the "Missing consent" export wizard) closed by
- fixed: (In [2605]) Fixes #623: Improve performance of the "Missing consent" …
- 3:27 PM Changeset [2605] by
- 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
- This takes a very long time. The main reason seems to be that the …
- 2:56 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2604]) References #571: Update Reggie to new scripting pattern …
- 2:56 PM Changeset [2604] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 2:17 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2603]) References #571: Update Reggie to new scripting pattern …
- 2:17 PM Changeset [2603] by
- References #571: Update Reggie to new scripting pattern Updated the …
- 12:47 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2602]) References #571: Update Reggie to new scripting pattern …
- 12:47 PM Changeset [2602] by
- 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
- fixed: (In [2601]) Fixes #622: Updating a blood sample for a case with …
- 11:37 AM Changeset [2601] by
- 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) updated by
-
Description changed
- 11:30 AM Ticket #622 (Updating a blood sample for a case with follow-up blood samples fails) created by
- 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) updated by
-
Milestone changed
- 2:19 PM Ticket #621 (Second specimen tube is not linked if registered before pathology referral) closed by
- fixed: (In [2600]) Fixes #621: Second specimen tube is not linked if …
- 2:19 PM Changeset [2600] by
- 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
- This may be a rather exotic case: 1. Register a core-biopsy specimen …
Aug 25, 2014:
- 12:28 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) updated by
- (In [2599]) References #571: Update Reggie to new scripting pattern …
- 12:28 PM Changeset [2599] by
- 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
- fixed: (In [2598]) Fixes #620: Tell browsers not to cache AJAX response data
- 11:23 AM Changeset [2598] by
- 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
- 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
- Revoked Reggie 2.16-beta-2 (diff)
- 9:21 AM Changeset [2597] by
- Tagging Reggie 2.16-beta-2
- 9:21 AM Changeset [2596] by
- Preparing to release Reggie 2.16-beta-2
- 9:18 AM Ticket #578 (Move to BASE 3.3) updated by
- (In [2595]) References #578: Move to BASE 3.3 Remove stuff not needed …
- 9:18 AM Changeset [2595] by
- 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
- fixed: (In [2594]) Fixes #618: Specimen tube item is registered with …
- 2:29 PM Changeset [2594] by
- Fixes #618: Specimen tube item is registered with incorrect name Set …
- 2:03 PM net.sf.basedb.reggie edited by
- Revoked Reggie 2.16-beta-1 (diff)
- 2:01 PM Ticket #618 (Specimen tube item is registered with incorrect name) reopened by
- The fix made actually made things worse than it was before... The …
- 11:22 AM Changeset [2593] by
- Resetting debug flags.
- 11:18 AM Ticket #619 (Switching between cases will not always work) closed by
- fixed: (In [2592]) Fixes #619: Switching between cases will not always work …
- 11:18 AM Changeset [2592] by
- Fixes #619: Switching between cases will not always work Before using …
- 10:50 AM Ticket #619 (Switching between cases will not always work) updated by
- After investigating this it seems like #534 which introduced support …
- 10:47 AM Ticket #619 (Switching between cases will not always work) created by
- Consider a patient with multiple specimen with different case-ids that …
- 9:49 AM net.sf.basedb.reggie/notes216 edited by
- Changing Picard link (diff)
- 8:32 AM net.sf.basedb.reggie edited by
- Released Reggie 2.16-beta-1 (diff)
- 8:30 AM Changeset [2591] by
- Tagging Reggie 2.16-beta-1
- 8:28 AM Changeset [2590] by
- 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
- fixed
- 2:48 PM Ticket #595 (Confirm alignment) closed by
- fixed
- 2:48 PM Ticket #593 (Start masking and alignment) closed by
- fixed
- 2:48 PM Ticket #548 (Register Demux and Merge as ended) closed by
- fixed
- 2:47 PM Ticket #547 (Start Demux and Merge) closed by
- fixed
- 2:46 PM Ticket #533 (Add secondary analysis section to Reggie) closed by
- fixed
- 2:46 PM Ticket #533 (Add secondary analysis section to Reggie) updated by
-
Description changed
- 2:44 PM Ticket #578 (Move to BASE 3.3) closed by
- fixed
- 2:43 PM Ticket #571 (Update Reggie to new scripting pattern (first step)) closed by
- 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
- Released Ftp server 1.4 (diff)
- 1:52 PM net.sf.basedb.ftp edited by
- Released Ftp server 1.4 (diff)
- 1:50 PM Changeset [2589] by
- Preparing for future relase of FTP server 1.5
- 1:50 PM Changeset [2588] by
- Tagging FTP server 1.4
- 1:49 PM Changeset [2587] by
- 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
- Released Xfiles 1.1 (diff)
- 1:45 PM net.sf.basedb.xfiles edited by
- Released Xfiles 1.1 (diff)
- 1:44 PM Changeset [2586] by
- Preparing for future relase of Xfiles 1.2
- 1:43 PM Changeset [2585] by
- Tagging Xfiles 1.1
- 1:43 PM Changeset [2584] by
- Preparing to release Xfiles 1.1
- 11:30 AM Ticket #617 (Re-use server connections within a transaction) closed by
- fixed
- 11:11 AM Ticket #617 (Re-use server connections within a transaction) updated by
- (In [2583]) References #617: Re-use server connections within a …
- 11:11 AM Changeset [2583] by
- References #617: Re-use server connections within a transaction Fixes …
- 11:09 AM net.sf.basedb.reggie/notes216 edited by
- More update notes for Reggie 2.16 (diff)
Aug 15, 2014:
- 2:56 PM Tickets #547,593 batch updated by
- (In [2582]) References #547 and #593. Use temp folder provided by the …
- 2:56 PM Changeset [2582] by
- References #547 and #593. Use temp folder provided by the grid …
- 1:19 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2581]) References #547: Start Demux and Merge Use different …
- 1:19 PM Changeset [2581] by
- References #547: Start Demux and Merge Use different number of tiles …
- 9:38 AM Ticket #593 (Start masking and alignment) updated by
- (In [2580]) References #593: Start masking and alignment Use …
- 9:38 AM Changeset [2580] by
- References #593: Start masking and alignment Use temporary filter in …
- 9:36 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2579]) References #547: Start Demux and Merge Use temporary …
- 9:36 AM Changeset [2579] by
- References #547: Start Demux and Merge Use temporary filter in …
- 9:34 AM Ticket #595 (Confirm alignment) updated by
- (In [2578]) References #595: Confirm alignment Linkf generated files …
- 9:34 AM Changeset [2578] by
- References #595: Confirm alignment Linkf generated files with the …
- 8:02 AM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2577]) References #548: Register Demux and Merge as ended To …
- 8:02 AM Changeset [2577] by
- 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
- fixed: (In [2576]) Fixes #618: Specimen tube item is registered with …
- 3:48 PM Changeset [2576] by
- Fixes #618: Specimen tube item is registered with incorrect name
- 3:47 PM Ticket #618 (Specimen tube item is registered with incorrect name) updated by
-
Summary changed
- 3:45 PM Ticket #618 (Specimen tube item is registered with incorrect name) created by
- In rare cases a specimen tube can be named incorrectly: 1. Register …
- 1:29 PM Ticket #595 (Confirm alignment) updated by
- (In [2575]) References #595: Confirm alignment Do not need to open 2 …
- 1:29 PM Changeset [2575] by
- References #595: Confirm alignment Do not need to open 2 DbControl:s.
- 9:41 AM Ticket #595 (Confirm alignment) updated by
- (In [2574]) References #595: Confirm alignment Better progress …
- 9:41 AM Changeset [2574] by
- References #595: Confirm alignment Better progress reporting during …
- 8:54 AM Ticket #595 (Confirm alignment) updated by
- (In [2573]) References #595: Confirm alignment Changes related to …
- 8:54 AM Changeset [2573] by
- References #595: Confirm alignment Changes related to [2566] due to …
Aug 13, 2014:
- 3:51 PM Ticket #617 (Re-use server connections within a transaction) updated by
- (In [2572]) References #617: Re-use server connections within a …
- 3:51 PM Changeset [2572] by
- References #617: Re-use server connections within a transaction …
- 11:31 AM Ticket #617 (Re-use server connections within a transaction) updated by
- (In [2571]) References #617: Re-use server connections within a …
- 11:31 AM Changeset [2571] by
- References #617: Re-use server connections within a transaction …
- 11:02 AM Ticket #617 (Re-use server connections within a transaction) updated by
- This turned out to be a bit more complicated than expected. The idea …
Aug 12, 2014:
- 8:33 AM Ticket #617 (Re-use server connections within a transaction) created by
- The current implementation opens a new connection for each remote file …
Aug 11, 2014:
- 2:43 PM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2570]) References #548: Register Demux and Merge as ended …
- 2:43 PM Changeset [2570] by
- 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
- fixed: (In [2569]) Fixes #616: External files with a file server can't be …
- 2:36 PM Changeset [2569] by
- 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
- There is a bug in the FTP server when trying to download an external …
- 10:55 AM Ticket #593 (Start masking and alignment) updated by
- (In [2568]) References #593: Start masking and alignment Changes …
- 10:55 AM Changeset [2568] by
- References #593: Start masking and alignment Changes related to …
- 10:48 AM Changeset [2567] by
- Removing scripts that are no longer used by reggie.
- 10:34 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2566]) References #547: Start Demux and Merge Specify project …
- 10:34 AM Changeset [2566] by
- References #547: Start Demux and Merge Specify project name in the …
- 8:36 AM Ticket #533 (Add secondary analysis section to Reggie) updated by
- (In [2565]) References #533: Add secondary analysis section to Reggie …
- 8:36 AM Changeset [2565] by
- References #533: Add secondary analysis section to Reggie Installing …
Aug 8, 2014:
- 12:51 PM Ticket #533 (Add secondary analysis section to Reggie) updated by
- (In [2564]) References #533: Add secondary analysis section to Reggie …
- 12:51 PM Changeset [2564] by
- References #533: Add secondary analysis section to Reggie Forgot this …
- 11:58 AM Ticket #533 (Add secondary analysis section to Reggie) updated by
- (In [2563]) References #533: Add secondary analysis section to Reggie …
- 11:58 AM Changeset [2563] by
- References #533: Add secondary analysis section to Reggie Use …
- 8:01 AM Ticket #533 (Add secondary analysis section to Reggie) updated by
- (In [2562]) References #533: Add secondary analysis section to Reggie …
- 8:01 AM Changeset [2562] by
- References #533: Add secondary analysis section to Reggie Installing …
Aug 7, 2014:
- 3:33 PM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2561]) References #548: Register Demux and Merge as ended …
- 3:33 PM Changeset [2561] by
- References #548: Register Demux and Merge as ended checkMd5 …
Aug 6, 2014:
- 2:11 PM Tickets #547,593 batch updated by
- (In [2560]) References #547 and #593. Do not use more threads than the …
- 2:11 PM Changeset [2560] by
- References #547 and #593. Do not use more threads than the number of …
- 12:55 PM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2559]) References #614: Improve error handling when executing …
- 12:55 PM Changeset [2559] by
- References #614: Improve error handling when executing jobs on the …
- 12:50 PM Changeset [2558] by
- Forgot to execute the last samtools command
Aug 5, 2014:
- 3:59 PM Changeset [2557] by
- Added 'alignment_statisics.sh' which replaces the …
- 3:58 PM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2556]) References #614: Improve error handling when executing …
- 3:58 PM Changeset [2556] by
- References #614: Improve error handling when executing jobs on the …
- 2:52 PM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- samtools Seems like only error messages go to stderr and exit …
- 2:39 PM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2555]) References #614: Improve error handling when executing …
- 2:39 PM Changeset [2555] by
- References #614: Improve error handling when executing jobs on the …
- 11:19 AM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2554]) References #614: Improve error handling when executing …
- 11:19 AM Changeset [2554] by
- References #614: Improve error handling when executing jobs on the …
- 9:39 AM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2553]) References #614: Improve error handling when executing …
- 9:39 AM Changeset [2553] by
- References #614: Improve error handling when executing jobs on the …
- 8:52 AM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- tophat All interesting output is going to files in a folder …
- 8:12 AM Ticket #614 (Improve error handling when executing jobs on the cluster) updated by
- (In [2552]) References #614: Improve error handling when executing …
- 8:12 AM Changeset [2552] by
- References #614: Improve error handling when executing jobs on the …
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