Timeline
Jun 2, 2014:
- 4:16 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2466]) Refs #592. Lab environment extension updated to report an …
- 4:16 PM Changeset [2466] by
- Refs #592. Lab environment extension updated to report an alarm for …
- 4:10 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design update of alarm blocking: An alarm can be reported either when …
- 1:04 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2465]) Refs #592. Lab environment extension updated for weekly …
- 1:04 PM Changeset [2465] by
- Refs #592. Lab environment extension updated for weekly and overview …
- 1:01 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design update of lab environment weekly and overview display reports: …
- 10:02 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2464]) References #547: Start Demux and Merge Do not set …
- 10:02 AM Changeset [2464] by
- References #547: Start Demux and Merge Do not set TILE_LIMIT for …
- 9:59 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2463]) Refs #592. Lab environment extension updated to support …
- 9:59 AM Changeset [2463] by
- Refs #592. Lab environment extension updated to support display of lab …
- 9:53 AM Ticket #592 (Lab environment extension improved report routines) updated by
- Design update to support display of lab environment data for a single …
May 28, 2014:
- 7:24 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2462]) Refs #592. Lab environment extension updated with a copy …
- 7:24 AM Changeset [2462] by
- Refs #592. Lab environment extension updated with a copy of the Reggie …
May 26, 2014:
- 1:41 PM Ticket #598 (Pooling wizard can't show flag and warning at the same time) closed by
- fixed: (In [2461]) Fixes #598: Pooling wizard can't show flag and warning at …
- 1:41 PM Changeset [2461] by
- Fixes #598: Pooling wizard can't show flag and warning at the same …
- 1:09 PM Ticket #598 (Pooling wizard can't show flag and warning at the same time) created by
- Libraries that get a warning due to low concentration or high adapter …
- 9:33 AM Ticket #593 (Start masking and alignment) updated by
- (In [2460]) References #593: Start masking and alignment Improved …
- 9:32 AM Changeset [2460] by
- References #593: Start masking and alignment Improved error handling …
- 9:08 AM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2459]) References #548: Register Demux and Merge as ended Exit …
- 9:08 AM Changeset [2459] by
- References #548: Register Demux and Merge as ended Exit script if the …
May 23, 2014:
- 1:44 PM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2458]) References #548: Register Demux and Merge as ended …
- 1:44 PM Changeset [2458] by
- References #548: Register Demux and Merge as ended Display failed …
- 1:21 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2457]) References #547: Start Demux and Merge Get rid of …
- 1:21 PM Changeset [2457] by
- References #547: Start Demux and Merge Get rid of problematic …
- 1:11 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2456]) References #547: Start Demux and Merge Trim whitespace …
- 1:11 PM Changeset [2456] by
- References #547: Start Demux and Merge Trim whitespace values from …
- 1:08 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2455]) References #547: Start Demux and Merge Avoid 'find' …
- 1:08 PM Changeset [2455] by
- References #547: Start Demux and Merge Avoid 'find' command to choke …
- 11:28 AM Changeset [2454] by
- Merging Reggie 2.15.2 to the trunk.
- 10:56 AM Milestone Reggie v2.15.2 completed
- Adapter peak information in library registration and pooling wizards. …
- 10:54 AM net.sf.basedb.reggie edited by
- Released Reggie 2.15.2 (diff)
- 10:53 AM Changeset [2453] by
- Tagging Reggie 2.15.2
- 10:52 AM Changeset [2452] by
- Preparing to release Reggie 2.15.2
- 10:50 AM net.sf.basedb.reggie/notes2152 created by
- Adding updated notes for Reggie 2.15.2
- 10:44 AM Ticket #596 (Import adapter peak information when registering libraries) closed by
- fixed
- 10:44 AM Ticket #597 (Display adapter peak fraction in the pooling wizard) closed by
- fixed
- 9:54 AM Ticket #597 (Display adapter peak fraction in the pooling wizard) updated by
- (In [2451]) References #597: Display adapter peak fraction in the …
- 9:54 AM Changeset [2451] by
- References #597: Display adapter peak fraction in the pooling wizard …
- 9:43 AM Ticket #597 (Display adapter peak fraction in the pooling wizard) updated by
- (In [2450]) References #597: Display adapter peak fraction in the …
- 9:43 AM Changeset [2450] by
- References #597: Display adapter peak fraction in the pooling wizard …
May 22, 2014:
- 4:05 PM Ticket #596 (Import adapter peak information when registering libraries) updated by
- (In [2449]) References #596: Import adapter peak information when …
- 4:05 PM Changeset [2449] by
- References #596: Import adapter peak information when registering …
- 2:08 PM Ticket #596 (Import adapter peak information when registering libraries) updated by
- (In [2448]) References #596: Import adapter peak information when …
- 2:08 PM Changeset [2448] by
- References #596: Import adapter peak information when registering …
- 12:59 PM Ticket #596 (Import adapter peak information when registering libraries) updated by
- (In [2447]) References #596: Import adapter peak information when …
- 12:59 PM Changeset [2447] by
- References #596: Import adapter peak information when registering …
- 12:38 PM Ticket #596 (Import adapter peak information when registering libraries) updated by
-
Status changed
- 12:34 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2446]) References #547: Start Demux and Merge Adding 'rm …
- 12:34 PM Changeset [2446] by
- References #547: Start Demux and Merge Adding 'rm <tmp-folder>' back …
- 12:31 PM Ticket #596 (Import adapter peak information when registering libraries) updated by
-
Description changed
- 12:31 PM Ticket #597 (Display adapter peak fraction in the pooling wizard) created by
- This is related to #596. The pooling wizard should display the …
- 12:00 PM Ticket #596 (Import adapter peak information when registering libraries) created by
- The library registration wizard currently import values for the …
- 11:36 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2445]) References #547: Start Demux and Merge Use 'getFile' …
- 11:36 AM Changeset [2445] by
- References #547: Start Demux and Merge Use 'getFile' instead of …
- 10:29 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2444]) Refs #592. Lab environment extension updated to hopefully …
- 10:29 AM Changeset [2444] by
- Refs #592. Lab environment extension updated to hopefully make e-mail …
- 10:27 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2443]) References #547: Start Demux and Merge Generate .gz …
- 10:27 AM Changeset [2443] by
- References #547: Start Demux and Merge Generate .gz compressed files …
- 8:48 AM Changeset [2442] by
- Check enironment variable PicardMemory for amount of memory to give to …
May 20, 2014:
- 11:43 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2441]) References #547: Start Demux and Merge * Do not start …
- 11:43 AM Changeset [2441] by
- References #547: Start Demux and Merge * Do not start multiple demux …
May 19, 2014:
- 3:37 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2440]) Refs #592. Lab environment extension updated by …
- 3:37 PM Changeset [2440] by
- Refs #592. Lab environment extension updated by associating main "Lab …
- 1:45 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2439]) Refs #592. Lab environment extension updated in JSP files …
- 1:45 PM Changeset [2439] by
- Refs #592. Lab environment extension updated in JSP files to have more …
- 1:15 PM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2438]) References #548: Register Demux and Merge as ended Remove …
- 1:15 PM Changeset [2438] by
- References #548: Register Demux and Merge as ended Remove job folder …
- 12:55 PM Ticket #548 (Register Demux and Merge as ended) updated by
- (In [2437]) References #548: Register Demux and Merge as ended …
- 12:55 PM Changeset [2437] by
- References #548: Register Demux and Merge as ended Display demux …
- 11:00 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2436]) References #547: Start Demux and Merge Do not skip last …
- 11:00 AM Changeset [2436] by
- References #547: Start Demux and Merge Do not skip last base in …
- 10:54 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2435]) References #547: Start Demux and Merge Saving …
- 10:54 AM Changeset [2435] by
- References #547: Start Demux and Merge Saving demultiplex_metrics …
- 9:11 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2434]) References #547: Start Demux and Merge Adding …
- 9:11 AM Changeset [2434] by
- References #547: Start Demux and Merge Adding PF_NNNN_PCT, …
May 16, 2014:
- 4:39 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2433]) Refs #592. Lab environment extension updated in servlet to …
- 4:39 PM Changeset [2433] by
- Refs #592. Lab environment extension updated in servlet to reduce the …
- 4:31 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2432]) Refs #592. Lab environment extension updated with first …
- 4:31 PM Changeset [2432] by
- Refs #592. Lab environment extension updated with first version of …
- 12:31 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2431]) Refs #592. Lab environment extension updated in servlet, …
- 12:31 PM Changeset [2431] by
- Refs #592. Lab environment extension updated in servlet, in order to …
- 8:12 AM Changeset [2430] by
- Switched from illumina2bam_wrapper to picard for demultiplexing. …
- 8:10 AM Ticket #547 (Start Demux and Merge) updated by
- (In [2429]) References #547: Start Demux and Merge Switched from …
- 8:10 AM Changeset [2429] by
- References #547: Start Demux and Merge Switched from …
- 7:28 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2428]) Refs #592. Lab environment extension updated in header …
- 7:28 AM Changeset [2428] by
- Refs #592. Lab environment extension updated in header title for …
May 15, 2014:
- 4:45 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2427]) Refs #592. Lab environment extension updated in layout of …
- 4:45 PM Changeset [2427] by
- Refs #592. Lab environment extension updated in layout of alarm table: …
- 12:59 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Test of alarm: * Set-up: The lab environment extension were …
- 11:30 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2426]) Refs #592. Lab environment extension updated in alarm text …
- 11:30 AM Changeset [2426] by
- Refs #592. Lab environment extension updated in alarm text layout: …
- 7:39 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2425]) Refs #592. Lab environment extension updated in alarm …
- 7:39 AM Changeset [2425] by
- Refs #592. Lab environment extension updated in alarm infra-structure …
May 14, 2014:
- 4:38 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2424]) Refs #592. Lab environment extension updated in alarm …
- 4:38 PM Changeset [2424] by
- Refs #592. Lab environment extension updated in alarm infra-structure …
- 2:23 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design update of the lab environment alarm infra-structure: 1. Alarm …
- 8:47 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2423]) Refs #592. Lab environment extension updated in header …
- 8:47 AM Changeset [2423] by
- Refs #592. Lab environment extension updated in header title for …
May 13, 2014:
- 3:40 PM Ticket #547 (Start Demux and Merge) updated by
- (In [2422]) References #547: Start Demux and Merge Export barcode …
- 3:40 PM Changeset [2422] by
- References #547: Start Demux and Merge Export barcode files needed by …
- 2:43 PM Changeset [2421] by
- Renamed the 'filtered' step to 'masked'. See …
- 2:41 PM Tickets #533,547,548,593,595 batch updated by
- (In [2420]) References #533, #547, #548, #593, #595. Renamed …
- 2:41 PM Changeset [2420] by
-
References #533, #547, #548, #593, #595. Renamed
FilteredSequences… - 2:30 PM Ticket #593 (Start masking and alignment) updated by
-
Description changed
- 2:30 PM Ticket #593 (Start masking and alignment) updated by
-
Summary changed
- 8:37 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2419]) Refs #592. Lab environment extension updated to check …
- 8:37 AM Changeset [2419] by
- Refs #592. Lab environment extension updated to check permission to …
May 12, 2014:
- 3:58 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2418]) Refs #592. Lab environment extension updated to only use a …
- 3:58 PM Changeset [2418] by
- Refs #592. Lab environment extension updated to only use a fixed …
- 8:13 AM Ticket #595 (Confirm alignment) updated by
- (In [2417]) References #595: Confirm alignment Saved files are …
- 8:13 AM Changeset [2417] by
- References #595: Confirm alignment Saved files are attached to the …
May 9, 2014:
- 3:01 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2416]) Refs #592. Lab environment extension updated in code …
- 3:01 PM Changeset [2416] by
- Refs #592. Lab environment extension updated in code formatting: 1. …
- 2:17 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2415]) Refs #592. Lab environment extension updated with lab …
- 2:17 PM Changeset [2415] by
- Refs #592. Lab environment extension updated with lab environment …
- 2:03 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design of implementation for lab environment alarm control: 1. XML …
- 1:24 PM Ticket #593 (Start masking and alignment) updated by
- (In [2414]) References #593: Start filter and alignment Removed …
- 1:24 PM Changeset [2414] by
- References #593: Start filter and alignment Removed 'filter_' prefix …
- 1:23 PM Ticket #595 (Confirm alignment) updated by
-
Status changed
- 1:23 PM Changeset [2413] by
- Remove 'filter_' prefix in the PE_filter script.
- 12:11 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design discussion for lab environment alarm control: Configuration of …
- 9:00 AM Changeset [2412] by
- Merged Reggie 2.15.1 to trunk.
- 8:19 AM Milestone Reggie v2.15.1 completed
- Bug fixes for Reggie 2.15 and changes for NextSeq support. See …
- 8:17 AM net.sf.basedb.reggie edited by
- (diff)
- 8:17 AM net.sf.basedb.reggie/notes215 edited by
- (diff)
- 8:16 AM net.sf.basedb.reggie edited by
- (diff)
- 8:14 AM net.sf.basedb.reggie/notes2151 created by
- 8:08 AM net.sf.basedb.reggie edited by
- Released Reggie 2.15.1 (diff)
- 8:06 AM Ticket #594 (Changes for NextSeq support) closed by
- fixed
- 8:05 AM Changeset [2411] by
- Tagging Reggie 2.15.1
- 8:04 AM Changeset [2410] by
- Preparing to release Reggie 2.15.1
- 8:02 AM Ticket #594 (Changes for NextSeq support) updated by
- (In [2409]) References #594: Changes for NextSeq support Hide 'B' …
- 8:02 AM Changeset [2409] by
- References #594: Changes for NextSeq support Hide 'B' position when …
May 8, 2014:
- 3:49 PM Ticket #594 (Changes for NextSeq support) updated by
- (In [2408]) References #594: Changes for NextSeq support * Added …
- 3:49 PM Changeset [2408] by
- References #594: Changes for NextSeq support * Added 'Lanes/flow …
- 2:30 PM Ticket #594 (Changes for NextSeq support) updated by
- It has also been confirmed that data output is for 4 lanes, even …
- 2:25 PM Ticket #594 (Changes for NextSeq support) updated by
-
Status changed
TheRunParameters.xmlfile from the NextSeq is not compatible with … - 10:56 AM Ticket #595 (Confirm alignment) updated by
- (In [2407]) References #595: Confirm alignment Extended the file …
- 10:56 AM Changeset [2407] by
- References #595: Confirm alignment Extended the file listing feature …
May 7, 2014:
- 12:39 PM Ticket #595 (Confirm alignment) updated by
- (In [2406]) References #595: Confirm alignment Adding a function for …
- 12:39 PM Changeset [2406] by
- References #595: Confirm alignment Adding a function for listing and …
- 8:42 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2405]) Refs #592. Lab environment extension updated in class/file …
- 8:42 AM Changeset [2405] by
- Refs #592. Lab environment extension updated in class/file …
May 6, 2014:
- 1:59 PM Ticket #595 (Confirm alignment) updated by
- (In [2404]) References #595: Confirm alignment First version of the …
- 1:59 PM Changeset [2404] by
- References #595: Confirm alignment First version of the wizard. It …
- 12:05 PM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2403]) Refs #592. Lab environment extension updated in class/file …
- 12:05 PM Changeset [2403] by
- Refs #592. Lab environment extension updated in class/file …
- 11:55 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2402]) Refs #592. Lab environment extension updated in field name …
- 11:55 AM Changeset [2402] by
- Refs #592. Lab environment extension updated in field name and help …
- 11:37 AM Ticket #595 (Confirm alignment) created by
- Confirmation is needed after the filter/alignment step. The normal …
- 11:09 AM Ticket #592 (Lab environment extension improved report routines) updated by
- (In [2401]) Refs #592. Lab environment extension updated for …
- 11:09 AM Changeset [2401] by
- Refs #592. Lab environment extension updated for displaying graphs of …
- 11:05 AM Ticket #592 (Lab environment extension improved report routines) updated by
- Design of implementation for displaying graphs of lab environment data …
May 5, 2014:
- 4:46 PM Ticket #592 (Lab environment extension improved report routines) updated by
- Design discussion for displaying graphs of lab environment data over a …
- 1:24 PM Ticket #533 (Add secondary analysis section to Reggie) updated by
- (In [2400]) References #533: Add secondary analysis section to Reggie …
- 1:24 PM Changeset [2400] by
- References #533: Add secondary analysis section to Reggie Change …
- 1:10 PM Ticket #593 (Start masking and alignment) updated by
- (In [2399]) References #593: Start filter and alignment Running …
- 1:10 PM Changeset [2399] by
- References #593: Start filter and alignment Running …
- 11:20 AM Changeset [2398] by
- Adding statistics_tophat.sh
- 9:02 AM Ticket #593 (Start masking and alignment) updated by
- (In [2397]) References #593: Start filter and alignment Now running …
- 9:02 AM Changeset [2397] by
- References #593: Start filter and alignment Now running tophat and …
- 8:59 AM Changeset [2396] by
- Adding tophat_single.sh and sync_resyltfiles.sh scrips. tophat_single …
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