Timeline



Jun 3, 2020:

9:19 AM Changeset [5962] by Nicklas Nordborg
Merge Reggie 4.27.1 to the trunk
9:14 AM Milestone Reggie v4.27.1 completed
Bug fixes and enhancements for Reggie 4.27. Revision Log: …
9:14 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.27.1 (diff)
9:12 AM reggie-4.27.1.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.27.1
9:11 AM Changeset [5961] by Nicklas Nordborg
Tagging Reggie 4.27.1
9:10 AM Changeset [5960] by Nicklas Nordborg
Preparing to release Reggie 4.27.1
9:03 AM Changeset [5959] by Nicklas Nordborg
References #1251: Add a mode to SSP plugin that run models for all …
8:49 AM Changeset [5958] by Nicklas Nordborg
References #1251: Add a mode to SSP plugin that run models for all …

Jun 2, 2020:

2:48 PM Ticket #1251 (Add a mode to SSP plugin that run models for all rawbioassays with no value) closed by Nicklas Nordborg
fixed
2:47 PM Ticket #1250 (The installation wizard should check/install annotation types needed ...) closed by Nicklas Nordborg
fixed
1:46 PM Changeset [5957] by Nicklas Nordborg
References #1250: The installation wizard should check/install …
8:28 AM Changeset [5956] by Nicklas Nordborg
References #1251: Add a mode to SSP plugin that run models for all …
8:22 AM Ticket #1251 (Add a mode to SSP plugin that run models for all rawbioassays with no value) created by Nicklas Nordborg
This would be useful if a new SSP model is added later. Then a single …

Jun 1, 2020:

8:26 AM Changeset [5955] by Nicklas Nordborg
References #1250: The installation wizard should check/install …
8:18 AM Ticket #1250 (The installation wizard should check/install annotation types needed ...) created by Nicklas Nordborg
Almost all information that we need is possible to get automatically. …

May 28, 2020:

10:45 AM Ticket #1249 (The temporary item list for importing variant call annotations is no ...) closed by Nicklas Nordborg
fixed: In 5954: […]
10:45 AM Changeset [5954] by Nicklas Nordborg
Fixes #1249: The temporary item list for importing variant call …
10:34 AM Ticket #1249 (The temporary item list for importing variant call annotations is no ...) created by Nicklas Nordborg
See #1229. Once the list has been processed it is marked with …
8:45 AM Ticket #1248 (Translations for SSP plug-in should be configured in reggie-config.xml) closed by Nicklas Nordborg
fixed: In 5953: […]
8:45 AM Changeset [5953] by Nicklas Nordborg
Fixes #1248: Translations for SSP plug-in should be configured in …
8:44 AM Ticket #1248 (Translations for SSP plug-in should be configured in reggie-config.xml) created by Nicklas Nordborg
It would be nice if the translations could be configured instead of …

May 27, 2020:

2:17 PM Ticket #1247 (Add more translations to SSP plug-in) closed by Nicklas Nordborg
fixed: In 5952: […]
2:17 PM Changeset [5952] by Nicklas Nordborg
Fixes #1247: Add more translations to SSP plug-in
12:52 PM Ticket #1247 (Add more translations to SSP plug-in) created by Nicklas Nordborg
A new set of SSP models require the following translations: * Hog -> …
11:51 AM Ticket #1246 (Race condition when displaying progress message) closed by Nicklas Nordborg
fixed: In 5951: […]
11:51 AM Changeset [5951] by Nicklas Nordborg
Fixes #1246: Race condition when displaying progress message The …
10:20 AM Changeset [5950] by Nicklas Nordborg
Creating bugfix branch for Reggie 4.27
8:25 AM Ticket #1246 (Race condition when displaying progress message) created by Nicklas Nordborg
There is a possible race condition in all(?) wizards that use progress …

May 20, 2020:

11:29 AM net.sf.basedb.reggie/notes427 edited by Jari Häkkinen
Fixed typos (diff)
10:29 AM Changeset [5949] by Nicklas Nordborg
Changes for future release Reggie 4.28
10:26 AM Milestone Reggie v4.27 completed
See Reggie extension page for more information.
10:26 AM PluginDownload edited by Nicklas Nordborg
Released Reggie 4.27 (diff)
10:25 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.27 (diff)
10:22 AM reggie-4.27.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.27
10:19 AM Changeset [5948] by Nicklas Nordborg
Tagging Reggie 4.27
10:18 AM Changeset [5947] by Nicklas Nordborg
Preparing to release Reggie 4.27
9:58 AM Changeset [5946] by Nicklas Nordborg
Remove unused imports.
9:41 AM Changeset [5945] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
9:30 AM Changeset [5944] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …

May 19, 2020:

1:50 PM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
(diff)

May 18, 2020:

11:51 AM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
(diff)
11:50 AM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
Added instructions for installing SSP scripts and models (diff)
9:04 AM Changeset [5943] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
9:04 AM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
Added instructions for running SSP models for existing raw bioassays (diff)
8:55 AM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
Added instructions for adding SSP models to reggie-config.xml (diff)
8:48 AM net.sf.basedb.reggie/notes427 edited by Nicklas Nordborg
Added instructions for importing SSP annotation types (diff)
8:44 AM ssp_annotationtypes.xlsx attached to net.sf.basedb.reggie/notes427 by Nicklas Nordborg
Annotation type definitions for SSP models
8:42 AM net.sf.basedb.reggie/notes427 created by Nicklas Nordborg
Started to write update instructions for Reggie 4.27
8:34 AM Ticket #1239 (Include Single Sample Predictor models in the StringTie pipeline) closed by Nicklas Nordborg
fixed
8:33 AM Changeset [5942] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
8:15 AM Changeset [5941] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …

May 16, 2020:

5:36 PM Changeset [5940] by olle
Refs #1029. Updates due to version number change to "1.6.0-dev". …
4:59 PM Changeset [5939] by olle
Refs #1029. Updates due to version number change to "1.6.0b9". 1. …
4:50 PM Changeset [5938] by olle
Refs #1029. Referral form generation updated in generation of referral …

May 15, 2020:

11:38 AM Changeset [5937] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …

May 14, 2020:

1:20 PM Ticket #1245 (Picard demux should output compressed fastq files) closed by Nicklas Nordborg
fixed: In 5936: […]
1:20 PM Changeset [5936] by Nicklas Nordborg
Fixes #1245: Picard demux should output compressed fastq files
9:02 AM Ticket #1245 (Picard demux should output compressed fastq files) created by Nicklas Nordborg
Demuxing the new NovaSeq sequencing runs with the S1 flow cell that …

May 8, 2020:

2:45 PM Ticket #1243 (Improve status checking for NovaSeq) closed by Nicklas Nordborg
fixed: In 5935: […]
2:45 PM Changeset [5935] by Nicklas Nordborg
Fixes #1243: Improve status checking for NovaSeq? The new values from …
1:56 PM Changeset [5934] by Nicklas Nordborg
References #1243: Improve status checking for NovaSeq? Updated the …
1:52 PM Ticket #1244 (Improve highlightning of modified positions when re-extrating existing ...) closed by Nicklas Nordborg
fixed: In 5933: […]
1:52 PM Changeset [5933] by Nicklas Nordborg
Fixes #1244: Improve highlightning of modified positions when …
1:09 PM Ticket #1244 (Improve highlightning of modified positions when re-extrating existing ...) created by Nicklas Nordborg
The "Partition wizard" got support for re-extracting existing specimen …
9:21 AM Ticket #1242 (The Register external sequencing wizard should not auto-select the 4 ...) closed by Nicklas Nordborg
fixed: In 5932: […]
9:21 AM Changeset [5932] by Nicklas Nordborg
Fixes #1242: The Register external sequencing wizard should not …
8:59 AM Ticket #1243 (Improve status checking for NovaSeq) created by Nicklas Nordborg
This is related to #1242. The novaseq_status.sh script doesn't …
8:49 AM Ticket #1242 (The Register external sequencing wizard should not auto-select the 4 ...) created by Nicklas Nordborg
The assumption that a 4-lane flow cell is used when more than 32 …

May 6, 2020:

1:25 PM Ticket #1234 (Implement batch importer for followup blood samples) closed by Nicklas Nordborg
fixed
1:25 PM Changeset [5931] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …
9:43 AM Ticket #1241 (Some folders for external samples are not changed to the specified group) closed by Nicklas Nordborg
fixed: In 5930: […]
9:43 AM Changeset [5930] by Nicklas Nordborg
Fixes #1241: Some folders for external samples are not changed to the …

May 5, 2020:

1:24 PM Changeset [5929] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
9:45 AM Ticket #1241 (Some folders for external samples are not changed to the specified group) created by Nicklas Nordborg
The possibility to set a specific group on files and folders created …
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