Timeline



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 …

Apr 29, 2020:

1:44 PM Ticket #1240 (Release exporter changes due to SSP) closed by Nicklas Nordborg
fixed: In 5928: […]
1:44 PM Changeset [5928] by Nicklas Nordborg
Fixes #1240: Release exporter changes due to SSP
9:45 AM Ticket #1240 (Release exporter changes due to SSP) created by Nicklas Nordborg
The SSP analysis (#1239) will add more annotation to StringTie raw …
9:39 AM Changeset [5927] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
8:30 AM Changeset [5926] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
8:29 AM Changeset [5925] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
8:17 AM Changeset [5924] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …

Apr 27, 2020:

1:29 PM Changeset [5923] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
11:40 AM Changeset [5922] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
8:13 AM Changeset [5921] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …
7:55 AM Changeset [5920] by Nicklas Nordborg
References #1239: Include Single Sample Predictor models in the …

Apr 24, 2020:

11:07 AM Changeset [5919] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …
8:37 AM Changeset [5918] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …
8:17 AM Ticket #1239 (Include Single Sample Predictor models in the StringTie pipeline) created by Nicklas Nordborg
A plug-in for running Single Sample Predictor (SSP) models was …

Apr 23, 2020:

10:43 AM Changeset [5917] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …

Apr 22, 2020:

1:33 PM Changeset [5916] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …
9:23 AM Changeset [5915] by Nicklas Nordborg
Merge Reggie 4.26.2 to the trunk.
9:21 AM Milestone Reggie v4.26.2 completed
Bug fixes and enhancements for Reggie 4.26.1. Revision Log: …
9:19 AM reggie-4.26.2.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.26.2
9:19 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.26.2 (diff)
9:16 AM Changeset [5914] by Nicklas Nordborg
Tagging Reggie 4.26.2
9:15 AM Changeset [5913] by Nicklas Nordborg
Preparing to release Reggie 4.26.2

Apr 21, 2020:

2:41 PM Ticket #1238 (Convert variants annotations to TEXT type) closed by Nicklas Nordborg
fixed: In 5912: […]
2:41 PM Changeset [5912] by Nicklas Nordborg
Fixes #1238: Convert variants annotations to TEXT type
1:29 PM Ticket #1238 (Convert variants annotations to TEXT type) created by Nicklas Nordborg
The annotation types are currently created with STRING type (see #1229
9:37 AM Changeset [5911] by Nicklas Nordborg
References #1234: Implement batch importer for followup blood samples …
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