Timeline



Oct 21, 2021:

2:27 PM Changeset [6450] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files Fixed …

Oct 20, 2021:

1:57 PM Changeset [6449] by Nicklas Nordborg
Merge Reggie 4.33.3 to the trunk.
1:53 PM Milestone Reggie v4.33.3 completed
Bug fixes and enhancements for Reggie 4.33.2. Revision Log: …
1:52 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.33.3 (diff)
1:51 PM reggie-4.33.3.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.33.3
1:50 PM Changeset [6448] by Nicklas Nordborg
Tagging Reggie 4.33.3
1:49 PM Changeset [6447] by Nicklas Nordborg
Preparing to release Reggie 4.33.3
1:48 PM Ticket #1344 (Merge changes from Reggie 4.31.1 to 4.33.3) closed by Nicklas Nordborg
fixed: In 6446: […]
1:48 PM Changeset [6446] by Nicklas Nordborg
Fixes #1344: Merge changes from Reggie 4.31.1 to 4.33.3 The changes …
1:39 PM Ticket #1344 (Merge changes from Reggie 4.31.1 to 4.33.3) created by Nicklas Nordborg
It seems like the changes made in Reggie 4.31.1 that was implemented …
11:18 AM Changeset [6445] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files …

Oct 19, 2021:

1:27 PM Changeset [6444] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files …
8:18 AM Changeset [6443] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files …

Oct 18, 2021:

12:53 PM Changeset [6442] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files …
12:53 PM Changeset [6441] by Nicklas Nordborg
References #1343: Manual genotype check of standalone VCF files …
8:56 AM Ticket #1343 (Manual genotype check of standalone VCF files) created by Nicklas Nordborg
Sometimes it would be useful to be able to take a standalone VCF file …

Oct 11, 2021:

1:47 PM Changeset [6440] by Nicklas Nordborg
Merged Reggie 4.33.2 to the trunk.
1:45 PM Milestone Reggie v4.33.2 completed
Bug fixes and enhancements for Reggie 4.33.1. Revision Log: …
1:44 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.33.2 (diff)
1:43 PM reggie-4.33.2.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.33.2
1:42 PM Changeset [6439] by Nicklas Nordborg
Tagging Reggie 4.33.2
1:42 PM Changeset [6438] by Nicklas Nordborg
Preparing to release Reggie 4.33.2
1:18 PM Ticket #1342 (NullPointerException when running "Reference date and linked cases" wizard) closed by Nicklas Nordborg
fixed: In 6437: […]
1:18 PM Changeset [6437] by Nicklas Nordborg
Fixes #1342: NullPointerException? when running "Reference date and …
12:57 PM Ticket #1342 (NullPointerException when running "Reference date and linked cases" wizard) created by Nicklas Nordborg
It stops with an error message: `Cannot invoke …

Oct 7, 2021:

11:25 AM Changeset [6436] by Nicklas Nordborg
Merge Reggie 4.33.1 to the trunk
8:33 AM Milestone Reggie v4.33.1 completed
Bug fixes and enhancements for Reggie 4.33. Revision Log: …
8:33 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.33.1 (diff)
8:32 AM reggie-4.33.1.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.33.1
8:30 AM Changeset [6435] by Nicklas Nordborg
Tagging Reggie 4.33.1
8:29 AM Changeset [6434] by Nicklas Nordborg
Preparing to release Reggie 4.33.1
8:28 AM Ticket #1340 (The legacy pipeline should have lower priority when started via ...) closed by Nicklas Nordborg
fixed
8:27 AM Ticket #1341 (Re-arrange the start page) closed by Nicklas Nordborg
fixed: In 6433: […]
8:27 AM Changeset [6433] by Nicklas Nordborg
Fixes #1341: Re-arrange the start page
8:26 AM Ticket #1341 (Re-arrange the start page) created by Nicklas Nordborg
The MIPS section is not used so I think we could hide it. The "RNA …

Oct 6, 2021:

2:24 PM Changeset [6432] by Nicklas Nordborg
References #1340: The legacy pipeline should have lower priority when …
2:06 PM Changeset [6431] by Nicklas Nordborg
References #1340: The legacy pipeline should have lower priority when …
1:37 PM Ticket #1340 (The legacy pipeline should have lower priority when started via ...) created by Nicklas Nordborg
The auto-confirmation after demux create jobs for both the legacy …
8:33 AM Ticket #1339 (ReadLengthAvg annotations are -1) closed by Nicklas Nordborg
fixed: In 6430: […]
8:33 AM Changeset [6430] by Nicklas Nordborg
Fixes #1339: ReadLengthAvg? annotations are -1 Also modified the code …

Oct 5, 2021:

1:48 PM Changeset [6429] by Nicklas Nordborg
Creating bugfix branch for Reggie 4.33
1:44 PM Ticket #1339 (ReadLengthAvg annotations are -1) created by Nicklas Nordborg
For the latest sequencing run, there is only one merged item that has …

Sep 29, 2021:

9:34 AM net.sf.basedb.reggie/notes433 edited by Nicklas Nordborg
(diff)
9:10 AM Changeset [6428] by Nicklas Nordborg
Changes for future version Reggie 4.34
9:09 AM Milestone Reggie v4.33 completed
See Reggie extension page for more information.
9:08 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Added link to update notes for Reggie 4.33 (diff)
9:08 AM net.sf.basedb.reggie/notes433 created by Nicklas Nordborg
9:06 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.33 (diff)
9:04 AM reggie-4.33.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.33
9:03 AM Changeset [6427] by Nicklas Nordborg
Tagging Reggie 4.33
9:03 AM Changeset [6426] by Nicklas Nordborg
Preparing to release Reggie 4.33
9:00 AM Ticket #1338 (Sort order in case summary) closed by Nicklas Nordborg
fixed: In 6425: […]
9:00 AM Changeset [6425] by Nicklas Nordborg
Fixes #1338: Sort order in case summary
8:59 AM Ticket #1338 (Sort order in case summary) created by Nicklas Nordborg
Items in the case summary are typically sorted by name. But this has a …

Sep 28, 2021:

9:44 AM Ticket #1335 (Calculate average read length in FASTQ files after Trimmomatic) closed by Nicklas Nordborg
fixed
9:44 AM Changeset [6424] by Nicklas Nordborg
References #1335: Calculate average read length in FASTQ files after …
8:56 AM Ticket #1337 (Bug in Tophat when --mate-inner-dist + --mate-std-dev < 0) closed by Nicklas Nordborg
fixed: In 6423: […]
8:56 AM Changeset [6423] by Nicklas Nordborg
Fixes #1337: Bug in Tophat when --mate-inner-dist + --mate-std-dev < 0
8:43 AM Ticket #1337 (Bug in Tophat when --mate-inner-dist + --mate-std-dev < 0) created by Nicklas Nordborg
This was initially thought to be a problem with an incorrect value for …
8:32 AM Ticket #1336 (Use the average read length from FASTQ files when calculating ...) closed by Nicklas Nordborg
fixed: In 6422: […]
8:32 AM Changeset [6422] by Nicklas Nordborg
Fixes #1336: Use the average read length from FASTQ files when …

Sep 23, 2021:

12:41 PM Ticket #1336 (Use the average read length from FASTQ files when calculating ...) created by Nicklas Nordborg
See #1335. If the values from the FASTQ files are available, we should …
12:39 PM Changeset [6421] by Nicklas Nordborg
References #1335: Calculate average read length in FASTQ files after …
9:07 AM Changeset [6420] by Nicklas Nordborg
References #1335: Calculate average read length in FASTQ files after …
8:02 AM Changeset [6419] by Nicklas Nordborg
References #1335: Calculate average read length in FASTQ files after …
7:42 AM Ticket #1335 (Calculate average read length in FASTQ files after Trimmomatic) created by Nicklas Nordborg
In the legacy pipeline we need the average inner distance between R1 …
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