Timeline



May 24, 2023:

1:16 PM Ticket #1488 (Auto-import JSON files) created by Nicklas Nordborg
The flow of JSON files is working pretty well at the moment. It should …
1:14 PM Ticket #1483 (Add support for using the WGS blood items in the Genotype QC wizard) updated by Nicklas Nordborg
Milestone changed
1:14 PM Ticket #1487 (Implement a new Genotype QC wizard for validating WGS data) created by Nicklas Nordborg
This is related to #1483. But before the WGS data can be used in the …
7:27 AM Milestone Reggie v4.47 completed
See Reggie extension page for more information.
7:27 AM Changeset [7198] by Nicklas Nordborg
Changes for future release Reggie 4.48
7:25 AM PluginDownload edited by Nicklas Nordborg
Released Reggie 4.47 (diff)
7:25 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.47 (diff)
7:23 AM reggie-4.47.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.47
7:18 AM Changeset [7197] by Nicklas Nordborg
Tagging Reggie 4.47
7:17 AM Changeset [7196] by Nicklas Nordborg
Preparing to release Reggie 4.47
7:15 AM Tickets #1478,​1479,​1480,​1481,​1482 batch updated by Nicklas Nordborg
fixed
7:13 AM Ticket #1482 (Registration wizard for moving tubes between a transport box and a ...) updated by Nicklas Nordborg
In 7195: […]
7:13 AM Changeset [7195] by Nicklas Nordborg
References #1482: Registration wizard for moving tubes between a …

May 23, 2023:

2:14 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7194: […]
2:14 PM Changeset [7194] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
1:19 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7193: […]
1:19 PM Changeset [7193] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
1:17 PM Ticket #1481 (Lab protocol for moving samples between transport and storage boxes) updated by Nicklas Nordborg
In 7192: […]
1:17 PM Changeset [7192] by Nicklas Nordborg
References #1481: Lab protocol for moving samples between transport …
9:56 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7191: […]
9:56 AM Changeset [7191] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
7:48 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7190: […]
7:48 AM Changeset [7190] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 22, 2023:

2:57 PM Ticket #1481 (Lab protocol for moving samples between transport and storage boxes) updated by Nicklas Nordborg
In 7189: […]
2:57 PM Changeset [7189] by Nicklas Nordborg
References #1481: Lab protocol for moving samples between transport …
2:53 PM Ticket #1479 (Add support for creating storage boxes for externally process samples) updated by Nicklas Nordborg
In 7188: […]
2:53 PM Changeset [7188] by Nicklas Nordborg
References #1479: Add support for creating storage boxes for …
1:38 PM Tickets #1481,​1482 batch updated by Nicklas Nordborg
In 7187: […]
1:38 PM Changeset [7187] by Nicklas Nordborg
References #1481 and #1482. Use MoveDate as a filter when selecting …
1:34 PM Changeset [7186] by Nicklas Nordborg
References #1482: Registration wizard for moving tubes between a …
9:54 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7185: […]
9:54 AM Changeset [7185] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:10 AM Ticket #1482 (Registration wizard for moving tubes between a transport box and a ...) updated by Nicklas Nordborg
In 7184: […]
9:10 AM Changeset [7184] by Nicklas Nordborg
References #1482: Registration wizard for moving tubes between a …

May 17, 2023:

2:21 PM Changeset [7183] by Nicklas Nordborg
Merge Reggie 4.46.1 to the trunk
2:18 PM Milestone Reggie v4.46.1 completed
Bug fixes and enhancements for Reggie 4.46. Revision Log: …
2:17 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.46.1 (diff)
2:16 PM reggie-4.46.1.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.46.1
2:15 PM Changeset [7182] by Nicklas Nordborg
Tagging Reggie 4.46.1
2:14 PM Changeset [7181] by Nicklas Nordborg
Preparing to release Reggie 4.46.1
2:13 PM Ticket #1486 (Add an option to run the older bwa-mem instead of bwa-mem2) updated by Nicklas Nordborg
In 7180: […]
2:13 PM Changeset [7180] by Nicklas Nordborg
References #1486: Add an option to run the older bwa-mem instead of …
2:10 PM Ticket #1486 (Add an option to run the older bwa-mem instead of bwa-mem2) closed by Nicklas Nordborg
fixed
1:54 PM Ticket #1486 (Add an option to run the older bwa-mem instead of bwa-mem2) updated by Nicklas Nordborg
In 7179: […]
1:54 PM Changeset [7179] by Nicklas Nordborg
References #1486: Add an option to run the older bwa-mem instead of …
1:43 PM Ticket #1486 (Add an option to run the older bwa-mem instead of bwa-mem2) updated by Nicklas Nordborg
In 7178: […]
1:43 PM Changeset [7178] by Nicklas Nordborg
References #1486: Add an option to run the older bwa-mem instead of …
10:50 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7177: […]
10:50 AM Changeset [7177] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:48 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7176: […]
9:48 AM Changeset [7176] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:00 AM Ticket #1481 (Lab protocol for moving samples between transport and storage boxes) updated by Nicklas Nordborg
In 7175: […]
9:00 AM Changeset [7175] by Nicklas Nordborg
References #1481: Lab protocol for moving samples between transport …
8:26 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7174: […]
8:26 AM Changeset [7174] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
7:45 AM Changeset [7173] by Nicklas Nordborg
References #1481: Lab protocol for moving samples between transport …

May 16, 2023:

2:58 PM Ticket #1405 (Get rid of code using the window.event object) updated by Nicklas Nordborg
In 7172: […]
2:58 PM Changeset [7172] by Nicklas Nordborg
References #1405: Add a link to view the JSON file for specimen that …

May 15, 2023:

8:38 AM Changeset [7171] by Nicklas Nordborg
8:36 AM Ticket #1481 (Lab protocol for moving samples between transport and storage boxes) updated by Nicklas Nordborg
Summary changed
7:43 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7170: […]
7:43 AM Changeset [7170] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 12, 2023:

1:19 PM Changeset [7169] by Nicklas Nordborg
Creating bugfix branch for Reggie 4.46
1:06 PM bwa-mem2_crash.zip attached to Ticket #1486 by Nicklas Nordborg
R1 and R2 with 250 read pairs that causes bwa-mem2 to fail
1:03 PM Ticket #1486 (Add an option to run the older bwa-mem instead of bwa-mem2) created by Nicklas Nordborg
There are some issues with bwa-mem2 that causes it to crash. It is …
11:32 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7168: […]
11:32 AM Changeset [7168] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:59 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7167: […]
9:59 AM Changeset [7167] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:46 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7166: […]
9:46 AM Changeset [7166] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:12 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7165: […]
9:12 AM Changeset [7165] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
8:51 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7164: […]
8:51 AM Changeset [7164] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
8:33 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7163: […]
8:33 AM Changeset [7163] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
8:29 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7162: […]
8:29 AM Changeset [7162] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 11, 2023:

2:43 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7161: […]
2:43 PM Changeset [7161] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:32 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7160: […]
9:32 AM Changeset [7160] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:01 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7159: […]
9:01 AM Changeset [7159] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 10, 2023:

1:27 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7158: […]
1:27 PM Changeset [7158] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
7:58 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7157: […]
7:58 AM Changeset [7157] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
7:46 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7156: […]
7:46 AM Changeset [7156] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
7:39 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7155: […]
7:39 AM Changeset [7155] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 9, 2023:

9:00 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7154: […]
9:00 AM Changeset [7154] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
8:56 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7153: […]
8:56 AM Changeset [7153] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
8:54 AM Ticket #1484 (Add support for searching on the ExternalRef annotation in the Case summary) updated by Nicklas Nordborg
In 7152: […]
8:54 AM Changeset [7152] by Nicklas Nordborg
References #1484: Add support for searching on the ExternalRef
8:49 AM Ticket #1485 (Add a link to view the JSON file for specimen that has been imported ...) closed by Nicklas Nordborg
fixed: In 7151: […]
8:49 AM Changeset [7151] by Nicklas Nordborg
Fixes #1485: Add a link to view the JSON file for specimen that has …
8:37 AM Ticket #1485 (Add a link to view the JSON file for specimen that has been imported ...) created by Nicklas Nordborg
8:15 AM Ticket #1484 (Add support for searching on the ExternalRef annotation in the Case summary) closed by Nicklas Nordborg
fixed: In 7150: […]
8:15 AM Changeset [7150] by Nicklas Nordborg
Fixes #1484: Add support for searching on the ExternalRef annotation …
7:35 AM Ticket #1484 (Add support for searching on the ExternalRef annotation in the Case summary) created by Nicklas Nordborg

May 8, 2023:

4:40 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7149: […]
4:40 PM Changeset [7149] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
4:40 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7148: […]
4:40 PM Changeset [7148] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
2:21 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7147: […]
2:21 PM Changeset [7147] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
2:19 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7146: […]
2:19 PM Changeset [7146] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 5, 2023:

3:04 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7145: […]
3:03 PM Changeset [7145] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
12:49 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7144: […]
12:49 PM Changeset [7144] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …
9:19 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7143: […]
9:19 AM Changeset [7143] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 4, 2023:

1:31 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7142: […]
1:31 PM Changeset [7142] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

May 2, 2023:

11:48 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7141: […]
11:48 AM Changeset [7141] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

Apr 28, 2023:

9:47 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7140: […]
9:47 AM Changeset [7140] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

Apr 27, 2023:

2:16 PM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
In 7139: […]
2:16 PM Changeset [7139] by Nicklas Nordborg
References #1480: Create import wizard for transfer of external …

Apr 26, 2023:

1:07 PM Ticket #1479 (Add support for creating storage boxes for externally process samples) updated by Nicklas Nordborg
In 7138: […]
1:07 PM Changeset [7138] by Nicklas Nordborg
References #1479: Add support for creating storage boxes for …

Apr 25, 2023:

8:49 AM Ticket #1483 (Add support for using the WGS blood items in the Genotype QC wizard) created by Nicklas Nordborg
When we have verified that genotype QC results from the WGS blood …
8:45 AM Ticket #1478 (Implement wizards for registration of samples transfered from an ...) updated by Nicklas Nordborg
Description changed
8:45 AM Ticket #1482 (Registration wizard for moving tubes between a transport box and a ...) created by Nicklas Nordborg
See also #1478 and #1481. This wizard should register the result of …
8:41 AM Ticket #1481 (Lab protocol for moving samples between transport and storage boxes) created by Nicklas Nordborg
See also #1478 and #1480. We will have item lists that represents a …
8:02 AM Ticket #1478 (Implement wizards for registration of samples transfered from an ...) updated by Nicklas Nordborg
Description changed
8:02 AM Ticket #1480 (Create import wizard for transfer of external samples) updated by Nicklas Nordborg
Description changed
8:01 AM Ticket #1480 (Create import wizard for transfer of external samples) created by Nicklas Nordborg
See also #1478. We will get information about transfered samples from …
7:48 AM Ticket #1479 (Add support for creating storage boxes for externally process samples) created by Nicklas Nordborg
See #1478. The existing storage box creation wizard should be …

Apr 24, 2023:

2:57 PM Ticket #1478 (Implement wizards for registration of samples transfered from an ...) created by Nicklas Nordborg
Material in the for of Specimen, Lysate, RNA, DNA and FlowThrough is …
12:47 PM Changeset [7137] by Nicklas Nordborg
Changes for future release Reggie 4.47
12:46 PM Milestone Reggie v4.46 completed
See Reggie extension page for more information.
12:45 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.46 (diff)
12:43 PM reggie-4.46.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.46
12:42 PM Ticket #1473 (Implement alignment for the DNA WGS pipeline) closed by Nicklas Nordborg
fixed
12:41 PM Changeset [7136] by Nicklas Nordborg
Tagging Reggie 4.46
12:41 PM Changeset [7135] by Nicklas Nordborg
Preparing to release Reggie 4.46
9:51 AM Ticket #1473 (Implement alignment for the DNA WGS pipeline) updated by Nicklas Nordborg
In 7134: […]
9:51 AM Changeset [7134] by Nicklas Nordborg
References #1473: Implement alignment for the DNA WGS pipeline Do not …
9:37 AM Ticket #1473 (Implement alignment for the DNA WGS pipeline) updated by Nicklas Nordborg
In 7133: […]
9:37 AM Changeset [7133] by Nicklas Nordborg
References #1473: Implement alignment for the DNA WGS pipeline …
9:36 AM Ticket #1473 (Implement alignment for the DNA WGS pipeline) updated by Nicklas Nordborg
In 7132: […]
9:36 AM Changeset [7132] by Nicklas Nordborg
References #1473: Implement alignment for the DNA WGS pipeline Added …
9:34 AM Ticket #1473 (Implement alignment for the DNA WGS pipeline) updated by Nicklas Nordborg
In 7131: […]
9:34 AM Changeset [7131] by Nicklas Nordborg
References #1473: Implement alignment for the DNA WGS pipeline Added …
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