Timeline



Jun 25, 2019: Today

9:39 AM Ticket #1159 (Release exporter changes due to MIPs pipeline) created by Nicklas Nordborg
The first task is to make sure that existing items in the RNA-seq …
9:28 AM Tickets #1130,​1135,​1136,​1137,​1138,​1142 batch updated by Nicklas Nordborg
fixed
9:25 AM Ticket #1145 (Location of data for external RNA) closed by Nicklas Nordborg
fixed
9:25 AM Ticket #1129 (DNA pre-normalization) closed by Nicklas Nordborg
fixed
9:24 AM Ticket #1133 (Re-organize the Reggie front page) closed by Nicklas Nordborg
fixed
9:05 AM Changeset [5526] by Nicklas Nordborg
References #1130, #1135, #1142, #1146. Fixing and getting rid of some …
7:54 AM Changeset [5525] by Nicklas Nordborg
References #1154: Switch to Java 11 and BASE 3.15 Added information …

Jun 24, 2019: Yesterday

2:38 PM Ticket #1158 (FASTQ files for external samples should not have the prefix in their names) closed by Nicklas Nordborg
fixed: In 5524: […]
2:38 PM Changeset [5524] by Nicklas Nordborg
Fixes #1158: FASTQ files for external samples should not have the …
11:39 AM Ticket #1158 (FASTQ files for external samples should not have the prefix in their names) created by Nicklas Nordborg
External samples typically have a prefix followed by and underscore …
11:27 AM Changeset [5523] by Nicklas Nordborg
References #1145: Location of data for external RNA The code for …
9:29 AM Changeset [5522] by Nicklas Nordborg
References #1157: Case summary changes due to MIPs pipeline Added …

Jun 20, 2019:

1:37 PM Ticket #1157 (Case summary changes due to MIPs pipeline) created by Nicklas Nordborg
The case summary will happily load all items from the MIPs pipeline …
1:25 PM Changeset [5521] by Nicklas Nordborg
References #1136: MIPs plate lab protocol Added support for pool colors.
12:35 PM Changeset [5520] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Added support for pool colors.
11:36 AM Changeset [5519] by Nicklas Nordborg
References #1130: Import wizard for MIPs aliquot plates Added more …
8:44 AM Changeset [5518] by Nicklas Nordborg
References #1130: Import wizard for MIPs aliquot plates Implemented …

Jun 19, 2019:

3:44 PM Changeset [5517] by Nicklas Nordborg
References #1156: Switch to Java 11 and BASE 3.15 Update Http client. …
2:31 PM Changeset [5516] by Nicklas Nordborg
References #1156: Switch to Java 11 and BASE 3.15 Update JavaMail?.
2:28 PM Changeset [5515] by Nicklas Nordborg
References #1156: Switch to Java 11 and BASE 3.15 Updated Hibernate …
2:19 PM Changeset [5514] by Nicklas Nordborg
References #1156: Switch to Java 11 and BASE 3.15 Updated JSONsimple, …
2:11 PM Changeset [5513] by Nicklas Nordborg
References #1156: Switch to Java 11 and BASE 3.15 Update BASE and …
1:50 PM Ticket #1156 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg
See #1147. This also implies updating the other dependencies that have …
1:37 PM Ticket #1155 (Map external data to releases should encrypt the temporary file) closed by Nicklas Nordborg
fixed: In 5512: […]
1:37 PM Changeset [5512] by Nicklas Nordborg
Fixes #1155: Map external data to releases should encrypt the …
1:08 PM Ticket #1123 (Map external data to releases should not include case or specimen ...) closed by Nicklas Nordborg
fixed: In 5511: […]
1:08 PM Changeset [5511] by Nicklas Nordborg
Fixes #1123: Map external data to releases should not include case or …
10:51 AM Ticket #1155 (Map external data to releases should encrypt the temporary file) created by Nicklas Nordborg
It is the same functionality that was implemented in Reggie ticket #1121.

Jun 18, 2019:

3:21 PM Changeset [5510] by Nicklas Nordborg
References #1126: Cohort exporter should support exporting to Excel …
12:48 PM Changeset [5509] by Nicklas Nordborg
References #1126: Cohort exporter should support exporting to Excel …
12:45 PM Changeset [5508] by Nicklas Nordborg
References #1126: Cohort exporter should support exporting to Excel …
8:52 AM Ticket #1154 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed: In 5507: […]
8:52 AM Changeset [5507] by Nicklas Nordborg
Fixes #1154: Switch to Java 11 and BASE 3.15 Worked fine with just …
8:40 AM Ticket #1118 (Switch to JSON.simple 1.1.1-1) closed by Nicklas Nordborg
fixed: In 5506: […]
8:40 AM Changeset [5506] by Nicklas Nordborg
Fixes #1118: Switch to JSON.simple 1.1.1-1
8:01 AM Ticket #1154 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg
See #1147.

Jun 17, 2019:

2:49 PM net.sf.basedb.opengrid edited by Nicklas Nordborg
Added entry for future release Opengrid extension 1.3 (diff)
2:48 PM Ticket #1152 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed: In 5505: […]
2:48 PM Changeset [5505] by Nicklas Nordborg
Fixes #1152: Switch to Java 11 and BASE 3.15 Worked fine with just …
2:42 PM Ticket #1117 (Switch to JSON.simple 1.1.1-1) closed by Nicklas Nordborg
fixed: In 5504: […]
2:42 PM Changeset [5504] by Nicklas Nordborg
Fixes #1117: Switch to JSON.simple 1.1.1-1
2:39 PM Ticket #1153 (Update SSH library) closed by Nicklas Nordborg
fixed: In 5503: […]
2:39 PM Changeset [5503] by Nicklas Nordborg
Fixes #1153: Update SSH library Updated to version 0.27.0
2:35 PM Ticket #1153 (Update SSH library) created by Nicklas Nordborg
The latest version is 0.27: …
2:34 PM Ticket #1152 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg
See #1147
2:31 PM net.sf.basedb.xfiles edited by Nicklas Nordborg
Added entry for future release X-files 1.5 (diff)
2:30 PM Ticket #1150 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed: In 5502: […]
2:30 PM Changeset [5502] by Nicklas Nordborg
Fixes #1150: Switch to Java 11 and BASE 3.15 Worked fine with just …
2:25 PM Ticket #1151 (Update SSH library) closed by Nicklas Nordborg
fixed: In 5501: […]
2:25 PM Changeset [5501] by Nicklas Nordborg
Fixes #1151: Update SSH library The new version is no 0.27.0.
2:17 PM Ticket #1151 (Update SSH library) created by Nicklas Nordborg
The latest version is 0.27: …
2:16 PM Ticket #1150 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg
See #1147.
1:39 PM net.sf.basedb.yubikey edited by Nicklas Nordborg
Added entry for future release Yubikey login 1.6 (diff)
1:37 PM Ticket #1148 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed: In 5500: […]
1:37 PM Changeset [5500] by Nicklas Nordborg
Fixes #1148: Switch to Java 11 and BASE 3.15 Worked fine with just …
1:36 PM Changeset [5499] by Nicklas Nordborg
References #1149: Update Yubico client API The class path must also …
1:25 PM Ticket #1149 (Update Yubico client API) closed by Nicklas Nordborg
fixed: In 5498: […]
1:25 PM Changeset [5498] by Nicklas Nordborg
Fixes #1149: Update Yubico client API
1:21 PM Ticket #1149 (Update Yubico client API) created by Nicklas Nordborg
The latest version is 3.0.5 which claims to have some fixes for Java …
1:12 PM Ticket #1116 (Switch to JSON.simple 1.1.1-1) closed by Nicklas Nordborg
fixed: In 5497: […]
1:12 PM Changeset [5497] by Nicklas Nordborg
Fixes #1116: Switch to JSON.simple 1.1.1-1
1:09 PM Ticket #1148 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg
See #1147.
1:08 PM net.sf.basedb.otp edited by Nicklas Nordborg
Added entry for future release OTP login 1.3 (diff)
1:06 PM Ticket #1147 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed: In 5496: […]
1:06 PM Changeset [5496] by Nicklas Nordborg
Fixes #1147: Switch to Java 11 and BASE 3.15 Worked fine with just …
12:40 PM Ticket #1147 (Switch to Java 11 and BASE 3.15) created by Nicklas Nordborg

Jun 14, 2019:

8:24 AM Changeset [5495] by Nicklas Nordborg
References #1130: Import wizard for MIPs aliquot plates Added a check …
7:45 AM Changeset [5494] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline The demux auto-confirm …

Jun 13, 2019:

2:16 PM Changeset [5493] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Added a wizard for …
1:41 PM Changeset [5492] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Re-factored a lot of …
8:49 AM Changeset [5491] by Nicklas Nordborg
References #1146 and #1142. Auto-confirmation of a MIPs sequencing …
8:18 AM Changeset [5490] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Implemented job …

Jun 12, 2019:

4:02 PM Changeset [5489] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Added a second …
2:18 PM Changeset [5488] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start/end/confirm …
1:44 PM Changeset [5487] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Implemented parts of …
9:59 AM Changeset [5486] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Started to prepare for …
8:34 AM Changeset [5485] by Nicklas Nordborg
References #1146 and #1142. Added role MIPsSecondayAnalysis.

Jun 11, 2019:

4:19 PM Changeset [5484] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start/end/confirm …
3:35 PM Changeset [5483] by Nicklas Nordborg
References #1130, #1135, #1136. Synchronized some missing styles and …
1:14 PM Changeset [5482] by Nicklas Nordborg
References #1129: DNA pre-normalization Pre-normalized DNA plates …
1:07 PM Changeset [5481] by Nicklas Nordborg
References #1130, #1135, #1136. Introduced soft line-breaks in sample …

Jun 10, 2019:

2:49 PM Changeset [5480] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Added "Pipeline" …
2:32 PM Changeset [5479] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline The existing demux …
1:01 PM Ticket #1146 (Demux for the MIPs pipeline) created by Nicklas Nordborg
This is probably similar to the RNAseq demux in some sense, but …
12:59 PM Changeset [5478] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start/end/confirm …
10:44 AM Changeset [5477] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start/end/confirm …
9:50 AM Changeset [5476] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Updated …

Jun 5, 2019:

4:21 PM Ticket #1144 (Line numbers in the INCA report files seems to be data lines and not ...) closed by Nicklas Nordborg
fixed
4:21 PM Changeset [5475] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing The …
4:14 PM Changeset [5474] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Added a …
2:07 PM Changeset [5473] by Nicklas Nordborg
References #1138: MIPs pooling Register any-to-any links from pools …
1:26 PM Changeset [5472] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Counters …
1:11 PM Changeset [5471] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Manual …
10:44 AM Ticket #1145 (Location of data for external RNA) created by Nicklas Nordborg
The code that generates a folder location from an item name doesn't …
8:28 AM Changeset [5470] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing …

Jun 4, 2019:

3:44 PM Changeset [5469] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Added …
2:52 PM Changeset [5468] by olle
Refs #1029. Updates of BASE method calls due to update of BASE version …
2:51 PM Ticket #1143 (INCA import fails if the last column is empty in one or more rows) closed by Nicklas Nordborg
fixed: In 5467: […]
2:51 PM Changeset [5467] by Nicklas Nordborg
Fixes #1143: INCA import fails if the last column is empty in one or …
2:46 PM Changeset [5466] by Nicklas Nordborg
2:35 PM Ticket #1144 (Line numbers in the INCA report files seems to be data lines and not ...) created by Nicklas Nordborg
They differ with 1 from the actual line number in the file.
2:33 PM Ticket #1143 (INCA import fails if the last column is empty in one or more rows) created by Nicklas Nordborg
In the report for excluded lines there is a message that some rows has …
2:31 PM Changeset [5465] by olle
Refs #1029. Updates due to update of BASE version to "3.15.0". 1. …
2:28 PM Changeset [5464] by Nicklas Nordborg
References #1130: Import wizard for MIPs aliquot plates The importer …

Jun 3, 2019:

12:56 PM Changeset [5463] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Remove …
12:55 PM Changeset [5462] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing …
11:05 AM Changeset [5461] by Nicklas Nordborg
References #1130: Import wizard for MIPs aliquot plates Changed the …
9:22 AM Changeset [5460] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Added a MIPS pool row to …

May 29, 2019:

4:05 PM Changeset [5459] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Added a "preview" of the …
1:41 PM Changeset [5458] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Added a special dialog for …
8:10 AM Changeset [5457] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Set …
8:00 AM Changeset [5456] by Nicklas Nordborg
References #1129: DNA pre-normalization Added a separate counter on …

May 28, 2019:

4:11 PM Changeset [5455] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Fixed a problem with empty …
3:44 PM Changeset [5454] by Nicklas Nordborg
References #1135: Design MIPs plate wizard Fixed problems with …
12:47 PM Changeset [5453] by Nicklas Nordborg
References #1142: Create MIPs flow cell and start sequencing Added …
7:54 AM Changeset [5452] by Nicklas Nordborg
References #1138: MIPs pooling Only display pooling protocols of the …

May 27, 2019:

3:09 PM Changeset [5451] by Nicklas Nordborg
References #1136: MIPs plate lab protocol Updated the lab protocols …
12:50 PM Changeset [5450] by Nicklas Nordborg
References #1136 and #1137. Added some date and operator annotations …
11:32 AM Changeset [5449] by Nicklas Nordborg
References #1129: DNA pre-normalization Enabled the MIPS_Pool
9:19 AM Changeset [5448] by Nicklas Nordborg
Note: See TracTimeline for information about the timeline view.