Timeline



Aug 29, 2019:

1:52 PM Changeset [5586] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Changes the MIPs demux …

Aug 26, 2019:

2:19 PM Changeset [5585] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Allow barcode names to …
2:16 PM Changeset [5584] by Nicklas Nordborg
References #1161: Update picard to 2.20 If we set the …

Aug 21, 2019:

2:44 PM Ticket #1173 (Link a single <host> entry to more than one OpenGrid cluster) closed by Nicklas Nordborg
fixed: In 5583: […]
2:44 PM Changeset [5583] by Nicklas Nordborg
Fixes #1173: Link a single <host> entry to more than one OpenGrid? cluster
1:44 PM Ticket #1173 (Link a single <host> entry to more than one OpenGrid cluster) created by Nicklas Nordborg
In reggie-config.xml a <host> entry is linked to an OpenGrid …
1:04 PM Changeset [5582] by Nicklas Nordborg
References #1146 and #1142. Changed the MIPsSecondaryAnalysis role …
9:07 AM Changeset [5581] by Nicklas Nordborg
References #1172: The message in the "Secondary analysis cleanup" …

Aug 20, 2019:

2:44 PM Ticket #1172 (The message in the "Secondary analysis cleanup" wizard is confusing) created by Nicklas Nordborg
When entering the "Secondary analysis cleanup" wizard it will make a …
9:48 AM Changeset [5580] by Nicklas Nordborg
References #1132: Implement an "Activity log" Added name of pipeline …
9:22 AM Ticket #1171 (Hisat alignment stops without error if the genotype VCF file can't be ...) closed by Nicklas Nordborg
fixed: In 5579: […]
9:22 AM Changeset [5579] by Nicklas Nordborg
Fixes #1171: Hisat alignment stops without error if the genotype VCF …

Aug 19, 2019:

3:16 PM Ticket #1171 (Hisat alignment stops without error if the genotype VCF file can't be ...) created by Nicklas Nordborg
After a Hisat alignment job has been completed some of the data files …

Aug 16, 2019:

11:39 AM Ticket #1170 (The private-key file of a file-server is ignored in the installation ...) closed by Nicklas Nordborg
fixed: In 5578: […]
11:39 AM Changeset [5578] by Nicklas Nordborg
Fixes #1170: The private-key file of a file-server is ignored in the …
11:38 AM Ticket #1169 (The private-key file of a file-server is ignored in the installation ...) closed by Nicklas Nordborg
fixed: In 5577: […]
11:38 AM Changeset [5577] by Nicklas Nordborg
Fixes #1169: The private-key file of a file-server is ignored in the …
9:54 AM Ticket #1170 (The private-key file of a file-server is ignored in the installation ...) created by Nicklas Nordborg
Same as #1169.
9:04 AM Ticket #1169 (The private-key file of a file-server is ignored in the installation ...) created by Nicklas Nordborg
A file-server item in BASE can be configured in various ways. The …
8:25 AM Changeset [5576] by Nicklas Nordborg
References #1159: Release exporter changes due to MIPs pipeline …

Aug 15, 2019:

11:19 AM WikiStart edited by Jari Häkkinen
(diff)
9:22 AM Changeset [5575] by Nicklas Nordborg
Preparing for future release Relax 1.6
9:21 AM Milestone Relax v1.5 completed
See Relax extension page for more information.
9:19 AM PluginDownload edited by Nicklas Nordborg
Released Relax 1.5 (diff)
9:18 AM net.sf.basedb.relax edited by Nicklas Nordborg
Released Relax 1.5 (diff)
9:17 AM relax-1.5.tar.gz attached to net.sf.basedb.relax by Nicklas Nordborg
Relax 1.5
9:14 AM Changeset [5574] by Nicklas Nordborg
Tagging Relax 1.5
9:14 AM Changeset [5573] by Nicklas Nordborg
Preparing to release Relax 1.5
8:21 AM Changeset [5572] by Nicklas Nordborg
Preparing for future release LabEnv? 1.8
8:19 AM PluginDownload edited by Nicklas Nordborg
Released LabEnv? 1.7 (diff)
8:18 AM net.sf.basedb.labenv edited by Nicklas Nordborg
Released LabEnv? 1.7 (diff)
8:17 AM labenv-1.7.tar.gz attached to net.sf.basedb.labenv by Nicklas Nordborg
LabEnv? 1.7
8:14 AM Changeset [5571] by Nicklas Nordborg
Tagging LabEnv? 1.7
8:14 AM Changeset [5570] by Nicklas Nordborg
Preparing to release LabEnv? 1.7
8:10 AM Ticket #1156 (Switch to Java 11 and BASE 3.15) closed by Nicklas Nordborg
fixed
8:03 AM Changeset [5569] by Nicklas Nordborg
Preparing for future release YubiKey? 1.7
8:01 AM Milestone YubiKey v1.6 completed
See YubiKey authentication extension for …
8:01 AM PluginDownload edited by Nicklas Nordborg
Released YubiKey? 1.6 (diff)
8:00 AM net.sf.basedb.yubikey edited by Nicklas Nordborg
Released YubiKey? 1.6 (diff)
7:58 AM yubikey-1.6.tar.gz attached to net.sf.basedb.yubikey by Nicklas Nordborg
YubiKey? 1.6
7:56 AM Changeset [5568] by Nicklas Nordborg
Tagging YubiKey? 1.6
7:55 AM Changeset [5567] by Nicklas Nordborg
Preparing to release YubiKey? 1.6

Aug 14, 2019:

2:46 PM Changeset [5566] by Nicklas Nordborg
Preparing for future release Open Grid Scheduler extension 1.4
2:44 PM Milestone Open Grid Scheduler service v1.3 completed
See the [wiki:net.sf.basedb.opengrid Open Grid Scheduler extension …
2:42 PM PluginDownload edited by Nicklas Nordborg
Released Open Grid Scheduler extension 1.3 (diff)
2:41 PM net.sf.basedb.opengrid edited by Nicklas Nordborg
Released Open Grid Scheduler extension 1.3 (diff)
2:39 PM opengrid-1.3.tar.gz attached to net.sf.basedb.opengrid by Nicklas Nordborg
Open Grid 1.3
2:36 PM Changeset [5565] by Nicklas Nordborg
Tagging Open Grid Scheduler extension 1.3
2:35 PM Changeset [5564] by Nicklas Nordborg
Preparing to release Open Grid Scheduler extension 1.3
2:19 PM Changeset [5563] by Nicklas Nordborg
Preparing for future release OTP login 1.4
2:17 PM Milestone OTP login v1.3 completed
See OTP login extension for more information.
2:16 PM PluginDownload edited by Nicklas Nordborg
Released OTP login 1.3 (diff)
2:16 PM net.sf.basedb.otp edited by Nicklas Nordborg
Released OTP login 1.3 (diff)
2:14 PM base-otp-1.3.tar.gz attached to net.sf.basedb.otp by Nicklas Nordborg
OTP login 1.3
2:11 PM Changeset [5562] by Nicklas Nordborg
Tagging OTP login 1.3
2:11 PM Changeset [5561] by Nicklas Nordborg
Preparing to release OTP login 1.3
1:25 PM Changeset [5560] by Nicklas Nordborg
Preparing for future release External files support 1.6
1:20 PM Milestone External files support 1.5 completed
An extension package containing support for additional protocols to …
1:20 PM PluginDownload edited by Nicklas Nordborg
Released External files support 1.5 (diff)
1:19 PM net.sf.basedb.xfiles edited by Nicklas Nordborg
Released External files support 1.5 (diff)
1:17 PM xfiles-1.5.tar.gz attached to net.sf.basedb.xfiles by Nicklas Nordborg
XFiles 1.5
1:16 PM Changeset [5559] by Nicklas Nordborg
Tagging External files support 1.5
1:16 PM Changeset [5558] by Nicklas Nordborg
Preparing to release External files support 1.5

Aug 13, 2019:

1:14 PM Ticket #1126 (Cohort exporter should support exporting to Excel file) closed by Nicklas Nordborg
fixed: Seems to be working without any problems.
1:14 PM Ticket #1168 (Safer debugging of import/export plug-in) closed by Nicklas Nordborg
fixed: In 5557: […]
1:14 PM Changeset [5557] by Nicklas Nordborg
Fixes #1168: Safer debugging of import/export plug-in Also …
11:40 AM Ticket #1167 (Safer debugging of release exporter plug-in) closed by Nicklas Nordborg
fixed: In [5555] Fixes #1167: Safer debugging of release exporter plug-in …
11:37 AM Changeset [5556] by Nicklas Nordborg
References #1168: Safer debugging of import/export plug-in …
10:22 AM Changeset [5555] by Nicklas Nordborg
Fixes #11169: Safer debugging of release exporter plug-in The plug-in …
8:55 AM Ticket #1168 (Safer debugging of import/export plug-in) created by Nicklas Nordborg
Same as #1167 for the following plug-ins: * Release importer plug-in …
8:52 AM Ticket #1167 (Safer debugging of release exporter plug-in) created by Nicklas Nordborg
When developing the "Release exporter" plug-in it is usually necessary …
8:21 AM Ticket #1166 (Add configuration setting for disabling counting stray folders) closed by Nicklas Nordborg
fixed: In 5554: […]
8:21 AM Changeset [5554] by Nicklas Nordborg
Fixes #1166: Add configuration setting for disabling counting stray folders

Aug 12, 2019:

2:10 PM Ticket #1166 (Add configuration setting for disabling counting stray folders) created by Nicklas Nordborg
The counter service includes a function for checking and counting if …
1:40 PM Ticket #1165 (Code for checking if a sample is external or not is incorrect) closed by Nicklas Nordborg
fixed: In 5553: […]
1:40 PM Changeset [5553] by Nicklas Nordborg
Fixes #1165: Code for checking if a sample is external or not is …
11:18 AM Changeset [5552] by Nicklas Nordborg
References #1165: Code for checking if a sample is external or not is …
8:41 AM Ticket #1165 (Code for checking if a sample is external or not is incorrect) created by Nicklas Nordborg
There are various places in the codebase of Reggie that checks if an …
8:36 AM Changeset [5551] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Updated the "Confirm …

Aug 9, 2019:

11:36 AM Changeset [5550] by Nicklas Nordborg
References #1159: Release exporter changes due to MIPs pipeline …

Aug 8, 2019:

2:27 PM Changeset [5549] by Nicklas Nordborg
References #1159: Release exporter changes due to MIPs pipeline The …
7:55 AM Ticket #1162 (Add support for using 'M' in the read-string when demuxing) closed by Nicklas Nordborg
fixed
7:55 AM Ticket #1164 (Pipeline annotation in secondary analysis) closed by Nicklas Nordborg
fixed
7:54 AM Changeset [5548] by Nicklas Nordborg
References #1164 and #1157. Added pipeline to "Mask+align" and "Raw …

Aug 7, 2019:

3:42 PM Changeset [5547] by Nicklas Nordborg
References #1164: Pipeline annotation in secondary analysis The …
1:23 PM net.sf.basedb.reggie/notes423 edited by Nicklas Nordborg
(diff)
1:23 PM net.sf.basedb.reggie/notes423 edited by Nicklas Nordborg
Updated pipeline values (diff)
1:21 PM Changeset [5546] by Nicklas Nordborg
References #1164: Pipeline annotation in secondary analysis Renamed …

Aug 6, 2019:

2:53 PM Changeset [5545] by Nicklas Nordborg
References #1146 and #1162. Implemented a …
12:05 PM net.sf.basedb.reggie/notes423 edited by Nicklas Nordborg
Added instructions for creating barcode templates (diff)
10:03 AM net.sf.basedb.reggie/notes423 created by Nicklas Nordborg
Started to write the update notes for Reggie 4.23
9:22 AM Changeset [5544] by Nicklas Nordborg
References #1164: Pipeline annotation in secondary analysis Added …
8:49 AM Changeset [5543] by Nicklas Nordborg
References #1164: Pipeline annotation in secondary analysis Added …
8:47 AM Ticket #1164 (Pipeline annotation in secondary analysis) created by Nicklas Nordborg
The "Pipeline" annotation was added to be able to separate items in …

Aug 5, 2019:

2:09 PM Changeset [5542] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Added filter and check …
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