Timeline



Jul 5, 2019:

1:36 PM Changeset [5541] by olle
Refs #1029. FFPE block registration updated in step 3 with support for …

Jul 4, 2019:

1:51 PM Changeset [5540] by olle
Refs #1029. Updates due to update of Java version from to 1.8 to …

Jun 28, 2019:

2:35 PM Ticket #1160 (Investigate changes in Picard since our last modified version) closed by Nicklas Nordborg
fixed
2:35 PM Ticket #1161 (Update picard to 2.20) closed by Nicklas Nordborg
fixed
2:33 PM Changeset [5539] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Added support for …
2:28 PM Changeset [5538] by Nicklas Nordborg
References #1146: Demux for the MIPs pipeline Demux parameters has …
10:51 AM Changeset [5537] by Nicklas Nordborg
References #1161: Update picard to 2.20 Updated MarkDuplicates step …
8:47 AM Changeset [5536] by Nicklas Nordborg
References #1161: Update picard to 2.20 Updated the RNA-seq demux to …

Jun 27, 2019:

2:15 PM Changeset [5535] by Nicklas Nordborg
References #1161: Update picard to 2.20 Removed all …
2:00 PM Changeset [5534] by Nicklas Nordborg
References #1161 and #1146. The MIPs demux is now running with picard …
12:43 PM Ticket #1163 (Start demux wizard may display the same sequencing run multiple times ...) closed by Nicklas Nordborg
fixed: In 5533: […]
12:43 PM Changeset [5533] by Nicklas Nordborg
Fixes #1163: Start demux wizard may display the same sequencing run …
12:41 PM Ticket #1163 (Start demux wizard may display the same sequencing run multiple times ...) created by Nicklas Nordborg
This seems to happen if a sequencing run has already been demuxed more …
11:24 AM Changeset [5532] by Nicklas Nordborg
References #1162: Add support for using 'M' in the read-string when …
11:00 AM Changeset [5531] by Nicklas Nordborg
References #1161: Update picard to 2.20 Implemented a method for …
9:43 AM Changeset [5530] by Nicklas Nordborg
References #1162: Add support for using 'M' in the read-string when …
9:34 AM Changeset [5529] by Nicklas Nordborg
References #1161: Update picard to 2.20 Adding the picard2 wrapper …
9:33 AM Changeset [5528] by Nicklas Nordborg
References #1161: Update picard to 2.20 Updated to the new command …
9:08 AM Changeset [5527] by Nicklas Nordborg
References #1161: Update picard to 2.20 Changed the default …
7:49 AM Ticket #1162 (Add support for using 'M' in the read-string when demuxing) created by Nicklas Nordborg
This is needed to handle UMI:s in the MIPs pipeline. It requires the …
7:45 AM Ticket #1161 (Update picard to 2.20) created by Nicklas Nordborg
http://broadinstitute.github.io/picard/ I think we should manage …

Jun 26, 2019:

9:29 AM Ticket #1160 (Investigate changes in Picard since our last modified version) created by Nicklas Nordborg
We are using a modified version of Picard for demuxing. It is base on …

Jun 25, 2019:

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 …
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