Timeline


and

Dec 12, 2013:

1:58 PM Ticket #551 (Add 'install' target to normalizers build script) closed by nicklas
fixed: (In [2180]) Fixes #551: Add 'install' target to normalizers build script
1:58 PM Changeset [2180] by nicklas
Fixes #551: Add 'install' target to normalizers build script
1:39 PM Ticket #551 (Add 'install' target to normalizers build script) created by nicklas
See #363 and #362 for similar changes in other projects.
1:36 PM Changeset [2179] by nicklas
Update build path for Eclipse to use the BASE 3.2.4 jar files. Related …
11:56 AM PluginDownload edited by jari
New beta version of net.sf.basedb.normalizers (1.1-beta2) (diff)
11:53 AM net.sf.basedb.normalizers edited by jari
New beta version of net.sf.basedb.normalizers (1.1-beta2) (diff)
11:45 AM Ticket #550 (Overview report should show number of patients having a sample type item) closed by olle
fixed: Ticket closed as the requested functionality has been added.
11:44 AM normalization-plugins-1.1-beta2.tar.gz.MD5 attached to net.sf.basedb.normalizers by jari
11:44 AM normalization-plugins-1.1-beta2.tar.gz attached to net.sf.basedb.normalizers by jari
11:42 AM Changeset [2178] by olle
Refs #550. Overview report updated to show number of patients having a …
11:41 AM Changeset [2177] by jari
Tagging release 1.1-beta2
11:39 AM Changeset [2176] by jari
Changes from release procedure and other minor things.
11:37 AM Changeset [2175] by jari
Added blank line in parameter help string
10:47 AM Ticket #541 (net.sf.basedb.normalizers: Normalizers should store normalized data in ...) closed by olle
fixed: Ticket closed as the requested functionality has been added.
10:47 AM Ticket #228 (net.sf.basedb.normalizers: Normalizers should use ask BASE whether ...) closed by olle
fixed: Ticket closed as the requested functionality has been added.
10:45 AM Changeset [2174] by olle
Refs #541. Refs #228. Outermost Ant build XML file updated by …
10:30 AM Changeset [2173] by jari
Refs #228 and #541. Improving doc and help string
8:42 AM Ticket #550 (Overview report should show number of patients having a sample type item) created by olle
Overview report should show number of patients having a sample type …

Dec 11, 2013:

1:52 PM Ticket #544 (Re-design lab protocol and registration wizards for histology) closed by nicklas
fixed: (In [2172]) Fixes #544: Re-design lab protocol and registration …
1:52 PM Changeset [2172] by nicklas
Fixes #544: Re-design lab protocol and registration wizards for …
8:40 AM PluginDownload edited by nicklas
Released Reggie 2.14-beta-3 (diff)
8:22 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 2.14-beta-3 (diff)
8:18 AM reggie-2.14-beta-3.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.14-beta-3
8:17 AM Changeset [2171] by nicklas
Tagging Reggie 2.14-beta-3
8:17 AM Changeset [2170] by nicklas
Preparing to release Reggie 2.14-beta-3

Dec 10, 2013:

10:00 PM net.sf.basedb.reggie.notes214 edited by nicklas
Clarifying role membership (diff)
9:47 PM Changeset [2169] by nicklas
References #528: Restrict access to some registation wizards There …
3:28 PM Ticket #549 (Installation wizard should share biomaterial lists with WRITE permission) closed by nicklas
fixed: (In [2168]) Fixes #549: Installation wizard should share biomaterial …
3:28 PM Changeset [2168] by nicklas
Fixes #549: Installation wizard should share biomaterial lists with …
3:04 PM Ticket #549 (Installation wizard should share biomaterial lists with WRITE permission) created by nicklas
Releated to #506, but it was not specified that unlike other items …
12:44 PM Ticket #548 (Register Demux and Merge as ended) created by nicklas
Part of #533. This wizard is used to register that demuxing and …
10:59 AM Ticket #547 (Start Demux and Merge) created by nicklas
Part of #533. This wizard is started after confirming a successful …
9:50 AM Changeset [2167] by olle
Refs #541. Rank invariant normalization updated to store data in same …
9:45 AM Ticket #546 (Confirm sequencing as completed) created by nicklas
Part of #533. This is the first wizard in the "Secondary analysis …
9:31 AM Ticket #545 (Register sequencing as ended) created by nicklas
Part of #533. This wizard should be the last wizard in the "Library …

Dec 9, 2013:

4:08 PM Changeset [2166] by olle
Refs #228. Refs #541. Average normalization updated to untransform …
3:53 PM Ticket #544 (Re-design lab protocol and registration wizards for histology) created by nicklas
The current version of the lab protocol has only a single date field …
12:23 PM Changeset [2165] by olle
Refs #228. Refs #541. Quantile normalization updated to untransform …
11:19 AM PluginDownload edited by nicklas
Released Reggie 2.14-beta-2 (diff)
11:17 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 2.14-beta-2 (diff)
11:15 AM Changeset [2164] by nicklas
Tagging Reggie 2.14-beta-2
11:14 AM Changeset [2163] by nicklas
Preparing to release Reggie 2.14-beta-2
11:03 AM Ticket #543 (Different default values in 'Blood registration wizard' depending on site) closed by nicklas
fixed: (In [2162]) Fixes #543: Different default values in 'Blood …
11:03 AM Changeset [2162] by nicklas
Fixes #543: Different default values in 'Blood registration wizard' …
10:06 AM Changeset [2161] by nicklas
References #528: Restrict access to some registation wizards Added …

Dec 6, 2013:

12:59 PM Changeset [2160] by nicklas
Fixes #542: PAD should be a PatientCurator? annotation Remove debug output.
10:01 AM Ticket #542 (PAD should be a PatientCurator annotation) closed by nicklas
fixed: (In [2159]) Fixes #542: PAD should be a PatientCurator? annotation The …
10:01 AM Changeset [2159] by nicklas
Fixes #542: PAD should be a PatientCurator? annotation The PAD values …
8:40 AM Changeset [2158] by nicklas
References #528: Restrict access to some registation wizards Fixes an …

Dec 5, 2013:

3:26 PM Ticket #528 (Restrict access to some registation wizards) closed by nicklas
fixed
3:26 PM net.sf.basedb.reggie.notes214 created by nicklas
Adding update notes for Reggie 2.14
3:14 PM net.sf.basedb.reggie edited by nicklas
Adding link to update notes for Reggie 2.14 (diff)
2:44 PM Changeset [2157] by nicklas
References #528: Restrict access to some registation wizards Defined …
1:34 PM Ticket #543 (Different default values in 'Blood registration wizard' depending on site) created by nicklas
The information that we receive regarding blood sample from Uppsala is …
1:28 PM Ticket #542 (PAD should be a PatientCurator annotation) created by nicklas
The data is somewhat sensitive since a person with access to other …
7:54 AM Changeset [2156] by olle
Typo fixed in help text.

Dec 4, 2013:

4:56 PM Changeset [2155] by jari
Minor improvements on help text
12:37 PM Changeset [2154] by olle
Refs #228. Classes/files AverageNormalization.java and …

Nov 29, 2013:

2:18 PM Ticket #541 (net.sf.basedb.normalizers: Normalizers should store normalized data in ...) created by jari
QuantileNormalizer always stores data non-logged irrespective what …

Nov 27, 2013:

8:53 AM Ticket #540 (Make sure Reggie works with BASE 3.3) created by nicklas
BASE 3.3 include a lot of JavaScript changes which may affect the …
8:45 AM Ticket #539 (Set "Disable log" flag on some annotation types) created by nicklas
This is related to the new feature in BASE 3.3 about logging old …

Nov 26, 2013:

9:57 AM PluginDownload edited by nicklas
Released Reggie 2.14-beta-1 (diff)
9:57 AM reggie-2.14-beta-1.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.14-beta-1
9:56 AM net.sf.basedb.reggie edited by nicklas
Released Reggie 2.14-beta-1 (diff)
9:55 AM Changeset [2153] by nicklas
Tagging Reggie 2.14-beta-1
9:54 AM Changeset [2152] by nicklas
Preparing to release Reggie 2.14-beta-1
9:52 AM Ticket #538 (Count and display number of libraries with low and high concentration ...) closed by nicklas
fixed: (In [2151]) Fixes #538: Count and display number of libraries with low …
9:52 AM Changeset [2151] by nicklas
Fixes #538: Count and display number of libraries with low and high …
8:37 AM Ticket #537 (Allow 10µl as max volume in Create pooled libraries wizard) closed by nicklas
fixed: (In [2150]) Fixes #537: Allow 10µl as max volume in Create pooled …
8:37 AM Changeset [2150] by nicklas
Fixes #537: Allow 10µl as max volume in Create pooled libraries wizard

Nov 25, 2013:

10:49 AM Ticket #538 (Count and display number of libraries with low and high concentration ...) created by nicklas
When the target volume in the 'Create pooled library' wizard changes …
10:11 AM Ticket #537 (Allow 10µl as max volume in Create pooled libraries wizard) created by nicklas
The current limit is between 2 and 5µl. The 5µl limit was chosen to …

Nov 19, 2013:

1:18 PM Changeset [2149] by nicklas
Removing Reggie/2.13-stable branch since it is now merged back to trunk.
1:16 PM Changeset [2148] by nicklas
Merge changes from Reggie/2.13-stable development branch back to trunk.
1:11 PM Milestone Reggie v2.13 completed
See Reggie extension page for more information.
1:11 PM PluginDownload edited by nicklas
Released Reggie 2.13 (diff)
1:10 PM net.sf.basedb.reggie edited by nicklas
Released Reggie 2.13 (diff)
1:09 PM reggie-2.13.tar.gz attached to net.sf.basedb.reggie by nicklas
Reggie 2.13
1:08 PM Changeset [2147] by nicklas
Tagging Reggie 2.13
1:08 PM Changeset [2146] by nicklas
Preparing to release Reggie 2.13
10:46 AM Ticket #536 (Case summary display should remember the 'pageType' parameter) closed by nicklas
fixed: (In [2145]) Fixes #536: Case summary display should remember the …
10:46 AM Changeset [2145] by nicklas
Fixes #536: Case summary display should remember the 'pageType' parameter
10:34 AM Ticket #534 (Show case summary if given a personal number) closed by olle
fixed: Ticket closed as the requested functionality has been added.
10:13 AM Changeset [2144] by olle
Refs #534. Case summary updated to use an input personal number …
9:32 AM Ticket #536 (Case summary display should remember the 'pageType' parameter) created by nicklas
The case summary can be opened from several different locations. …
9:16 AM Ticket #524 (Auto-select RNA wizard should be able to start from a specific date) closed by nicklas
fixed: (In [2143]) Fixes #524: Auto-select RNA wizard should be able to start …
9:16 AM Changeset [2143] by nicklas
Fixes #524: Auto-select RNA wizard should be able to start from a …
9:11 AM Ticket #535 (The Flagged RNA dialog doesn't round numeric values) closed by nicklas
fixed: (In [2142]) Fixes #535: The Flagged RNA dialog doesn't round numeric values
9:11 AM Changeset [2142] by nicklas
Fixes #535: The Flagged RNA dialog doesn't round numeric values
9:04 AM Ticket #535 (The Flagged RNA dialog doesn't round numeric values) created by nicklas
This dialog is accessible from the 'Select RNA' wizard once an …

Nov 18, 2013:

2:36 PM Changeset [2141] by nicklas
References #527: Implement manual pooled library selection Selection …
11:46 AM Changeset [2140] by nicklas
References #527: Implement manual pooled library selection …

Nov 14, 2013:

10:05 AM Ticket #519 (Date fields should not allow 6-digit dates) closed by olle
fixed: Ticket closed again after updating the two blood registration wizards …
10:02 AM Changeset [2139] by olle
Refs #519. Refs #449. The two blood registration wizards updated to …
9:21 AM Changeset [2138] by olle
Refs #449. Wizard for registration of follow-up blood samples updated …

Nov 13, 2013:

3:53 PM Changeset [2137] by nicklas
References #527: Implement manual pooled library selection This …
3:01 PM Ticket #519 (Date fields should not allow 6-digit dates) reopened by nicklas
Reopening this ticket. The two blood registration wizards should allow …
2:41 PM Ticket #534 (Show case summary if given a personal number) created by nicklas
The current case summary implementation requries a valid Scan-B case …
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