Timeline



Feb 13, 2019:

3:32 PM Changeset [5298] by Nicklas Nordborg
References #1110: Support for Excel files as an alternative to …
1:41 PM Changeset [5297] by Nicklas Nordborg
References #1110: Support for Excel files as an alternative to …
10:52 AM Changeset [5296] by Nicklas Nordborg
References #1110: Support for Excel files as an alternative to …
9:46 AM Ticket #1110 (Support for Excel files as an alternative to tab-separated files) created by Nicklas Nordborg
There are indications that software and hardware that we are …

Feb 12, 2019:

3:02 PM Ticket #1109 (INCA report files should be encrypted) closed by Nicklas Nordborg
fixed: In 5295: […]
3:02 PM Changeset [5295] by Nicklas Nordborg
Fixes #1109: INCA report files should be encrypted Implemented an …
2:41 PM Ticket #1109 (INCA report files should be encrypted) created by Nicklas Nordborg
The INCA import and INCA statistics wizard generate and store data …
1:27 PM Changeset [5294] by Nicklas Nordborg
References #1108: Fix INCA statistics Removing old code that is no …
12:59 PM Changeset [5293] by Nicklas Nordborg
References #1108: Fix INCA statistics Creating an output CSV after …
11:42 AM Changeset [5292] by Nicklas Nordborg
References #1108: Fix INCA statistics Implemented database mapping …

Feb 11, 2019:

2:52 PM Changeset [5291] by Nicklas Nordborg
References #1108: Fix INCA statistics Statistics is now reported back …
1:14 PM Changeset [5290] by Nicklas Nordborg
References #1108: Fix INCA statistics Implemented actual statistics …
8:20 AM Changeset [5289] by Nicklas Nordborg
References #1108: Fix INCA statistics Started to implement the report …

Feb 8, 2019:

2:06 PM Changeset [5288] by Nicklas Nordborg
References #1108: Fix INCA statistics Implemented more checks: * …
8:23 AM Changeset [5287] by Nicklas Nordborg
References #1108: Fix INCA statistics Started to change the wizard. …

Feb 6, 2019:

9:42 AM PluginDownload edited by Nicklas Nordborg
Released Reggie 4.21 and Relax 1.4 (diff)
9:40 AM Changeset [5286] by Nicklas Nordborg
Changes for future release Relax 1.5
9:39 AM Milestone Relax v1.4 completed
See Relax extension page for more information.
9:39 AM net.sf.basedb.relax edited by Nicklas Nordborg
Released Relax 1.4 (diff)
9:34 AM relax-1.4.tar.gz attached to net.sf.basedb.relax by Nicklas Nordborg
Relax 1.4
9:33 AM Changeset [5285] by Nicklas Nordborg
Tagging Relax 1.4
9:32 AM Changeset [5284] by Nicklas Nordborg
Preparing to release Relax 1.4
9:28 AM Ticket #1099 (The cohort exporter should have support for exporting downstream items) closed by Nicklas Nordborg
fixed
9:27 AM Changeset [5283] by Nicklas Nordborg
Changes for future release Reggie 4.22
9:25 AM Milestone Reggie v4.21 completed
See Reggie extension page for more information.
9:24 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Added link to update notes for Reggie 4.21 (diff)
9:23 AM net.sf.basedb.reggie edited by Nicklas Nordborg
Released Reggie 4.21 (diff)
9:21 AM reggie-4.21.tar.gz attached to net.sf.basedb.reggie by Nicklas Nordborg
Reggie 4.21
9:16 AM Changeset [5282] by Nicklas Nordborg
Tagging Reggie 4.21
9:15 AM Changeset [5281] by Nicklas Nordborg
Preparing to release Reggie 4.21
9:09 AM Ticket #1081 (The release exporter should export more data) closed by Nicklas Nordborg
fixed
9:09 AM Ticket #1075 (Change the release exporter to work with list of patients) closed by Nicklas Nordborg
fixed
9:08 AM Ticket #1104 (Re-factor the INCA import) closed by Nicklas Nordborg
fixed: The import wizard should work. The statistics wizard does not and has …
9:07 AM Ticket #1108 (Fix INCA statistics) created by Nicklas Nordborg
The INCA statistics wizard is currently broken due to changes in …
9:00 AM Changeset [5280] by Nicklas Nordborg
References #1104: Re-factor the INCA import Cleaning up some unused …

Feb 5, 2019:

1:23 PM Changeset [5279] by Nicklas Nordborg
References #1104: Re-factor the INCA import Check for and report …
1:18 PM Ticket #1107 (Search by PATnnnn names in case summary) closed by Nicklas Nordborg
fixed: (In [5278]) Fixes #1107: Search by PATnnnn names in case summary
1:17 PM Changeset [5278] by Nicklas Nordborg
Fixes #1107: Search by PATnnnn names in case summary
1:13 PM Ticket #1107 (Search by PATnnnn names in case summary) created by Nicklas Nordborg
Could be useful since the INCA importer generates report files with …
12:38 PM Ticket #1106 (A pre-registered consent should prevent the "copy consent" function ...) closed by Nicklas Nordborg
fixed
12:36 PM Changeset [5277] by Nicklas Nordborg
Fixes #1106: A pre-registered consent should prevent the "copy …
11:11 AM Ticket #1105 (Lower-case 'c/d' suffix in the specimen tube registration wizard ...) closed by Nicklas Nordborg
fixed
11:04 AM Changeset [5276] by Nicklas Nordborg
Fixes #1105: Lower-case 'c/d' suffix in the specimen tube registration …
10:43 AM Ticket #1106 (A pre-registered consent should prevent the "copy consent" function ...) created by Nicklas Nordborg
In the pathology referral form registration wizard a "copy consent" …
9:03 AM Ticket #1105 (Lower-case 'c/d' suffix in the specimen tube registration wizard ...) created by Nicklas Nordborg
The specimen tube registration wizard accepts SCAN-B id:s with 7 …

Feb 4, 2019:

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Jan 31, 2019:

2:48 PM Changeset [5275] by Nicklas Nordborg
References #1104: Re-factor the INCA import Re-implemented the method …
11:34 AM Changeset [5274] by Nicklas Nordborg
References #1104: Re-factor the INCA import Improved reporting about …
10:40 AM Changeset [5273] by Nicklas Nordborg
References #1104: Re-factor the INCA import Updated patient/case …

Jan 30, 2019:

12:35 PM Changeset [5272] by olle
Refs #1029. Wizard "Add new library preparation kit" in section …

Jan 29, 2019:

3:35 PM Changeset [5271] by olle
Refs #1029. MeLuDI installation wizard updated to check that needed …
11:05 AM Changeset [5270] by Nicklas Nordborg
References #1104: Re-factor the INCA import Changes to the flow in …

Jan 28, 2019:

9:02 AM Changeset [5269] by Nicklas Nordborg
References #1104: Re-factor the INCA import Cleaning up and …

Jan 25, 2019:

2:15 PM Changeset [5268] by Nicklas Nordborg
References #1104: Re-factor the INCA import Started with new …
10:22 AM Changeset [5267] by Nicklas Nordborg
References #1104: Re-factor the INCA import Started to re-factor data …
7:44 AM Changeset [5266] by olle
Refs #1029. FFPE block registration updated in step 1 by correcting …

Jan 24, 2019:

4:44 PM Changeset [5265] by olle
Refs #1029. FFPE block registration updated in step 1: i. Initial …
3:07 PM Changeset [5264] by olle
Refs #1029. Referral form generation updated with new button to …
2:54 PM Changeset [5263] by Nicklas Nordborg
References #1104: Re-factor the INCA import Started a new …
9:10 AM Changeset [5262] by Nicklas Nordborg
References #1104: Re-factor the INCA import Replaced duplicate …

Jan 23, 2019:

3:48 PM Changeset [5261] by Nicklas Nordborg
References #1104: Re-factor the INCA import Initial parsing of data …

Jan 22, 2019:

3:50 PM Changeset [5260] by Nicklas Nordborg
References #1104: Re-factor the INCA import Mapping columns to …
2:24 PM Changeset [5259] by olle
Refs #1029. Case summary updated in Case section by displaying "FFPE …
9:51 AM Changeset [5258] by Nicklas Nordborg
References #1104: Re-factor the INCA import Updated parsing of …

Jan 21, 2019:

4:03 PM Changeset [5257] by olle
Refs #1029. FFPE block registration updated to display personal number …
3:10 PM Changeset [5256] by Nicklas Nordborg
References #1104: Re-factor the INCA import Updated the initial …
1:46 PM Changeset [5255] by olle
Refs #1029. Sample report servlet updated to support the new naming …
1:37 PM Changeset [5254] by olle
Refs #1029. Convenience method `String fetchSpecimenItemPrefix(int …
1:34 PM Changeset [5253] by olle
Refs #1029. New convenience method `String fetchSpecimenItemPrefix(int …
1:25 PM Ticket #1104 (Re-factor the INCA import) created by Nicklas Nordborg
We want to add more information to the output files generated by the …
8:41 AM Ticket #1103 (Add permission check for downloading INCA report files) closed by Nicklas Nordborg
fixed: (In [5252]) Fixes #1103: Add permission check for downloading INCA …
8:41 AM Changeset [5252] by Nicklas Nordborg
Fixes #1103: Add permission check for downloading INCA report files …
8:38 AM Ticket #1103 (Add permission check for downloading INCA report files) created by Nicklas Nordborg
The INCA import and statistics wizards create a number of report …

Jan 18, 2019:

1:54 PM Changeset [5251] by olle
Refs #1029. Java class path file updated for new jre version …
12:51 PM Ticket #1095 (Implement "update" mode for the release importer) closed by Nicklas Nordborg
fixed
12:51 PM Ticket #1098 (Release exporter should generate scripts that works with the "update" ...) closed by Nicklas Nordborg
fixed
12:45 PM Ticket #1102 (The level3 exporter should use script templates) closed by Nicklas Nordborg
fixed: (In [5250]) Fixes #1102: The level3 exporter should use script templates
12:45 PM Changeset [5250] by Nicklas Nordborg
Fixes #1102: The level3 exporter should use script templates
11:22 AM Changeset [5249] by olle
Refs #1029. Case summary updated in Case section by adding row for …
11:03 AM Changeset [5248] by Nicklas Nordborg
References #1098: Release exporter should generate scripts that works …
10:59 AM Ticket #1102 (The level3 exporter should use script templates) created by Nicklas Nordborg
The changes made in #1098 in Reggie changes the script generation to …
10:55 AM Changeset [5247] by Nicklas Nordborg
References #1095: Implement "update" mode for the release importer …
10:41 AM Changeset [5246] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …
9:33 AM Changeset [5245] by Nicklas Nordborg
References #1090: Introduce FirstReleasedIn? annotation The …
9:22 AM Changeset [5244] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …

Jan 17, 2019:

1:28 PM Changeset [5243] by olle
Refs #1029. Approving a created FFPE block order form now stored the …
12:47 PM Changeset [5242] by Nicklas Nordborg
References #1095: Implement "update" mode for the release importer …
12:42 PM net.sf.basedb.reggie/notes421 edited by Nicklas Nordborg
(diff)
12:40 PM net.sf.basedb.reggie edited by Nicklas Nordborg
Typo (diff)
11:41 AM net.sf.basedb.relax/notes14 edited by Nicklas Nordborg
Added update note for Relax 1.4 related to the FirstReleasedIn? annotation (diff)
11:26 AM net.sf.basedb.relax/notes14 edited by Nicklas Nordborg
Added update note for Relax 1.4 related to Cufflinks and StringTie? … (diff)
11:08 AM Changeset [5241] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …
11:06 AM Changeset [5240] by Nicklas Nordborg
References #1072: Introduce Lysate item between RNA and Specimen …
9:07 AM net.sf.basedb.relax/notes14 created by Nicklas Nordborg
Added updated notes for Relax 1.4
8:35 AM Changeset [5239] by Nicklas Nordborg
References #1090: Introduce FirstReleasedIn? annotation The cohort …
7:43 AM Changeset [5238] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …

Jan 16, 2019:

4:48 PM Changeset [5237] by olle
Refs #1029. FFPE block registration wizard updated to use input from a …
2:28 PM Changeset [5236] by Nicklas Nordborg
References #1095: Implement "update" mode for the release importer …
12:30 PM Changeset [5235] by olle
Refs #1029. Counter for number of FFPE blocks unused for section …
8:44 AM Changeset [5234] by Nicklas Nordborg
References #1075: Change the release exporter to work with list of …

Jan 15, 2019:

10:42 AM Changeset [5233] by olle
Refs #1029. Updates due to version number change to "1.6.0-dev". …
10:31 AM Changeset [5232] by olle
Refs #1029. Updates due to version number change to "1.6.0b3". 1. …
9:36 AM Changeset [5231] by Nicklas Nordborg
References #1075: Change the release exporter to work with list of …
8:57 AM Ticket #1074 (Add more subtypes) closed by Nicklas Nordborg
fixed
8:44 AM Ticket #1101 (Annotation type categories for raw data types) closed by Nicklas Nordborg
fixed: (In [5230]) Fixes #1101: Annotation type categories for raw data types
8:44 AM Changeset [5230] by Nicklas Nordborg
Fixes #1101: Annotation type categories for raw data types
8:42 AM Ticket #1101 (Annotation type categories for raw data types) created by Nicklas Nordborg
BASE has added support for using the raw data type of a raw bioassay …

Jan 14, 2019:

1:18 PM Changeset [5229] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …
11:51 AM Changeset [5228] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …
11:46 AM Changeset [5227] by Nicklas Nordborg
References #1099: The cohort exporter should have support for …
9:50 AM Ticket #1100 (The release exporter should set subtype on raw bioassay annotations) closed by Nicklas Nordborg
fixed: (In [5226]) Fixes #1100: The release exporter should set subtype on …
9:50 AM Changeset [5226] by Nicklas Nordborg
Fixes #1100: The release exporter should set subtype on raw bioassay …
9:27 AM Changeset [5225] by olle
Refs #1029. Lab tracking protocol for FFPE extraction wizard problems …
9:20 AM Ticket #1100 (The release exporter should set subtype on raw bioassay annotations) created by Nicklas Nordborg
Without this information the relax server will not be able to specify …
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