Timeline

and .

09/05/08:

16:50 Changeset [2823] by gregory
  • trunk/client/servlet/src/org/proteios/action/directory/AddDirectory.java
  • trunk/client/servlet/src/org/proteios/action/directory/NewDirectory.java
  • trunk/client/servlet/src/org/proteios/action/directory/SaveDirectory.java
  • trunk/client/servlet/src/org/proteios/action/directory/ViewActiveDirectory.java
  • trunk/client/servlet/src/org/proteios/gui/form/FormFactory.java
Refs #457. Deprecated getNewDirectoryForm() and getDirectoryForm() methods …
15:18 Changeset [2822] by fredrik
  • trunk/plugin/conf/xsd/tandem_results.xsd
Updated tandem xsd to accomodate new output format with rt.

09/04/08:

09:10 Ticket #356 (enhancement) closed by gregory
fixed: It's there and it's working.

09/02/08:

14:29 Changeset [2821] by gregory
  • trunk/client/servlet/src/org/proteios/gui/MainMenu.java
Refs #420. Refactoring code in createSelectProjectNode() method.

09/01/08:

14:11 Ticket #457 (defect) created by fredrik
Shared project files not visible
14:04 Changeset [2820] by gregory
  • trunk/client/servlet/src/org/proteios/gui/MainMenu.java
Fixed bug in menu, Project -> LIMS -> Samples was showing all samples.
13:52 Changeset [2819] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Checking for active labeled extract before proceeding to the …
13:31 Changeset [2818] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Checking for active extract before proceeding to creating …
13:21 Changeset [2817] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Checking for active sample before proceeding to creating …
11:52 Ticket #456 (enhancement) created by fredrik
Retrieval of Mascot XML results from Mascot server
09:15 Changeset [2816] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Checking for active project before proceeding with sample …

08/27/08:

11:14 Changeset [2815] by jari
  • trunk/api/external
Added svndigest:ignore property.
10:48 Changeset [2814] by fredrik
  • trunk/plugin/src/org/proteios/plugins/PlgsToMzMLPlugin.java
Refs #248. converter now uses referenceable param groups for the binary …

08/26/08:

11:46 Changeset [2813] by gregory
  • trunk/client/servlet/src/content/StartHereExport.html
  • trunk/client/servlet/src/content/StartHereExtract.html
  • trunk/client/servlet/src/content/StartHereFiles.html
  • trunk/client/servlet/src/content/StartHereImportWizard.html
  • trunk/client/servlet/src/content/StartHereLabelExtract.html
  • trunk/client/servlet/src/content/StartHereProject.html
  • trunk/client/servlet/src/content/StartHereSample.html
  • trunk/client/servlet/src/content/StartHereSeparation.html
  • trunk/client/servlet/src/content/StartHereWizard.html
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Renamed instruction files for a more loose coupling between …

08/25/08:

15:02 Ticket #455 (defect) closed by gregory
fixed: (In [2812]) Fixes #455.
15:02 Changeset [2812] by gregory
  • trunk/client/servlet/src/org/proteios/action/job/ListJobs.java
Fixes #455.
14:54 Ticket #455 (defect) created by gregory
View -> Jobs is missing title
12:02 Changeset [2811] by gregory
  • trunk/client/servlet/www/static/css/layout2.jsp
  • trunk/client/servlet/www/static/css/menuh.css
  • trunk/client/servlet/www/static/img/logo-prose-small-round.gif
  • trunk/client/servlet/www/static/img/orig/logo-prose-small.xcf
Added ProSE logo to the right of the menu. Also fixed the wrapping of …
10:58 Changeset [2810] by fredrik
  • trunk/client/ftpd/proteios_ftp_server.bat.in
  • trunk/client/ftpd/proteios_ftp_server_start.bat.in
  • trunk/client/ftpd/proteios_ftp_server_stop.bat.in
Setting eol-style to native on proteios ftp bat files

08/22/08:

15:02 Changeset [2809] by gregory
  • trunk/client/servlet/src/content/StartHere6.html
  • trunk/client/servlet/src/locale/en/dictionary
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Commenting step 6 where user should upload files.
14:39 Changeset [2808] by gregory
  • trunk/client/servlet/src/content/StartHere4.html
  • trunk/client/servlet/src/content/StartHere5.html
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
  • trunk/client/servlet/www/static/js/script.js
Refs #420. Added forms for steps 4 and 5. Also added check for frames in …
13:36 Changeset [2807] by gregory
  • trunk/api/waf/src/se/lu/thep/waf/dom/html/IFrame.java
  • trunk/client/servlet/src/content/StartHere1.html
  • trunk/client/servlet/src/content/StartHere2.html
  • trunk/client/servlet/src/content/StartHere3.html
  • trunk/client/servlet/src/content/StartHere4.html
  • trunk/client/servlet/src/content/StartHere5.html
  • trunk/client/servlet/src/content/StartHere6.html
  • trunk/client/servlet/src/content/StartHere7.html
  • trunk/client/servlet/src/content/StartHere8.html
  • trunk/client/servlet/src/org/proteios/action/ActionFactory.java
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
  • trunk/client/servlet/src/org/proteios/gui/IFrame.java
  • trunk/client/servlet/src/org/proteios/gui/web/GUIConverter.java
  • trunk/client/servlet/src/org/proteios/gui/web/HtmlFactory.java
  • trunk/client/servlet/src/org/proteios/gui/web/LayoutConverter.java
  • trunk/client/servlet/www/static/css/layout2.jsp
  • trunk/client/servlet/www/static/js/script.js
Refs #420. Wizard now uses iFrames to display forms next to the …

08/21/08:

11:33 Changeset [2806] by olle
  • trunk/api/core/src/org/proteios/core/PreferencesFile.java
  • trunk/client/servlet/src/org/proteios/action/preferences/SavePreferences.java
Refs #448. User preferences file management updated by always creating a …
08:46 FTPServerUsage edited by olle
Added note on controlling the Proteios FTP Server under MS-Windows in … (diff)

08/20/08:

16:33 Changeset [2805] by olle
  • trunk/api/core/src/org/proteios/io/MzMLFileReader.java
Refs #454. Refs #450. Refs #430. Refs #394. Support for …
16:04 Changeset [2804] by gregory
  • trunk/client/servlet/src/content/StartHere0.html
  • trunk/client/servlet/src/content/StartHere1.html
  • trunk/client/servlet/src/content/StartHere2.html
  • trunk/client/servlet/src/content/StartHere3.html
  • trunk/client/servlet/src/content/StartHere4.html
  • trunk/client/servlet/src/content/StartHere5.html
  • trunk/client/servlet/src/content/StartHere6.html
  • trunk/client/servlet/src/content/StartHere7.html
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Moved text out of the action into src/content/StartHereX.html …
15:01 Changeset [2803] by gregory
  • trunk/api/core/src/org/proteios/core/ItemFactory.java
Added svn properties to ItemFactory?.java
14:05 Changeset [2802] by olle
  • trunk/api/core/src/org/proteios/io/MzMLFileReader.java
Refs #454. Refs #450. Refs #430. Refs #394. First revision of use of …
13:43 Changeset [2801] by gregory
  • trunk/client/servlet/src/org/proteios/action/ActionFactory.java
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
  • trunk/client/servlet/src/org/proteios/gui/layout/LayoutFactory.java
Refs #420. Fixed so that consecutive ActionLinks? within a popup window do …
13:09 Changeset [2800] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
  • trunk/client/servlet/src/org/proteios/gui/layout/FrameLayout.java
  • trunk/client/servlet/src/org/proteios/gui/web/GUIConverter.java
  • trunk/client/servlet/www/static/js/script.js
Refs #420. Added link to "New Project" in the wizard. The step action is …
12:47 Changeset [2799] by gregory
  • trunk/client/servlet/src/locale/en/dictionary
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
Refs #420. Added initial step with description of the wizard. Also gave …
12:40 Ticket #454 (enhancement) created by olle
mzML reader should use accession number properties instead of name properties in cvParam tags
12:28 Changeset [2798] by gregory
  • trunk/client/servlet/src/locale/en/dictionary
  • trunk/client/servlet/src/org/proteios/action/wizard/StartHere.java
  • trunk/client/servlet/src/org/proteios/action/wizzard
  • trunk/client/servlet/src/org/proteios/gui/MainMenu.java
Refs #420. Removing "wizzard" package. Adding initial revision of a …
11:53 Changeset [2797] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizard
Refs #420. Renaming wizzard to wizard.
11:23 Changeset [2796] by gregory
  • trunk/client/servlet/src/org/proteios/action/wizzard
Refs #420. Added org.proteios.action.wizzard package for wizzard related …
09:40 Changeset [2795] by gregory
  • trunk/client/servlet/src/org/proteios/Service.java
Refs #447. Implemented the destroy() method which logsout any active …
09:36 Ticket #453 (defect) created by fredrik
Plug-in listing is strange
08:49 Ticket #452 (task) created by olle
Database schema version number should be updated before release

08/19/08:

08:47 Changeset [2794] by olle
  • trunk/client/ftpd/proteios_ftp_server_start.bat.in
  • trunk/client/ftpd/proteios_ftp_server_stop.bat.in
  • trunk/misc/install/install-win.bat
Refs #451. Refs 3.88. Proteios FTP Server double-clickable start and stop …
08:23 Ticket #451 (enhancement) created by olle
Proteios FTP Server double-clickable start and stop scripts for MS-Windows

08/18/08:

16:42 Changeset [2793] by olle
  • trunk/api/core/src/org/proteios/io/MzMLFileReader.java
Refs #450. Refs #430. Refs #394. MzML reader updated for safer management …
16:13 Changeset [2792] by olle
  • trunk/api/core/src/org/proteios/io/MzMLFileReader.java
Refs #450. Refs #430. Refs #394. First revision of support …
12:50 Ticket #388 (defect) closed by olle
fixed: Ticket closed after being re-opened to add bug fixes.
12:48 Changeset [2791] by olle
  • trunk/client/ftpd/proteios_ftp_server.bat.in
Refs #388. Bugs fixed in template file for Proteios FTP server control …
12:38 Ticket #388 (defect) reopened by olle
Ticket re-opened to add bug fixes.
10:17 Ticket #450 (defect) created by fredrik
mzML reader should support referencable param groups

08/13/08:

13:08 Installation edited by olle
Typo fixed. (diff)
12:59 Installation edited by olle
Added info on mail notification settings and user preferences file … (diff)
10:08 Changeset [2790] by gregory
  • trunk/client/servlet/src/org/proteios/gui/form/Checkbox.java
  • trunk/client/servlet/src/org/proteios/gui/form/Field.java
  • trunk/client/servlet/src/org/proteios/gui/form/Select.java
  • trunk/client/servlet/src/org/proteios/gui/form/TextField.java
  • trunk/client/servlet/src/org/proteios/gui/GUIElement.java
  • trunk/client/servlet/src/org/proteios/gui/table/Column.java
Refs #449. The code now compiles on my OS X with java 1.5.0_13
10:04 Ticket #449 (defect) created by gregory
Compilation errors on mac with java 1.5.0_13

08/12/08:

16:08 Changeset [2789] by olle
  • trunk/client/servlet/src/org/proteios/Service.java
Refs #443. Class/file Service.java in client/servlet/ updated in protected …
15:06 Changeset [2788] by olle
  • trunk/api/core/src/org/proteios/core/Job.java
  • trunk/api/core/src/org/proteios/io/MailUtil.java
Refs #257. First version of mail notification of job completion: 1. …
14:25 Changeset [2787] by olle
  • trunk/api/external/activation.jar
  • trunk/api/external/mail.jar
Refs #257. Java archive files for JavaMail? API and the …
14:12 Changeset [2786] by fredrik
  • trunk/api/core/src/org/proteios/core/FileType.java
  • trunk/api/core/src/org/proteios/core/Install.java
  • trunk/plugin/conf/xsd/mzML.xsd
  • trunk/plugin/src/org/proteios/plugins/DtaToMzMLPlugin.java
  • trunk/plugin/src/org/proteios/plugins/PlgsToMzMLPlugin.java
Refs #248. Added mzML file type. Updated mzML xsd. Updated mzML converters …
11:36 Changeset [2785] by olle
  • trunk/misc/install/install-win.bat
Refs #257. Refs #448. Bug fixed in installation script install-win.bat in …

08/11/08:

15:39 Changeset [2784] by fredrik
  • trunk/plugin/src/org/proteios/plugins/PlgsToMzDataPlugin.java
Fixed problem with !DOCTYPE declaration in PLGS files. Also now setting …
14:00 Changeset [2783] by olle
  • trunk/client/servlet/src/locale/en/dictionary
  • trunk/client/servlet/src/org/proteios/action/preferences/SavePreferences.java
  • trunk/client/servlet/src/org/proteios/action/preferences/ViewPreferences.java
  • trunk/client/servlet/src/org/proteios/gui/form/FormFactory.java
  • trunk/client/servlet/src/org/proteios/gui/MainMenu.java
Refs #448. Refs #257. Refs #287. First version of support for managing …
13:04 Changeset [2782] by olle
  • trunk/api/core/src/org/proteios/core/PreferencesFile.java
  • trunk/api/core/src/org/proteios/io/NotificationConfiguration.java
Refs #257. Added classes/files for management of a user …
11:29 Changeset [2781] by olle
  • trunk/client/servlet/src/org/proteios/action/preferences
Refs #448. Added directory action/preferences in client/servlet/ for …
11:14 Changeset [2780] by olle
  • trunk/api/core/build.xml
  • trunk/api/core/src/org/proteios/install/GetHostName.java
  • trunk/api/core/src/org/proteios/install/GetHostName.manifest
  • trunk/build.xml
  • trunk/client/servlet/conf/proteios.config.in
  • trunk/misc/install/install-linux.sh
  • trunk/misc/install/install-win.bat
Refs #257. Refs #448. Proteios installation updated to store values of …

08/08/08:

13:33 Ticket #448 (enhancement) created by olle
User preferences storage and editing
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