https://www.slicer.org/w/index.php?action=history&feed=atom&title=Slicer3%3AXNAT 2026-04-15T10:47:58Z Revision history for this page on the wiki MediaWiki 1.33.0 https://www.slicer.org/w/index.php?title=Slicer3:XNAT&diff=5687&oldid=prev 2008-08-01T18:47:38Z

<p></p> <table class="diff diff-contentalign-left" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 18:47, 1 August 2008</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l53" >Line 53:</td> <td colspan="2" class="diff-lineno">Line 53:</td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[Slicer3:XCEDE_use_cases]]</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[Slicer3:XCEDE_use_cases]]</div></td></tr> <tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">== Simple tutorial: using XNAT Desktop to upload data ==</ins></div></td></tr> <tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[Slicer3:XND]]</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== User Requests ==</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== User Requests ==</div></td></tr> </table>

Wjp https://www.slicer.org/w/index.php?title=Slicer3:XNAT&diff=4646&oldid=prev 2008-05-20T20:03:13Z

<p><span dir="auto"><span class="autocomment">Background</span></span></p> <table class="diff diff-contentalign-left" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 20:03, 20 May 2008</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== Background ==</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== Background ==</div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>* <del class="diffchange diffchange-inline">XNAT is available at </del>http://www.xnat.org</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>* <ins class="diffchange diffchange-inline">[</ins>http://www.xnat.org <ins class="diffchange diffchange-inline">XNAT] </ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Sample XNAT sites:</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>* Sample XNAT sites:</div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>** http://www.oasis-brains.org</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>** http://www.oasis-brains.org</div></td></tr> </table>

Marianna https://www.slicer.org/w/index.php?title=Slicer3:XNAT&diff=3464&oldid=prev 2008-05-15T17:50:28Z

<p>1 revision</p> <table class="diff diff-contentalign-left" data-mw="interface"> <tr class="diff-title" lang="en"> <td colspan="1" style="background-color: #fff; color: #222; text-align: center;">← Older revision</td> <td colspan="1" style="background-color: #fff; color: #222; text-align: center;">Revision as of 17:50, 15 May 2008</td> </tr><tr><td colspan="2" class="diff-notice" lang="en"><div class="mw-diff-empty">(No difference)</div> </td></tr></table>

Marianna https://www.slicer.org/w/index.php?title=Slicer3:XNAT&diff=3463&oldid=prev 2007-09-26T14:16:08Z

<p><span dir="auto"><span class="autocomment">User Requests</span></span></p> <p><b>New page</b></p><div>== Background ==<br /> <br /> * XNAT is available at http://www.xnat.org<br /> * Sample XNAT sites:<br /> ** http://www.oasis-brains.org<br /> ** http://iaclin2.wustl.edu/mbdr<br /> ** http://yaz.bwh.harvard.edu:8080/xnat/ (not working: being used to debug Rocks-based install)<br /> ** http://yaz.bwh.harvard.edu:8080/xnat2/ (does work; manual install)<br /> ** http://sandbox.xnat.org/<br /> <br /> == Existing Slicer3 Interface ==<br /> [[Image:Slicer3-xnat.png|thumb|300px|right|Illustration of download process]]<br /> Basic steps:<br /> * Browse to the desired image data set<br /> * Select Download Images<br /> * Pick which images you want<br /> * Select the filetype as &quot;xar (3D Slicer)&quot;<br /> * When the browser asks what to do with the file, select Slicer3 as the application (browse to where the program is installed).<br /> * Once downloaded, Slicer will look in the file and offer to load the images.<br /> <br /> Planned improvements:<br /> * Fundamental goals for this project:<br /> ** is to be able to upload raw data into the database (core xnat feature)<br /> ** download selected datasets to slicer (see above)<br /> ** run analysis routines in slicer<br /> ** upload the results linked back to original data<br /> * Further nice-to-have goals:<br /> ** use XNAT as an optional back end for the integration of [http://www.batchmake.org BatchMake] for population processing and parameter space exploration<br /> ** upload analysis results (numerical values) to database for plotting and other analysis<br /> <br /> == Installation == <br /> <br /> Options:<br /> <br /> * instructions on http://xnat.org<br /> <br /> * use the BIRN ROCKS installer (contact BIRN-CC via http://www.nbirn.net)<br /> <br /> * use the xnat installer script from Gabriele Fariello (fariello at fas.harvard.edu)<br /> ** this works for some linux distributions (Red Hat and probably Ubuntu)<br /> ** you must have Sun Java installed (not the gnu version)<br /> ** best to use this installer on a fresh machine<br /> ** apt-get of postgres may hang waiting for you to press 'Y'<br /> <br /> == Tests ==<br /> <br /> Get the xnat webservices command line tools from http://www.xnat.org/tools.html#<br /> <br /> <br /> ArcGet -host www.oasis-brains.org -u guest -p guest -s OAS1_0001_MR1<br /> <br /> == Further XCEDE Integration ==<br /> <br /> [[Slicer3:XCEDE_use_cases]]<br /> <br /> == User Requests ==<br /> <br /> Potential users of this project, please list feature requests and/or proposed use scenarios in this section.<br /> <br /> * How is patient deidentification handled in XNAT?</div>

Pieper