Hi Bernd,<br><br>I was playing with Shoola today too and managed to get that same exception by waiting about an hour after launching the program. My guess is that my session timed out, and Shoola failed to retrieve things properly after that. So I figure the exception is probably a fairly generic failure (I'm betting the exception happens any time something goes wrong in the rendering pipeline when communicating with the server). (Shoola developers: please correct me if I am wrong.)
<br><br>It seems clear there is something pretty funky about your installation on the server side. If even the web client isn't working, it's probably not worth your time to try the Java clients. You mentioned some LDAP errors -- I thought OME didn't support LDAP without Mike McCaughey's patch. Are you using that patch? If so, have you tested without it? Also, those LDAP errors (to my untrained eye) didn't look particularly fatal.
<br><br>Unfortunately, I can't really help much more with your install woes, since the installer, web interface and Shoola all work on my Ubuntu system. Maybe someone else can comment. Or maybe you can hack into the perl a little to learn more information.
<br><br>-Curtis<br><br><div><span class="gmail_quote">On 9/11/06, <b class="gmail_sendername">Bernd Jagla</b> <<a href="mailto:baj2107@columbia.edu">baj2107@columbia.edu</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<div>
<div link="blue" vlink="purple" lang="EN-US">
<div>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">I have now tried shoola and get the following error message:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Rendering Engine Exception: Can't load image metadata. Image id: 98</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">org.openmicroscopy.shoola.env.rnd.metadata.MetadataSourceException:
Can't retrieve the pixels metadata.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.metadata.MetadataSource.load(MetadataSource.java:210)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.metadata.MetadataSource.makeNew(MetadataSource.java:80)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.Renderer.makeNew(Renderer.java:114)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.RenderingManager.makeNew(RenderingManager.java:91)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.RenderingEngine.handleLoadImage(RenderingEngine.java:137)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.rnd.RenderingEngine.eventFired(RenderingEngine.java:242)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at org.openmicroscopy.shoola.env.event.EventBusImpl.dispatch(EventBusImpl.java:185)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.event.EventBusImpl.post(EventBusImpl.java:165)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.agents.datamng.DataManager.viewImage(DataManager.java:1019)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at org.openmicroscopy.shoola.agents.datamng.DataManagerCtrl.viewImage(DataManagerCtrl.java:333)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.agents.datamng.TreePopupMenuManager.view(TreePopupMenuManager.java:173)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.agents.datamng.TreePopupMenuManager.actionPerformed(TreePopupMenuManager.java:147)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1849)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2169)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:420)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:258)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.AbstractButton.doClick(AbstractButton.java:302)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:1000)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:1041)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.Component.processMouseEvent(Component.java:5488)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
javax.swing.JComponent.processMouseEvent(JComponent.java:3126)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at java.awt.Component.processEvent(Component.java:5253)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.Container.processEvent(Container.java:1966)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.Component.dispatchEventImpl(Component.java:3955)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font><span lang="FR">at
java.awt.Container.dispatchEventImpl(Container.java:2024)</span></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;" lang="FR"> at
java.awt.Component.dispatchEvent(Component.java:3803)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;" lang="FR"> at
java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4212)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;" lang="FR"> </span>at
java.awt.LightweightDispatcher.processMouseEvent(Container.java:3892)</font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.LightweightDispatcher.dispatchEvent(Container.java:3822)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font><span lang="FR">at
java.awt.Container.dispatchEventImpl(Container.java:2010)</span></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;" lang="FR"> </span>at
java.awt.Window.dispatchEventImpl(Window.java:1774)</font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.Component.dispatchEvent(Component.java:3803)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventQueue.dispatchEvent(EventQueue.java:463)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventDispatchThread.pumpOneEventForHierarchy(EventDispatchThread.java:242)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:163)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:157)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:149)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
java.awt.EventDispatchThread.run(EventDispatchThread.java:110)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Caused by: org.openmicroscopy.is.ImageServerException:
org.apache.commons.httpclient.HttpRecoverableException: Error in parsing the
status line from the response: unable to find line starting with
"HTTP"</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.is.HttpImageServer.executeCall(HttpImageServer.java:157)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.is.HttpImageServer.getPixelsInfo(HttpImageServer.java:360)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.is.HttpImageServer.getStackStatistics(HttpImageServer.java:1168)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.is.PixelsFactory.getStackStatistics(PixelsFactory.java:803)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at
org.openmicroscopy.shoola.env.data.PixelsServiceAdapter.getStackStatistics(PixelsServiceAdapter.java:208)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> at org.openmicroscopy.shoola.env.rnd.metadata.MetadataSource.load(MetadataSource.java:198)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> ... 37 more</span></font></p>
<div style="border-style: none none double; border-color: -moz-use-text-color -moz-use-text-color windowtext; border-width: medium medium 2.25pt; padding: 0in 0in 1pt;">
<p style="border: medium none ; padding: 0in;"><font face="Courier New" size="2"><span style="font-size: 10pt;">Exception in thread
"AWT-EventQueue-0"</span></font></p>
<p style="border: medium none ; padding: 0in;"><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
</div>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">When importing the metamorph images I get following output after import
(see the "unknown format", is this correct???), and still cant see
the thumbnails:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">[bernd@BERND-HOME TestImages]$ ome import 011B1_Morph_*.TIF</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Importing files</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font><span lang="DE">1/15: [IN PROGRESS] Starting import</span></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> 14/15: [IN PROGRESS]
Importing</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at /home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Use of uninitialized value in concatenation (.) or string at
/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/ImportEngine/AbstractFormat.pm
line 378.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> 15/15: [IN PROGRESS]
Executing import chain</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> 15/15: [FINISHED]
Imported 16 images from 12 files. 12 scanned. <font color="red"><span style="color: red;">12 unknown format</span></font>, 0 duplicates, 0 errors.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Successfully Imported:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1345: 011B1_Morph_A01_s2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1346: 011B1_Morph_P01_s2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1347: 011B1_Morph_A01_s1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1348: 011B1_Morph_P01_s1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1349: 011B1_Morph_P01_s1_w2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1350: 011B1_Morph_A01_s1_w2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1351: 011B1_Morph_P01_s1_w3</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1352: 011B1_Morph_P01_s1_w1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1353: 011B1_Morph_A01_s2_w2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1354: 011B1_Morph_A01_s1_w1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1355: 011B1_Morph_A01_s2_w3</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1356: 011B1_Morph_P01_s2_w2</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1357: 011B1_Morph_A01_s1_w3</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1358: 011B1_Morph_A01_s2_w1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1359: 011B1_Morph_P01_s2_w3</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">1360: 011B1_Morph_P01_s2_w1</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Exiting...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Exiting...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Any ideas???</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Thanks,</span></font></p></div><div><span class="sg">
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">Bernd</span></font></p></span></div><div><span class="e" id="q_10d9e2a20e8ec4bb_2">
<p><font face="Courier New" size="2"><span style="font-size: 10pt;"> </span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|-----Original Message-----</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|From: <a href="mailto:ome-devel-bounces@lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ome-devel-bounces@lists.openmicroscopy.org.uk
</a> [mailto:<a href="mailto:ome-devel-" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ome-devel-</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|bounces@<a href="http://lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">lists.openmicroscopy.org.uk
</a>] On Behalf Of Bernd Jagla</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Sent: Friday, September 08, 2006 10:44 AM</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|To: 'Curtis Rueden'</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Cc: <a href="mailto:ome-devel@lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ome-devel@lists.openmicroscopy.org.uk
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Subject: Re: [ome-devel] image display problem</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Curtis,</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|I can see the image even though I have to adjust the intensities...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|I see this LDAP message in the error_log of httpd:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Can anyone make sense of this?</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Here is the error log from the following steps:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Remove /OME (rm -rf)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Dropdb ome</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Sudo perl install -y</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|ome import ~/allOMEs/inca/Screening.ome</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|(=> no problems)</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|ome import ~/test/Ai_compound_import.ome</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|=> problems with</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|OME::Tasks::LSIDManager::getRemoteObject() is not implemented. at</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|/usr/lib/perl5/site_perl/5.8.6/OME/ImportExport/ModuleImport.pm line
183</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Could it be that this error comes up when doing the second import
within a</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|certain timeframe? There is no error log entry when this error occurs.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Thanks,</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Bernd</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Ok here is finally the snippet from the error_log:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:21 2006] [notice] Digest: generating secret for
digest</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|authentication ...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:21 2006] [notice] Digest: done</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:21 2006] [notice] LDAP: Built with OpenLDAP LDAP SDK</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:21 2006] [notice] LDAP: SSL support unavailable</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:22 2006] [notice] mod_python: Creating 4 session
mutexes</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|based on 150 max processes and 0 max threads.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:22 2006] [notice] Apache/2.0.54 (Fedora) configured
--</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|resuming normal operations</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Use of uninitialized value in print at</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|/home/bernd/allOMEs/06_08_18/OME/src/perl2/mod_perl_test.pl line 6.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Use of uninitialized value in print at</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|/home/bernd/allOMEs/06_08_18/OME/src/perl2/mod_perl_test.pl line 6.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:22 2006] [error] [client <a href="http://127.0.0.1" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">127.0.0.1</a>
] In PID 10585,
Error</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|calling OMEIS: Method parameter missing</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:26 2006] [error] [client <a href="http://127.0.0.1" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">127.0.0.1</a>
] In PID 10601,
Error</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|calling OMEIS: Method parameter missing</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:44 2006] [notice] SIGHUP received. Attempting
to restart</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:44 2006] [warn] The ScriptAlias directive in</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|/OME/conf/httpd2.omeis-dev.conf at line 2 will probably never match
because</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|it overlaps an</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">| earlier ScriptAlias.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Use of uninitialized value in concatenation (.) or string at</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|/home/bernd/allOMEs/06_08_18/OME/src/perl2/OME/Install/ApacheConfigTask.pm</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|line 75.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Processing OME-startup.pl</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|DBD::Pg::st execute failed: ERROR: permission denied for
relation</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|experimenters</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Tring to get a session as the Apache user...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Pre-loading SemanticTypes...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|WARNING: Explicit deletion of OME::Session at /OME/conf/OME-startup.pl
line</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|76</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|OME::Session __destroySession: $self->__destroySession();</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">| at /OME/conf/OME-startup.pl line 76</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Pre-loading classes for OME::Web...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:47 2006] [notice] Digest: generating secret for
digest</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|authentication ...</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:47 2006] [notice] Digest: done</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:47 2006] [notice] LDAP: Built with OpenLDAP LDAP SDK</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:47 2006] [notice] LDAP: SSL support unavailable</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:48 2006] [notice] mod_python: Creating 4 session
mutexes</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|based on 150 max processes and 0 max threads.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|[Fri Sep 08 09:31:48 2006] [notice] Apache/2.0.54 (Fedora) configured
--</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|resuming normal operations</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||-----Original Message-----</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||From: <a href="mailto:ctrueden.wisc@gmail.com" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ctrueden.wisc@gmail.com</a> [mailto:
<a href="mailto:ctrueden.wisc@gmail.com" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ctrueden.wisc@gmail.com</a>] On
Behalf</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|Of</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||Curtis Rueden</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||Sent: Friday, September 08, 2006 9:40 AM</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||To: Bernd Jagla</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||Cc: <a href="mailto:ome-devel@lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ome-devel@lists.openmicroscopy.org.uk
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||Subject: Re: [ome-devel] image display problem</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||Hi Bernd,</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||You could try reading the binary .ome files with VisBio from disk, to
see</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||how things look.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||-Curtis</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||On 9/7/06, Bernd Jagla < <a href="mailto:baj2107@columbia.edu" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">baj2107@columbia.edu
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|<mailto:<a href="mailto:baj2107@columbia.edu" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">baj2107@columbia.edu</a>></span>
</font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||> wrote:</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| Hi there,</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| I managed to get the images from the INCell
imported again with the</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||new version of OME. The images are in OMEIS (verified). They 16 bit
Tiffs.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| The problem I have is that the images are not
displayed on the</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|screen.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||They cannot be exported to VisBio. I get an XML from the download
with</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|some</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||binary data but can't confirm that this is what I want since I don't
know</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||how to read them. I believe that the attached error log has something
to</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|do</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||with this. I couldn't see anything interesting in the http error
logs.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| Please advise where look for possible solutions.</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| Thanks,</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| Bernd</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| _______________________________________________</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| ome-devel mailing list</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| <a href="mailto:ome-devel@lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">ome-devel@lists.openmicroscopy.org.uk
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|| <a href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">||</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|_______________________________________________</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|ome-devel mailing list</span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|ome-<a href="mailto:devel@lists.openmicroscopy.org.uk" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">devel@lists.openmicroscopy.org.uk
</a></span></font></p>
<p><font face="Courier New" size="2"><span style="font-size: 10pt;">|http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel</span></font></p>
</span></div><div></div>
</div>
</div></blockquote></div><br>