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--- common_errors [2015/06/30 21:11]
mgstauff [No Submit Host]
+++ common_errors [2017/08/02 18:51] (current)
mgstauff [Network & VPN Issue]
@@ Line 1: / Line 1: @@
+** [[:start|Back To Main Page]] **
 =====Common Errors and Messages=====
+====Network & VPN Issue====
+Issues with the UPHS network and VPN are handled by the [[accounts_and_vpn#getting_help_for_uphs_network_accounts_and_vpn|UPHS Service Desk]]
 ====No Submit Host====
   denied: host "compute-0-6.local" is no submit host
-This means you tried to run ''qlogin'' or ''qsub'' from a compute node. This isn't allowed.
+This means you tried to run ''qsub'' from a ''qlogin'' session or ''qsub'' job. This should work, so please tell the admins about the error.
-You should:
+==== ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS Warning ====
-) Check that what computer you're running your command from. e.g. if you're already in qlogin session, you can't call ''qlogin'' or ''qsub''.
+You may see this warning message with a qsub submission:
+  === WARNING ===
+  The variable ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS is set in
+  your environment to , and you used the qsub -V argument.
+  However, the CfN-cluster login script will assign ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS
+  to match the number of slots you have requested (i.e. NSLOTS var).
+  Ignoring your value for ITK_GLOBAL_DEFAULT_NUMBER_OF_THREAD.
+  Please contact the admin with questions.
+  ===============
+You can generally ignore this. The environment variable (env var) ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS is used by ITK-based apps like ANTs, ITK-SNAP. Your script is setting this variable to a value of 1, which means ITK apps will be single-threaded, //and// it's calling qsub with the -V option which exports your env vars to the qsub job. But the cluster is setup for qsub so it automatically sets the ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS variable depending on how many slots you've requested for your job. So this message is saying the value for ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS that your script has set is being unset, i.e. ignored, so that the value can be reset using the number of slots you've requested.
+If you want to get rid of this warning, you'll need to examine your job script and remove the definition of ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS. We don't suggest removing the -V from the call to qsub unless you know for sure that qsub doesn't need other env vars to be passed to it.
+==== x2go Session Create/Resume Errors ====
+See [[x2go_remote_desktop#troubleshooting|the x2go page]].
+==== GUI Windows / X11 / GLX errors ====
+If you have trouble with graphical applications (GUI) X11 issues, for example an error that includes ''GLXBadContext'', see [[logging_in#graphical_gui_applications_-_x11_xwindows|this page.]]
+On **Windows**, you might try the MobaXterm app mentioned on the above page.
-) Check your script to see what it's calling
+On **Mac**, see the notes on XQuartz versions on the above page.
-) Some FSL commands call qsub and must be run on chead directly. [[fsl_usage#commands_that_use_sge|See this page]].

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