Appendixes | Trouble Shooting

Trouble Shooting
This troubleshooting guide can help you diagnose and resolve problems that you might encounter when running JMP Clinical software. If problems persist after troubleshooting, contact JMP Technical Support at . Select Genomics > Documentation and Help > Contacting Technical Support or Clinical > Documentation and Help > Contacting Technical Support in JMP, for additional information.
The message: Existing Client Found is displayed in the Install Shield Wizard , indicating that a preexisting copy of SAS has been found on a network server.
A pre-existing copy of SAS has been found that is configured to run as a thin Client from a network server. JMP Genomics and JMP Clinical will work with a personal copy of SAS loaded on the same Client machine only and configured to work locally.
Contact JMP Technical Support ( ) for instructions and assistance in resolving this problem.
Click Open License .
Click Start > Programs > SAS > SAS 9.3 License Renewal & Utilities > Renew SAS Software to open the renewal tool.
Click OK in the confirmation .
Make sure that the SDD URL, specified using the Configure Life Sciences Settings report, is correct. Click File > Life Sciences Settings and click the Integrations tab to inspect the specified URL. Correct if necessary.
Microsoft Word uses a Smart Quote feature that converts quotation marks from the format needed by SAS into a format more appropriate for English language text.
There is also the possibility of a bug in the SAS macro code. If you have found what appears to be a bug, please send the SAS log and explanation to . Please describe your procedure in sufficient detail for us to reproduce the problem. If you are a SAS programmer, you might wish to view and even edit the original SAS code in the ProcessLibrary and/or MacroLib folders.
A WARNING dialog appears, telling you that SAS is connected and a report is already running.
JMP can run one only report at a time and does not queue jobs. Click OK in the dialog to wait, disregard the second Run, and let the current report continue running. Click View Log to view the current SAS log to get information about the current report. Click Stop to stop the current report. If the SAS process does not stop in a short period of time, it is okay to kill the sas.exe process directly from s Task Manager, and then click Stop again.
Click Run again. A WARNING: SAS is Connected should appear.
Click View Log . If any SAS ERROR messages appear, click Stop to stop the current report. If not, proceed to the step below.
View the SAS log that is displayed in the JMP Log to see the most recently executed code. You can continue to click View Log as many times as you like to check the status of the SAS program. Alternatively, you can monitor generated file activity in the SAS working folder. To open this folder while the analysis is running, click Open SAS Temporary Folder . You should see various files being generated as the report runs. On s, press F5 to refresh the folder while you are monitoring it.
Open the s Task Manager (press <Ctrl+Alt+Delete> ), select the PROCESSES tab and watch sas.exe for activity (Click View>Select Columns... to add I/O Reads , I/O Writes , and I/O Other as columns to view).
Double-click on the sasclean.jsl script in the folder.
An ERROR message is displayed stating: User does not have appropriate authorization level for library OUTLIB .
This message is most frequently generated when certain general directories, such as the Desktop or My Documents , are specified as the output folder. To resolve this problem, specify another directory as the output folder and run the report again.
In either of these cases, an alternative way to debug the report is to open the .sas file in the SAS 9.3 Display Manager (right-click and select Open with SAS 9.3 ) and run it from there by pressing F3 . The SAS Display Manager provides options for saving or deleting sections of long logs. On s operating systems, you can alternatively right-click on a .sas file and select Submit to SAS 9.3 .
Numerous ERROR messages are generated in the SAS log.
Reduce the number of variables using K-Means Clustering, as follows. Transpose the data to tall form using Transpose Rectangular , run K-Means Clustering to generate a few thousand or fewer clusters, retain representatives from each cluster to use as the data, and then transpose back to wide form using Transpose Rectangular .
Opening a data file using the File > Open command in any JMP Clinical report
The column names listed in the Available Variables box of a dialog appear different from the original column names in the data set.
SAS uses two ways to name a column: the variable label and the variable name. When a file is opened using the File > Open command from the JMP menu, SAS variable labels are displayed. These might differ from those displayed in the Available Variables list in the JMP report dialogs, which display SAS variable names for the available variables.
To solve the problem, open the data file using the Open button on the report dialogs. This displays the table with names the same as those in the Available Variables lists.
Alternatively, use the File > Open command from the JMP menu and, in the Open Data File dialog, change File of type to SAS Data Sets and click the Use SAS Variable Names for Column Names check box.
Note : This report cannot be run on machines running English-language operating systems if specified filters contain double-byte character sets (DBCS).
An error exists in the underlying JMP Clinical code. The code in these versions reads: random Bi ~ binary(P) subject = s monitor =(Bi) ;. Instead, this line of code should be: random Bi ~ binary(P) subject = e monitor =(Bi); . This bug has been corrected in JMP Clinical v5.1. You should update JMP Clinical to v5.1.
The following ERROR message is generated: ERROR: NEWRAP Optimization cannot be completed.
You have specified Negative Binomial as the Distribution type for Incidence Density Modeling but the actual distribution of data does not approximate a negative binomial.
If this error affects only a small number of subjects, 1 you can opt to ignore it.
After running an ANOVA or One-way ANOVA the following ERROR message is generated when you click Create a Subset with Mean Difference and P-Value Criteria, and choose a single comparison: Note: There is no significant difference found. You can change the cutoff values and recreate the subset table.
Files in the SAS Home directory cannot be deleted after running the Uninstaller.
2. Double click SASxxx to open the panel, highlight, and copy the service name.
3. Open the Starter , and enter cmd in the text box and click Enter to open a command prompt.
4. At the prompt, type sc delete SASxxx and click Enter to delete SASxxx .
Note : You should delete all the SAS services before uninstalling SAS.

Examine the SAS log to determine the number of subjects affected.