Re: [NMusers] Stop During PsN

[Kajsa Harling]

Dear Xinting, Previously when I wanted to resume a PsN run I used the -directory= in the command, and according to the PsN project homepage, this would enable a resume of a PsN run after stop. Such a method works fine without the -clean=3 option, but initiated a new search for covariates if I have -clean=3 option. However, this method seems to be different from the above mentioned. Yes, it is a different method. Setting -clean=3 removes files that are needed to resume an interupted run. I will make this more clear in the documentation, it is not explained properly at the moment. It seems to me that the method you mentioned requires 2 steps. The first one is to have only the included relations at the time of stop in the scm file. Should I use the -directory= option in the command line? The steps you need to perform are as follows: 1) Make a copy of your original scm configuration file, give it a new name and save it  in the same folder as the original scm config file 2) open the original scm log file in the top level of the orginal scm run folder and locate the *last* place where it says "Relations included after this step", and copy those log-file-relations to the new configuration file under a new [included_relations] section at the end of the new configuration file. An example of a [included_relations] section with correct syntax is found in http://psn.sourceforge.net/pdfdocs/config_template_backward.scm and other details are found in the scm userguide. 3) If you had set option directory in your original config file then change the setting of that option in the new config file to something different 4) start a new scm with the same command as you used for the original scm, except that you use the new config file instead of the old, and either set -directory to the name of a folder that does not yet exist or omit the -directory option completely in which case the program will select a unique name for you. Secondly, if I start a new run in a new directory, why should I use the exactly same original input? You do not use exactly the same input, you use a new setting of [included_relations]. The input model however should be exactly the same. By doing so, would be program being able to skip the already established covariates and start from there onwards? Yes, it will start from the set of relations specified in [included_relations]. What if I use the unidentified relationships in the new run, and using a mod file with relations in the scm logfile at the time of stop? That will usually not work. One last small question is that a few days ago, an error message saying "psn.lst" is not created [something like this] was put forward by the program during the middle of searching. The cov-par relation was completed successfully before crush. Do you have any idea what might be the possible reasons of this? I need the complete error message in its context of the scm run messages to be able to answer your question. Best regards, Kajsa -- ----------------------------------------------------------------- Kajsa Harling, PhD System Developer Department of Pharmaceutical Biosciences Uppsala University kajsa.harl...@farmbio.uu.se +46-(0)18-471 4308 http://www.farmbio.uu.se/research/researchgroups/pharmacometrics/ -----------------------------------------------------------------