batch script

[Lukasz Priba]

Hi,

I’m running jMRUI AMARES analysis on some of my data in batch mode. I’m trying to script the analysis so it repeats the process on other datasets. I’m running into a small problem where the cmd remains open after each analysis – any idea how I can terminate cmd after AMARES is completed? I expected “exit” or “exit /b” to do the trick but (sadly) it didn’t

many thanks

[Mariano Uberti]

Hi:

If you are running your script on Windows, create a batch script that 1) Calls Amares batch script and then 2) kills the command window. The script would look something like:

CALL MyAmaresBatchScript.bat &
taskkill /IM cmd.exe

However, you should be careful in making sure that the AMARES “results” file gets completely written into disk before you “kill” the command line. So I suggest to add some pause before you kill the command line (e.g. 3s pause):

CALL MyAmaresBatchScript.bat &
timeout 3
taskkill /IM cmd.exe

[Author]

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