Hello PyMOL and Java users, We have found a solution to the problem we reported last week.
Bug: Pymol occasionally blocked when started with java.Runtime.exec. Description: The error was in our java-application since it is quite difficult to use the Process class properly. The error was hard to find because it only occured in some java-versions. When processes that write to stdout are launched with Runtime.exec(...) it is important to read the output into a BufferedInputStream. Otherwise the process is stopped after some amount of produced output because of pipe_wait. In this case listing processes with ps shows an S (stopped) instead of R (running). In our application we used InputStream but should have BufferedInputStream. Yours, Christoph Gille & Kristian Rother
