-
When you start CellProfiler set the CellProfiler plugins directory to the
cp_plugins
directory, and the ImageJ plugin directory to theij_plugins
directory. -
Set the
CLASSPATH
environment variable to include the jarsDImageSVN_.jar
andjsch.jar
in thejarlib
directory. There are various ways to set the classpath. For general instructions (Windows and Linux) see here.(Linux) Another way to set the classpath is on application basis like I did on the server in the
/usr/local/bin/cellprofiler
script:#!/bin/sh # # Wrapper script used to start CellProfiler on Linux. PREFIX=/opt/cellprofiler export JAVA_HOME=/usr/lib/jvm/java-7-openjdk-amd64 export LD_LIBRARY_PATH=$JAVA_HOME/jre/lib/amd64/server export CLASSPATH=/data/shared/cellprofiler_plugins/jarlib/DImageSVN_.jar:/data/shared/cellprofiler_plugins/jarlib/jsch.jar python2 $PREFIX/CellProfiler/CellProfiler.py "$@"
-
(Linux) Make sure python-suds is available.
-
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