2/18/2024 0 Comments Imagej fiji pivImportError: DLL load failed: The specified module could not be found.Ĭurious, but I saw online that we could format that differently: import imagej Initializing ImageJ in Python import imagejįile "C:/Users/msout/Documents/virtual env testing.py", line 125, in įile "C:\Users\msout\Anaconda2\envs\pyimagej\lib\site-packages\jnius\_init_.py", line 12, in I’ve tried changing these variables inside of my python script but for whatever reason that was giving me problems. The proper values for these variables can be seen when you call activate pyimagej in the Anaconda Prompt. I can confirm that it’s running python3 with print statements.įor anyone looking at this in the future, keep in mind that I’ve manually set the JAVA_HOME and PYJNIUS_JAR environment variables on my system. Spyder is set to use the virtual environment by changing its interpreter toĬ:\Users\msout\Anaconda2\envs\pyimagej\python.exe. (pyimagej) C:\Users\msout\Anaconda2\envs\pyimagej>python (pyimagej) C:\Users\msout\Anaconda2>conda install scikit-imageĬonfirming that imagej can be imported successfully (pyimagej) C:\Users\msout\Anaconda2\envs\pyimagej>activate pyimagej (pyimagej) C:\Users\msout\Anaconda2>pip install update scyjava (pyimagej) C:\Users\msout\Anaconda2>pip install update pyjnius (pyimagej) C:\Users\msout\Anaconda2>pip install update maven (pyimagej) C:\Users\msout\Anaconda2>pip install update imglyb (pyimagej) C:\Users\msout\Anaconda2>conda install cython (pyimagej) C:\Users\msout\Anaconda2>conda install requests C:\Users\msout\Anaconda2>activate pyimagej If memory serves, most of the entries beyond cython came back as already satisfied. Making sure that the environment has all the modules it needs: any that were willing to cooperate with conda were installed as such. Using the Anaconda Command Prompt in Administrator mode: C:\Users\msout\Anaconda2>conda config -add channels conda-forgeĬ:\Users\msout\Anaconda2>conda config -set channel_priority strictĬ:\Users\msout\Anaconda2>conda create -n pyimagej pyimagej openjdk=8 I’m working with python 2.7 in Spyder, so I’ve created a python3 virtual env in my Anaconda2 folder via the recommended method. I’m not really familiar with java, so there’s a chance I’ve done something explicitly incorrect, but I figured I’d post my experiences regardless. For context, the end goal is to create many 2-frame hyperstacks and get the Advanced PIV plugin up and running without any memory issues (this certainly involves closing things as we go, but that’s likely a logistics discussion for another time). It has proven to be quite the challenge to get things running. I’ve been working to automate a lot of my labs data collection and analysis in python, so I’ve started working recently with pyimagej.
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