Home Instructions Output format Data Software


Source code for EffectorP

The source code for running EffectorP locally can be found here: EffectorP_1.0.tar.gz

Have a look at the EffectorP GitHub page for version history and for obtaining previous versions: EffectorP GitHub

EffectorP is licensed under a GPLv3 licence with CSIRO Disclaimer


Installation

EffectorP has been written in Python and uses pepstats from the EMBOSS software and the WEKA 3.6 software. To get EffectorP to work on your local machine, you need to install the EMBOSS and WEKA softwares from source. Both are already provided in the EffectorP distribution to ensure that compatible versions are used.

1.Make sure EffectorP has the permission to execute. Then unpack EffectorP in your desired location

  • tar xvf EffectorP_1.0.tar.gz
    chmod -R 755 EffectorP_1.0/
    cd EffectorP_1.0
  • 2. For the EMBOSS installation, you need to switch to the Scripts directory and unpack, configure and make

  • cd Scripts
    tar xvf emboss-latest.tar.gz
    cd EMBOSS-6.5.7/
    ./configure
    make
    cd ../
  • 3. For WEKA, you need to simply unzip the file weka-3-6-12.zip

  • unzip weka-3-6-12.zip
  • If you are having troube installing EMBOSS, please see here for help.
    If you are having troube installing WEKA, please see here for help.

    4. Test if EffectorP is working

  • python EffectorP.py -i Effector_Testing.fasta

  • Contact

    For comments and suggestions regarding the code please contact jana.sperschneider@csiro.au