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Download lcgeo from GitHub (delete any older installation of lcgeo, if the case)

git clone https://github.com/iLCSoft/lcgeo.git 

Configure ILCSoft v02-00-02

cd lcgeo
mkdir build
cd build
source /cvmfs/ilc.desy.de/sw/x86_64_gcc49_sl6/v02-00-02/init_ilcsoft.sh

rm ../plugins/LinearSortingPolicy.cpp
cmake -DCMAKE_CXX_COMPILER=`which g++` -DCMAKE_C_COMPILER=`which gcc` -C $ILCSOFT/ILCSoft.cmake ..
make -w -j4 install

cd ..
source bin/thislcgeo.sh

If you want, you can visualise the model with

geoDisplay SiD/compact/SiD_o2_v03/SiD_o2_v03.xml

and check volume overlaps with the TGeo command (while in ROOT):

root [0] gGeoManager->CheckOverlaps(0.01);

Run simulation with the SiD_o2_v03 model, e.g.

ddsim --compactFile SiD/compact/SiD_o2_v03/SiD_o2_v03.xml --runType batch --inputFile example/mcparticles.slcio --outputFile=testSiD_o2_v03.slcio --numberOfEvents 100

Check the output, e.g.

anajob testSiD_o2_v03.slcio

dumpevent testSiD_o2_v03.slcio 1

Edit it to use the above testSiD_o2_v03.slcio as input file and point to the correct PandoraSettings*, gear XML, etc. 

Then run

Marlin SiDReconstruction_o2_v03_calib1ct2.xml

anajob  tracksSiD_o2_v03.slcio

dumpevent tracksSiD_o2_v03.slcio 1

...