Gabriele Cosmo
79 lines
1.8 KiB
Plaintext
79 lines
1.8 KiB
Plaintext
#/process/dna/e-SolvationSubType Meesungnoen2002
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#/process/dna/e-SolvationSubType Ritchie1994
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#/process/dna/e-SolvationSubType Terrisol1990
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/run/numberOfThreads 1
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#/run/verbose 2
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#/control/verbose 1
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#/dnageom/verbose 1
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/tracking/verbose 2
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/chem/activate true
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/scheduler/verbose 0
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/material/verbose 2
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/world/worldSize 10200 nm
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/cell/radiusSize 3 3 3 um
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/dnageom/setSmartVoxels 1
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/dnageom/checkOverlaps false
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/scheduler/endTime 1 us
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/dnageom/radicalKillDistance 9 nm
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/dnageom/interactionDirectRange 7 angstrom
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/dnageom/placementSize 30 30 100 nm
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/dnageom/fractalScaling 1 1 1 nm
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/dnageom/definitionFile geometries/prisms200k_r3000.txt
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/dnageom/placementVolume prism geometries/straight-216-0.txt
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/dnageom/setVoxelPlacementAnglesAsMultiplesOfPi false
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/dnageom/useCustomMoleculeSizes false
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# used default moleculeSize
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#/dnageom/moleculeSize
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/dnageom/drawCellVolumes false
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/dnageom/activateHistoneScavenging true
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/chromosome/add cylinder sphere 3000 0 0 0 nm
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# Damage Model
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/dnadamage/directDamageLower 17.5 eV
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/dnadamage/directDamageUpper 17.5 eV
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/dnadamage/indirectOHBaseChance 1.0
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/dnadamage/indirectOHStrandChance 0.65
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/dnadamage/inductionOHChance 0.0
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/dnadamage/indirectHBaseChance 1.0
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/dnadamage/indirectHStrandChance 0.65
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/dnadamage/inductionHChance 0.00
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/dnadamage/indirectEaqBaseChance 1.0
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/dnadamage/indirectEaqStrandChance 0.65
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/dnadamage/inductionEaqChance 0.00
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/analysisDNA/saveStrands false
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/analysisDNA/fragmentGap 0 # do not join
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#/analysisDNA/diagnosticChain
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/run/initialize
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# Uncomment the next line to visualize cylinder DNA geometry
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#/control/execute vis.mac
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# unit tests
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#/dnatests/uniqueid
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#/dnatests/basepairs
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#/dnatests/chromosome
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#/analysisDNA/testClassifier
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# end unit tests
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/run/printProgress 100
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/primarygenerator/inputFile phase_space.csv
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/run/beamOn 2
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