//Title of the output webpage
TITLE        = Proteic data benchmark, big datasets
//Name of the output webpage file, completed with .html
RESULT FILE  = index
//Output directory, containing every output file
OUTPUT       = /auto/dufayard/LK_bench/revision/big_proteic/
//Proteic data directory, must contain only valid input file for programs
PROTEIC DATA = /auto/dufayard/dataset/Treebase/big_datasets/proteic/
//Number of processor used on the cluster
PROCESSORS   = 1
//Minimum significant loglk difference
SIGNIFICANT PERCENTAGE = 25
RANKS
TOPOLOGY
RF

CLASS

PROGRAM PHYML_2.4.5
STORAGE = /auto/dufayard/LK_bench/revision/bigdatasets_2.4.5_prot/
TREE FILE = /auto/dufayard/LK_bench/revision/bigdatasets_2.4.5_prot/$INPUT_phyml_tree.txt
LK PATH = /auto/dufayard/LK_bench/revision/bigdatasets_2.4.5_prot_reopt/$INPUT_phyml_lk.txt
END;

PROGRAM PHYML_3.0_NNI
STORAGE = /auto/dufayard/LK_bench/revision/bigdatasets_nni_prot/
TREE FILE = /auto/dufayard/LK_bench/revision/bigdatasets_nni_prot/$INPUT_phyml_tree.txt
LK PATH = /auto/dufayard/LK_bench/revision/bigdatasets_nni_prot/$INPUT_phyml_lk.txt
END;

PROGRAM PHYML_3.0_SPR
STORAGE = /auto/dufayard/LK_bench/revision/bigdatasets_spr_prot/
TREE FILE = /auto/dufayard/LK_bench/revision/bigdatasets_spr_prot/$INPUT_phyml_tree.txt
LK PATH = /auto/dufayard/LK_bench/revision/bigdatasets_spr_prot/$INPUT_phyml_lk.txt
END;

PROGRAM RAXML
STORAGE = /auto/dufayard/LK_bench/revision/bigdatasets_raxml_prot/
TREE FILE = /auto/dufayard/LK_bench/revision/bigdatasets_raxml_prot/RAxML_result.$INPUT_RAXML
LK PATH = /auto/dufayard/LK_bench/revision/bigdatasets_raxml_prot_reopt/$INPUT_phyml_lk.txt
END;