From Informatics
ARACNE-Java test runs on afdev
Run #1
[root@afdev aracne]# java -version
java version "1.5.0_07"
Java(TM) 2 Runtime Environment, Standard Edition (build 1.5.0_07-b03)
Java HotSpot(TM) Server VM (build 1.5.0_07-b03, mixed mode)
[root@afdev aracne]# java -Xmx1G -jar ARACNE-0.1.jar -i data.dat -l transcription_factor.lst -s transcription_factor.lst -p 1e-7 -e 0.1
[PARA] Input file: data.dat
[PARA] Output file:
[PARA] Algorithm: accurate
[PARA] Kernel width: determined by program
[PARA] MI P-value: 1.0E-7
[PARA] DPI tolerance: 0.1
[PARA] Subset of probes to reconstruct: transcription_factor.lst (0)
[PARA] TF annotation list: transcription_factor.lst
Marker No: 8496 (8496 active), Array No: 254
Kernel width determined for this dataset: 0.13893411768455274
MI threshold determined for p=1.0E-7: 0.08191295557728917
10%, time: 3822656
20%, time: 7655319
30%, time: 11487435
40%, time: 15325187
50%, time: 19162197
60%, time: 22993216
70%, time: 26825446
80%, time: 30655978
90%, time: 34485437
100%, time: 38320570
Gene: 8496 Time: 38320570
[NETWORK] Applying DPI ...
- Total MI runtime: 38320570 ms = 10.6446028 hours
- DPI - User abort before finish, minimum 8+ hours runtime
ARACNE C++ test runs on afdev
