mqaprna_env.sh loading...
.. add pythonpath: /home/mqapRNA/mqaprna_env/mqapRNA
.. add pythonpath: /home/mqapRNA/mqaprna_env

mqaprna.py

ver: v.0.5-5-gc914048-dirty

start  2016-07-26 15:37:08
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Seq ss fn                   off
Output csv                  /home/mqapRNA/mqapRNAweb/media/jobs//598410a7-b510-460c-ae97-0a89b3d316cc/mqaprna_scores-v.0.5-5-gc914048-dirty.csv
RNAkb                       5pt
Directory                   /home/mqapRNA/mqapRNAweb/media/jobs//598410a7-b510-460c-ae97-0a89b3d316cc/input
Model path                  /home/magnus/Dropbox/WORK_/mqaprna-papier/SVMlin.rda
Multiprocessing             on
Ignore pdb fn               off
Methods                     ClashScore,AnalyzeGeometry,FARNA,SimRNA_0,RASP,FARNA_hires,RNAkb,RNAscore,eSCORE
rmsd                        biopython_all
Native pdb                  off
RASP                        all
--------------------------  ----------------------------------------------------
SSAgreement                 on
 to ignore 0 []
 files to analyze: 1 ['/home/mqapRNA/mqapRNAweb/media/jobs//598410a7-b510-460c-ae97-0a89b3d316cc/input/superimposed.pdb']
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csv: /home/mqapRNA/mqaprna_env/mqapRNA//home/mqapRNA/mqapRNAweb/media/jobs//598410a7-b510-460c-ae97-0a89b3d316cc/mqaprna_scores-v.0.5-5-gc914048-dirty.csv
JVM stdout: /tmp/tmpOzQ_H2/h2o_magnus_started_from_python.out
JVM stderr: /tmp/tmp7uWIRE/h2o_magnus_started_from_python.err
Using ice_root: /tmp/tmpzzecDF


Java Version: java version "1.7.0_101"
OpenJDK Runtime Environment (IcedTea 2.6.6) (7u101-2.6.6-0ubuntu0.14.04.1)
OpenJDK 64-Bit Server VM (build 24.95-b01, mixed mode)



Starting H2O JVM and connecting: . Connection successful!
------------------------------  -------------------------------------
H2O cluster uptime:             2 minutes 53 seconds 693 milliseconds
H2O cluster version:            3.7.0.3327
H2O cluster name:               magnus
H2O cluster total nodes:        1
H2O cluster total free memory:  1.43 GB
H2O cluster total cores:        8
H2O cluster allowed cores:      8
H2O cluster healthy:            True
H2O Connection ip:              127.0.0.1
H2O Connection port:            54321
H2O Connection proxy:
Python Version:                 2.7.6
------------------------------  -------------------------------------
fn:  /home/mqapRNA/mqapRNAweb/media/jobs//598410a7-b510-460c-ae97-0a89b3d316cc/input/superimposed.pdb
[--------------------------------------------------------------------------------]      1 100.0 % 1 10
True superimposed.pdb     {'AnalyzeGeometry': 94.2308, 'eSCORE': 0.46713, 'FARNA': ['-7.93', '-1.863', '-12.999', '-25.004', '-11.608', '-89.712', '13.378', '32.484', '-27.958', '-112.818', '0.0', '0.0', '18.392', '0.0'], 'ClashScore': 81.113085, 'length': 0, 'FARNA_hires': ['0.0', '-4.071', '-0.591', '0.0', '7.727', '11.841', '-128.074', '8.76', '-113.519', '1.588', '-47.201', '18.68', '-9.927', '108.198', '138.447'], 'SimRNA_0': ['0', '-30.824779', '-25.916', '6.584', '0.192', '-5.100565', '-18.321', '-5.626', '-6.825', '8.418', '17.254', '', '-30.824779'], 'RASP': ['-1.6175', '533', '-0.00303471', '6.31791', '2.9015', '-2.73494', '-2799.53', '32351', '-0.0865363', '-2586.33', '35.9139', '-5.9367', '-4960.02', '75384', '-0.0657967', '-4173.56', '73.9094', '-10.6408', '-7713.39', '259606', '-0.0297119', '0', '0', '0'], 'RNAkb': -1, 'RNAscore': 29.9194}
Sucessfully closed the H2O Session.
Successfully stopped H2O JVM started by the h2o python module.