mqaprna.py

ver: 1a155c9-dirty

start  2020-10-31 11:56:56
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Seq ss fn                   /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/ss.txt
Output csv                  /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/d987fb2_raw.csv
Input files                 #1 ['input/broccoli_RNA_minicore_frozen.pdb']
RNAkb                       5pt
Model path                  /home/magnus/Dropbox/WORK_/mqaprna-papier/SVMlin.rda
Multiprocessing             on
Verbose                     off
Ignore pdb fn               off
Methods                     ClashScore,AnalyzeGeometry,FARNA,SimRNA_0,RNAscore,eSCORE,RNAkb,SSAgreement,FARNA_hires,RASP,RNAkb_all,RNA3DCNN,Dfire
rmsd                        biopython_all
Native pdb                  off
RASP                        all
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AnalyzeGeometry             on
SSAgreement                 on
 pdb_id               >seq
 ref_seq              GAGACGGUCGGGUCCAGAUAUUCGUAUCUGUCGAGUAGAGUGUGGGCUC
 ref_ss               ..(((......)))((((((....)))))).......((((....))))
 to ignore 0 []
 files to analyze: 1 ['input/broccoli_RNA_minicore_frozen.pdb']
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[--------------------------------------------------------------------------------]      1 100.0 % 1 10
True broccoli_RNA_minicore_frozen.pdb {'AnalyzeGeometry': 26.5306, 'Dfire': -36783.350284, 'eSCORE': 0.89325, 'FARNA': ['-15.712', '-6.897', '-18.276', '-61.952', '-14.059', '-139.517', '8.217', '3.261', '-13.484', '-241.181', '0.0', '0.0', '17.24', '0.0'], 'RNA3DCNN': 8.959646, 'ClashScore': 10.690789, 'length': 49, 'SimRNA_0': ['0', '-283.446097', '-153.572', '-53.283', '-0.775', '-129.099772', '-29.763', '-38.549', '-21.266', '-17.018', '-22.504', '', '-283.446097'], 'FARNA_hires': ['0.0', '-285.495', '-0.988', '0.0', '1.1', '6.882', '-267.419', '5.994', '-123.832', '4.379', '-64.042', '12.623', '-8.514', '143.768', '4.555'], 'RNAscore': 21.3908, 'RASP': ['3.6538', '511', '0.00715029', '5.03257', '3.19904', '-0.430994', '-2960.18', '29756', '-0.0994817', '-2929.25', '46.2787', '-0.668224', '-6689.29', '69883', '-0.0957212', '-6439.3', '91.6647', '-2.72719', '-16833.3', '252144', '-0.0667606', '0', '0', '0'], 'RNAkb': ['4.81104e+03', '2.46593e+03', '4.61522e+03', '1.80265e+01', '0.00000e+00', '0.00000e+00', '-7.97180e-03', '0.00000e+00', '1.19102e+04', '7.58137e-10', '1.19102e+04'], 'RNAkb_all': 255, 'SSAgreement': 0.462}

Cmd: mqaprna.py -s /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/ss.txt -m 6 -f -o /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/d987fb2_raw.csv input/broccoli_RNA_minicore_frozen.pdb
Execution time: 0:01:44.987 process: 6 start: 11:56:56 end: 11:58:41  
Output: /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/d987fb2_raw.csv 

logging: /home/mqapRNA/mqapRNAweb/media/jobs/d987fb2c-2a32-4506-bd9b-f77df4cd5535/d987fb2_raw.log
logging wrappers /home/mqapRNA/mqaprna_env/log/