Running perl /home/casp13/Human_QA_package/scripts/run_CASP13_HumanQA_noQApro_Novel_proq3D_20180420.pl domain1 /home/casp11/multicom/ZCA_155705426023607/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/domain1/meta /home/casp11/multicom/ZCA_155705426023607/qa/domain1 Name "main::score" used only once: possible typo at /home/casp13/Human_QA_package/scripts/run_CASP13_HumanQA_noQApro_Novel_proq3D_20180420.pl line 254. 196 models are selected for evaluation Loading native score None ##### (1) Run feature generation perl /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl domain1 /home/casp11/multicom/ZCA_155705426023607/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1 Name "main::f_modeleva" used only once: possible typo at /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl line 2343. Name "main::f_dope" used only once: possible typo at /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl line 2344. Name "main::f_RW" used only once: possible typo at /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl line 2342. Name "main::score_NOVEL" used only once: possible typo at /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl line 162. Name "main::score_check2" used only once: possible typo at /home/casp13/Human_QA_package/scripts/P1_feature_generation_casp13_parallel_noQApro_NOVEL_PROD3D_V3.pl line 188. The process id of the thread 0 is 39466. start thread 0 The process id of the thread 1 is 39467. start thread 1 1. generating dfire score perl /home/casp13/Human_QA_package/HUMAN/scripts/dfire.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_cal_not_norm_dfire_score.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_norm_dfire_score.pl /home/casp13/Human_QA_package/HUMAN/tools/DFIRE2.1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1_2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dfire.domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/dfire.is_running The process id of the thread 2 is 39468. start thread 2 The process id of the thread 3 is 39470. start thread 3 The process id of the thread 4 is 39471. 2. generating OPUS score perl /home/casp13/Human_QA_package/HUMAN/scripts/OPUS_PSP.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_cal_not_norm_OPUS_score.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_norm_OPUS_score.pl /home/casp13/Human_QA_package/HUMAN/tools/OPUS/OPUS_PSP /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1_2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_OPUS.domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/OPUS.is_running 3. generating local and global score perl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_generating_local_and_global_features.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/mod_locglo /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp13/Human_QA_package/HUMAN/scripts/LCS /home/casp13/Human_QA_package/HUMAN/scripts/dsspcmbi /home/casp13/Human_QA_package/HUMAN/scripts/dssp2dataset.pl /home/casp13/Human_QA_package/HUMAN/tools/spine_X/spX.pl /home/casp13/Human_QA_package/HUMAN/tools/sspro4/bin/predict_acc.sh /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/local_global_features /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/local_global_feature_generation.is_running domain1 4. generating RF_SRS score perl /home/casp13/Human_QA_package/HUMAN/scripts/RF_SRS.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_cal_not_norm_RF_SRS_score.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_norm_RF_SRS_score.pl /home/casp13/Human_QA_package/HUMAN/tools/Energy_function_RF_SRS/calc_energy /home/casp13/Human_QA_package/HUMAN/tools/Energy_function_RF_SRS/RF_CB_SRS_OD /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_RF_SRS.domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/RF_CB_SRS_OD.is_running The process id of the thread 5 is 39472. start thread 5 5. generating RWplus score perl /home/casp13/Human_QA_package/HUMAN/scripts/RWplus.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_cal_not_norm_RWplus_score.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_norm_RWplus_score.pl /home/casp13/Human_QA_package/HUMAN/tools/RWplus /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_RWplus.domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/RWplus.is_running The process id of the thread 6 is 39475. start thread 6 6. generating dope score perl /home/casp13/Human_QA_package/HUMAN/scripts/dope.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_cal_not_norm_dope_score.pl /home/casp13/Human_QA_package/HUMAN/scripts/CASP11_norm_dope_score.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dope.domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/LOG/dope.is_running The process id of the thread 7 is 39478. start thread 7 7. generating modfoldclust2 score perl /home/casp13/Human_QA_package/HUMAN/scripts/cal_modfoldclust2.pl /home/casp13/Human_QA_package/HUMAN/tools/ModFOLDclust2.jar domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/modfoldclust2.domain1 The process id of the thread 8 is 39479. start thread 8 8. generating pcons score perl /home/casp13/Human_QA_package/HUMAN/scripts/cal_pcons.pl /home/casp13/Human_QA_package/HUMAN/tools/Pcons/bin/pcons /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_pcons.domain1 The process id of the thread 9 is 39482. start thread 9 The process id of the thread 10 is 39485. start thread 10 14. generating voronota score perl /home/casp13/Human_QA_package/HUMAN/tools/voronota_1_18_1877/run_voronota_batch.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1_2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_voronota.domain1 The process id of the thread 11 is 39486. start thread 11 The process id of the thread 12 is 39490. start thread 12 The process id of the thread 13 is 39494. The main process starts to wait for the base predictors to finish... start thread 13 ####### 1. Predicting contact 18. generating SBROD score ./assess_protein /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1_2/* &> /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_SBROD.domain1 !!!!!!! Checking method status !!!!!! !!!!!! dfire: 1 OPUS:1 local_global:1 RF_SRS:1 RWplus:1 dope:1 modfoldclust2:1 pcons:1 pairwise:1 QApro:0 voronota:1 DeepQA:1 Proq3:1 Proq3D:0 model_eva:0 SBROD:1 dncon2:1 !!!!!! 19. generating dncon2 score /home/casp13/DNCON2/dncon2-v1.0.sh /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/dncon2 15. generating DeepQA score /home/casp13/Human_QA_package/HUMAN/tools/DeepQA/bin/DeepQA.sh /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/mod_DeepQA /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/DeepQA 16. generating Proq3 score perl /home/casp13/Human_QA_package/HUMAN/scripts/CASP13_run_proq3_for_rosetta_energy_parallel.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/mod_proq3 /home/casp13/Human_QA_package/HUMAN/tools/proq3/run_proq3.sh /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/Proq3/domain1.fasta /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/Proq3 9. generating pairwise score /home/casp13/Human_QA_package/HUMAN/scripts/filter_model_same_group_v2.pl domain1.mlist domain1.nlist /home/casp13/Human_QA_package/HUMAN/tools/TMscore_32 !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_pcons.domain1 8. pcons modeling finished within 0.00111111111111111 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_RF_SRS.domain1 4. RF_SRS modeling finished within 0.00166666666666667 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_OPUS.domain1 2. OPUS modeling finished within 0.00222222222222222 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dfire.domain1 1. dfire modeling finished within 0.0255555555555556 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_RWplus.domain1 5. RWplus modeling finished within 0.0394444444444444 hrs! 18. SBROD modeling finished within 0.0502777777777778 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dope.domain1 6. dope modeling finished within 0.0547222222222222 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/local_global_features/Global_features/1_feature_ss_sim.domain1 3. local_global modeling finished within 0.0941666666666667 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:1 pcons:0 pairwise:1 QApro:0 voronota:1 DeepQA:1 Proq3:1 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_voronota.domain1 14. voronota modeling finished within 0.297222222222222 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:1 pcons:0 pairwise:1 QApro:0 voronota:0 DeepQA:1 Proq3:1 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_proq2.domain1 16. Proq3 modeling finished within 0.488611111111111 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:1 pcons:0 pairwise:1 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/modfoldclust2.domain1 7. modfoldclust2 modeling finished within 0.556111111111111 hrs! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/pairwise/domain1.gdt 9. pairwise modeling finished within 0.594722222222222 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:1 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_DeepQA.domain1 15. DeepQA modeling finished within 1.66361111111111 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/dncon2/domain1.dncon2.rr generated! 19. generating contact energy score perl /home/casp13/Human_QA_package/HUMAN/scripts/CASP13_run_contact_energy.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/dncon2/domain1.dncon2.rr /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/mod_dncon2 domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/dncon2 !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:1 !!!!!! !!Successfully generated /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dncon2_short-range.domain1, /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dncon2_medium-range.domain1, /home/casp11/multicom/ZCA_155705426023607/qa/domain1/TMP/feature_dncon2_short-range.domain1 19. dncon2 modeling finished within 3.17972222222222 hrs! !!!!!!! Checking method status !!!!!! !!!!!! dfire: 0 OPUS:0 local_global:0 RF_SRS:0 RWplus:0 dope:0 modfoldclust2:0 pcons:0 pairwise:0 QApro:0 voronota:0 DeepQA:0 Proq3:0 Proq3D:0 model_eva:0 SBROD:0 dncon2:0 !!!!!! !!!!Feature generationg finished! !!!!Feature generationg finished within 3.34805555555556 hrs! !!!!!! Checking if all features are generated successfully !!!!!!!!!! All features are generated correctly ##### (2) Run feature organization perl /home/casp13/Human_QA_package/scripts/P2_combine_score_into_SVMformat_noQApro_NOVEL_PROD3D_V2.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/mod2 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/ALL_scores/ domain1 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat.txt None Total features number: 23 Didn't find native score, initialize as 0.... domain1 is complete ##### (3) Run make prediction for gdt score perl /home/casp13/Human_QA_package/scripts/python_lib/P3_make_prediction_by_10folds.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat.txt test /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D/ /home/casp11/multicom/ZCA_155705426023607/qa/domain1/10_fold_prediction/ Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold1 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold2 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold3 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold4 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold5 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold6 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold7 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold8 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold9 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters Processing /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D//fold10 Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters perl /home/casp13/Human_QA_package/scripts/python_lib/P1_add_prediction2feature_feature23_10folds.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat.txt test /home/casp11/multicom/ZCA_155705426023607/qa/domain1/10_fold_prediction/ /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_with10folds.txt ## read val prediction Adding fold1 prediction for test data Adding fold2 prediction for test data Adding fold3 prediction for test data Adding fold4 prediction for test data Adding fold5 prediction for test data Adding fold6 prediction for test data Adding fold7 prediction for test data Adding fold8 prediction for test data Adding fold9 prediction for test data Adding fold10 prediction for test data THEANO_FLAGS=floatX=float32,device=cpu python /home/casp13/Human_QA_package/scripts/python_lib/predict_main_iterative_20170902_auto_NN.py nadam /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_with10folds.txt /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D/10fold_2nd_stage_optnadam_htsigmoid_hn5 /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_gdt_predict.txt Using Theano backend. /home/casp13/python_virtualenv/lib/python2.7/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. from ._conv import register_converters as _register_converters ######## Loading existing model /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D/10fold_2nd_stage_optnadam_htsigmoid_hn5/model-train-QA_model.json ######## Loaded model from disk ######## Loading existing weights /home/casp13/Human_QA_package/scripts/python_lib/model_gdt_feature27_humanqalite_10folds_noQApro_NOVEL_PROD3D/10fold_2nd_stage_optnadam_htsigmoid_hn5/model-train-weight-QA_model.h5 ###### Predicting Testing data perl /home/casp13/Human_QA_package/scripts/P3_add_prediction2feature_feature34.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat.txt /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_gdt_predict.txt /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_gdt_predict_withall.txt ## read test prediction perl /home/casp13/Human_QA_package/scripts/P3_get_model2prediction.pl /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat.txt /home/casp11/multicom/ZCA_155705426023607/qa/domain1/feat_gdt_predict.txt /home/casp11/multicom/ZCA_155705426023607/qa/domain1/HumanQA_gdt_prediction.txt ## read test prediction ####### HumanQA prediction done within 3.35611111111111 hr!!!!!