-
Notifications
You must be signed in to change notification settings - Fork 3
/
Copy pathruntimes
374 lines (346 loc) · 32.6 KB
/
runtimes
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
# This is a file for the Rosetta automated testing system, indicating how long each test runs on the test server.
# The intent of which is to allow the testing system to appropriately order the tests.
## demos/tutorials tests.
Finished prepare_ligand in 0 seconds [~ 21 test (100%) started, 0 in queue, 20 running]
Finished test_keywords in 0 seconds [~ 21 test (100%) started, 0 in queue, 19 running]
Finished analysis in 9 seconds [~ 21 test (100%) started, 0 in queue, 18 running]
Finished full_atom_vs_centroid in 16 seconds [~ 21 test (100%) started, 0 in queue, 17 running]
Finished minimization in 23 seconds [~ 21 test (100%) started, 0 in queue, 16 running]
Finished scoring in 29 seconds [~ 21 test (100%) started, 0 in queue, 15 running]
Finished ligand_docking in 38 seconds [~ 21 test (100%) started, 0 in queue, 14 running]
Finished rosetta_cm in 43 seconds [~ 21 test (100%) started, 0 in queue, 13 running]
Finished Relax_Tutorial in 47 seconds [~ 21 test (100%) started, 0 in queue, 12 running]
Finished denovo_structure_prediction in 57 seconds [~ 21 test (100%) started, 0 in queue, 11 running]
Finished Constraints_Tutorial in 122 seconds [~ 21 test (100%) started, 0 in queue, 10 running]
Finished loop_modeling in 128 seconds [~ 21 test (100%) started, 0 in queue, 9 running]
Finished Protein-Protein-Docking in 157 seconds [~ 21 test (100%) started, 0 in queue, 8 running]
Finished input_and_output in 174 seconds [~ 21 test (100%) started, 0 in queue, 7 running]
Finished fold_tree in 240 seconds [~ 21 test (100%) started, 0 in queue, 6 running]
Finished Symmetry in 261 seconds [~ 21 test (100%) started, 0 in queue, 5 running]
Finished protein_design in 317 seconds [~ 21 test (100%) started, 0 in queue, 4 running]
Finished scripting_with_rosettascripts in 351 seconds [~ 21 test (100%) started, 0 in queue, 3 running]
Finished advanced_scripting_with_rosettascripts in 448 seconds [~ 21 test (100%) started, 0 in queue, 2 running]
Finished advanced_denovo_structure_prediction in 582 seconds [~ 21 test (100%) started, 0 in queue, 1 running]
Finished advanced_protein-protein_docking in 2350 seconds [~ 21 test (100%) started, 0 in queue, 0 running]
## demos/public tests
*** Test backrub_seqtol did not run! Check your --mode flag and paths.
*** Error in command file replacement: not enough arguments for format string
No correct command.sh file found for backrub_seqtol. Skipping.
Running Test enzyme_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/enzyme_design/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/enzyme_design/command.sh
*** Test enzyme_design did not run! Check your --mode flag and paths. [2016-08-09 23:52:00.441088]
Running Test rna_assembly
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_assembly/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_assembly/command.sh
*** Test rna_assembly did not run! Check your --mode flag and paths. [2016-08-09 23:52:00.476954]
Finished rna_assembly in 0 seconds [~ 26 test (28%) started, 66 in queue, 25 running]
Finished enzyme_design in 0 seconds [~ 26 test (28%) started, 66 in queue, 24 running]
Running Test mp_span_from_pdb
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_span_from_pdb/command.sh
Finished mp_span_from_pdb in 7 seconds [~ 28 test (30%) started, 64 in queue, 25 running]
Running Test rna_thread
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_thread/command.sh
Finished rna_thread in 9 seconds [~ 29 test (31%) started, 63 in queue, 25 running]
Running Test rna_mutate
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_mutate/command.sh
Finished rna_mutate in 1 seconds [~ 30 test (32%) started, 62 in queue, 25 running]
Running Test using_ncaas_protein_peptide_interface_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/using_ncaas_protein_peptide_interface_design/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/using_ncaas_protein_peptide_interface_design/command.sh
*** Test using_ncaas_protein_peptide_interface_design did not run! Check your --mode flag and paths. [2016-08-09 23:52:11.948774]
Finished using_ncaas_protein_peptide_interface_design in 11 seconds [~ 31 test (33%) started, 61 in queue, 25 running]
Running Test mp_pymol_viewer
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_pymol_viewer/command.sh
Finished mp_pymol_viewer in 12 seconds [~ 32 test (34%) started, 60 in queue, 25 running]
Running Test rna_puzzle
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_puzzle/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_puzzle/command.sh
*** Test rna_puzzle did not run! Check your --mode flag and paths. [2016-08-09 23:52:12.755735]
Finished rna_puzzle in 0 seconds [~ 33 test (35%) started, 59 in queue, 25 running]
Running Test stepwise_monte_carlo_mini_protein
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/stepwise_monte_carlo_mini_protein/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/stepwise_monte_carlo_mini_protein/command.sh
*** Test stepwise_monte_carlo_mini_protein did not run! Check your --mode flag and paths. [2016-08-09 23:52:13.422512]
Finished stepwise_monte_carlo_mini_protein in 13 seconds [~ 34 test (36%) started, 58 in queue, 25 running]
Running Test refinement_of_protein_peptide_complex_using_FlexPepDock
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/refinement_of_protein_peptide_complex_using_FlexPepDock/command.sh
/scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/refinement_of_protein_peptide_complex_using_FlexPepDock/command.sh: line 13: output/ppk.log: No such file or directory
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/refinement_of_protein_peptide_complex_using_FlexPepDock/command.sh
*** Test refinement_of_protein_peptide_complex_using_FlexPepDock did not run! Check your --mode flag and paths. [2016-08-09 23:52:13.536595]
Finished refinement_of_protein_peptide_complex_using_FlexPepDock in 0 seconds [~ 35 test (38%) started, 57 in queue, 25 running]
Running Test patched_residue_types_in_centroid-fullatom_protocols
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/patched_residue_types_in_centroid-fullatom_protocols/command.sh
Finished patched_residue_types_in_centroid-fullatom_protocols in 16 seconds [~ 36 test (39%) started, 56 in queue, 25 running]
Running Test surface_docking_cpp
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/surface_docking_cpp/command.sh
Finished surface_docking_cpp in 23 seconds [~ 37 test (40%) started, 55 in queue, 25 running]
Running Test beta_peptide_modeling
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/beta_peptide_modeling/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/beta_peptide_modeling/command.sh
*** Test beta_peptide_modeling did not run! Check your --mode flag and paths. [2016-08-09 23:52:24.345857]
Finished beta_peptide_modeling in 23 seconds [~ 38 test (41%) started, 54 in queue, 25 running]
Running Test design_with_ncaa
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/design_with_ncaa/command.sh
Finished design_with_ncaa in 17 seconds [~ 39 test (42%) started, 53 in queue, 25 running]
Running Test optimize_ligand_hydroxyl_hydrogens
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/optimize_ligand_hydroxyl_hydrogens/command.sh
Finished optimize_ligand_hydroxyl_hydrogens in 45 seconds [~ 40 test (43%) started, 52 in queue, 25 running]
Running Test original_mp_relax_menv_smooth
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/original_mp_relax_menv_smooth/command.sh
Finished original_mp_relax_menv_smooth in 71 seconds [~ 41 test (44%) started, 51 in queue, 25 running]
Running Test ligand_water_docking
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/ligand_water_docking/command.sh
Finished ligand_water_docking in 97 seconds [~ 42 test (45%) started, 50 in queue, 25 running]
Running Test oop_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/oop_design/command.sh
Finished oop_design in 99 seconds [~ 43 test (46%) started, 49 in queue, 25 running]
Running Test chemically_conjugated_docking
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/chemically_conjugated_docking/command.sh
Finished chemically_conjugated_docking in 100 seconds [~ 44 test (47%) started, 48 in queue, 25 running]
Running Test doug_dock_design_min
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/doug_dock_design_min/command.sh
Finished doug_dock_design_min in 35 seconds [~ 45 test (48%) started, 47 in queue, 25 running]
Running Test fixbb
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/fixbb/command.sh
Finished fixbb in 31 seconds [~ 46 test (50%) started, 46 in queue, 25 running]
Running Test multi_state_desing_of_antibodies
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/multi_state_desing_of_antibodies/command.sh
Finished multi_state_desing_of_antibodies in 108 seconds [~ 47 test (51%) started, 45 in queue, 25 running]
Running Test RNA_Denovo_with_base_pair_steps
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/RNA_Denovo_with_base_pair_steps/command.sh
Finished RNA_Denovo_with_base_pair_steps in 136 seconds [~ 48 test (52%) started, 44 in queue, 25 running]
Running Test rna_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_design/command.sh
Finished rna_design in 31 seconds [~ 49 test (53%) started, 43 in queue, 25 running]
Running Test calculate_protein_protein_ddg
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/calculate_protein_protein_ddg/command.sh
Finished calculate_protein_protein_ddg in 149 seconds [~ 50 test (54%) started, 42 in queue, 25 running]
Running Test rosetta_scripts_RosettaDNA
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_RosettaDNA/command.sh
Finished rosetta_scripts_RosettaDNA in 165 seconds [~ 51 test (55%) started, 41 in queue, 25 running]
Running Test rosetta_scripts_flxbb_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_flxbb_design/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_flxbb_design/command.sh
*** Test rosetta_scripts_flxbb_design did not run! Check your --mode flag and paths. [2016-08-09 23:54:58.846126]
Finished rosetta_scripts_flxbb_design in 0 seconds [~ 52 test (56%) started, 40 in queue, 25 running]
Running Test darc
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/darc/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/darc/command.sh
*** Test darc did not run! Check your --mode flag and paths. [2016-08-09 23:55:21.578139]
Finished darc in 62 seconds [~ 53 test (57%) started, 39 in queue, 25 running]
Running Test fragment_picking
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/fragment_picking/command.sh
Finished fragment_picking in 77 seconds [~ 54 test (58%) started, 38 in queue, 25 running]
Running Test stepwise_monte_carlo_protein_loop
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/stepwise_monte_carlo_protein_loop/command.sh
Finished stepwise_monte_carlo_protein_loop in 31 seconds [~ 55 test (59%) started, 37 in queue, 25 running]
Running Test zinc_site_redesign
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/zinc_site_redesign/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/zinc_site_redesign/command.sh
*** Test zinc_site_redesign did not run! Check your --mode flag and paths. [2016-08-09 23:55:31.182653]
Finished zinc_site_redesign in 1 seconds [~ 56 test (60%) started, 36 in queue, 25 running]
Running Test unfolded_state_energy_calculator
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/unfolded_state_energy_calculator/command.sh
Finished unfolded_state_energy_calculator in 212 seconds [~ 57 test (61%) started, 35 in queue, 25 running]
Running Test fragment_picking_for_cs_rosetta
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/fragment_picking_for_cs_rosetta/command.sh
Finished fragment_picking_for_cs_rosetta in 23 seconds [~ 58 test (63%) started, 34 in queue, 25 running]
Running Test supercharge
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/supercharge/command.sh
Finished supercharge in 205 seconds [~ 59 test (64%) started, 33 in queue, 25 running]
Running Test mp_relax
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_relax/command.sh
Finished mp_relax in 258 seconds [~ 60 test (65%) started, 32 in queue, 25 running]
Running Test hbs_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/hbs_design/command.sh
Finished hbs_design in 60 seconds [~ 61 test (66%) started, 31 in queue, 25 running]
Running Test local_dock_ssrA_peptide_against_sspB
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/local_dock_ssrA_peptide_against_sspB/command.sh
Removed crystallographic waters and redundant chains.
Chains B and D written to input_files/1OU8_BD.clean.pdb
Prepacked starting structure written to input_files/1OU8_BD.clean_0001.pdb
Testing minimal movement example...
Done!
Testing moderate movement example...
Done!
Testing extreme movement example...
Done!
Finished local_dock_ssrA_peptide_against_sspB in 273 seconds [~ 62 test (67%) started, 30 in queue, 25 running]
Running Test test_keywords
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/test_keywords/command.sh
Finished test_keywords in 0 seconds [~ 63 test (68%) started, 29 in queue, 25 running]
Running Test abinitio_w_chemicalshift_only
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/abinitio_w_chemicalshift_only/command.sh
Finished abinitio_w_chemicalshift_only in 50 seconds [~ 64 test (69%) started, 28 in queue, 25 running]
Running Test relax_a_large_structure
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/relax_a_large_structure/command.sh
Finished relax_a_large_structure in 82 seconds [~ 65 test (70%) started, 27 in queue, 25 running]
Running Test rna_denovo
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rna_denovo/command.sh
Finished rna_denovo in 21 seconds [~ 66 test (71%) started, 26 in queue, 25 running]
Running Test clustering
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/clustering/command.sh
Finished clustering in 182 seconds [~ 67 test (72%) started, 25 in queue, 25 running]
Running Test dock_with_user_defined_constraints
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/dock_with_user_defined_constraints/command.sh
Finished dock_with_user_defined_constraints in 267 seconds [~ 68 test (73%) started, 24 in queue, 25 running]
Running Test design_with_phosphoresidue
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/design_with_phosphoresidue/command.sh
Finished design_with_phosphoresidue in 125 seconds [~ 69 test (75%) started, 23 in queue, 25 running]
Running Test prepare_pdbs_for_rosetta
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/prepare_pdbs_for_rosetta/command.sh
Finished prepare_pdbs_for_rosetta in 8 seconds [~ 70 test (76%) started, 22 in queue, 25 running]
Running Test domain_insertion
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/domain_insertion/command.sh
Finished domain_insertion in 311 seconds [~ 71 test (77%) started, 21 in queue, 25 running]
Running Test dock_protein_complex_with_ligand_xml
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/dock_protein_complex_with_ligand_xml/command.sh
Finished dock_protein_complex_with_ligand_xml in 118 seconds [~ 72 test (78%) started, 20 in queue, 25 running]
Running Test membrane_abinitio
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/membrane_abinitio/command.sh
Finished membrane_abinitio in 37 seconds [~ 73 test (79%) started, 19 in queue, 25 running]
Running Test floppy_tail
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/floppy_tail/command.sh
Finished floppy_tail in 32 seconds [~ 74 test (80%) started, 18 in queue, 25 running]
Running Test symmetric_docking_insulin_trimer_of_dimers
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/symmetric_docking_insulin_trimer_of_dimers/command.sh
Finished symmetric_docking_insulin_trimer_of_dimers in 52 seconds [~ 75 test (81%) started, 17 in queue, 25 running]
Running Test fixbb_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/fixbb_design/command.sh
Finished fixbb_design in 21 seconds [~ 76 test (82%) started, 16 in queue, 25 running]
Running Test shortening_loops
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/shortening_loops/command.sh
Finished shortening_loops in 486 seconds [~ 77 test (83%) started, 15 in queue, 25 running]
Running Test mp_dock
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_dock/command.sh
Finished mp_dock in 44 seconds [~ 78 test (84%) started, 14 in queue, 25 running]
Running Test favor_native_residue
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/favor_native_residue/command.sh
Finished favor_native_residue in 13 seconds [~ 79 test (85%) started, 13 in queue, 25 running]
Running Test homology_modeling_threading_basic
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/homology_modeling_threading_basic/command.sh
Finished homology_modeling_threading_basic in 526 seconds [~ 80 test (86%) started, 12 in queue, 25 running]
Running Test abinitio_fold_and_dock_of_peptides_using_flexpepdock
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/abinitio_fold_and_dock_of_peptides_using_flexpepdock/command.sh
Finished abinitio_fold_and_dock_of_peptides_using_flexpepdock in 91 seconds [~ 81 test (88%) started, 11 in queue, 25 running]
Running Test next_generation_kic
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/next_generation_kic/command.sh
Finished next_generation_kic in 626 seconds [~ 82 test (89%) started, 10 in queue, 25 running]
Running Test stepwise_monte_carlo_rna_loop
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/stepwise_monte_carlo_rna_loop/command.sh
Finished stepwise_monte_carlo_rna_loop in 634 seconds [~ 83 test (90%) started, 9 in queue, 25 running]
Running Test mohca_seq
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mohca_seq/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mohca_seq/command.sh
*** Test mohca_seq did not run! Check your --mode flag and paths. [2016-08-10 00:02:34.643315]
Finished mohca_seq in 0 seconds [~ 84 test (91%) started, 8 in queue, 25 running]
Running Test MembraneAbinitio
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/MembraneAbinitio/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/MembraneAbinitio/command.sh
*** Test MembraneAbinitio did not run! Check your --mode flag and paths. [2016-08-10 00:02:37.584351]
Finished MembraneAbinitio in 637 seconds [~ 85 test (92%) started, 7 in queue, 25 running]
Running Test abinitio_w_chemicalshift_noe_rdc
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/abinitio_w_chemicalshift_noe_rdc/command.sh
Finished abinitio_w_chemicalshift_noe_rdc in 163 seconds [~ 86 test (93%) started, 6 in queue, 25 running]
Running Test anchored_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/anchored_design/command.sh
Finished anchored_design in 389 seconds [~ 87 test (94%) started, 5 in queue, 25 running]
Running Test make_rot_lib
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/make_rot_lib/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/make_rot_lib/command.sh
*** Test make_rot_lib did not run! Check your --mode flag and paths. [2016-08-10 00:03:02.058884]
Finished make_rot_lib in 0 seconds [~ 88 test (95%) started, 4 in queue, 25 running]
Running Test predict_eglinC_ddgs
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/predict_eglinC_ddgs/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/predict_eglinC_ddgs/command.sh
*** Test predict_eglinC_ddgs did not run! Check your --mode flag and paths. [2016-08-10 00:03:05.513438]
Finished predict_eglinC_ddgs in 30 seconds [~ 89 test (96%) started, 3 in queue, 25 running]
Running Test relax_around_chemically_bound_ligand
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/relax_around_chemically_bound_ligand/command.sh
Finished relax_around_chemically_bound_ligand in 165 seconds [~ 90 test (97%) started, 2 in queue, 25 running]
Running Test abinitio_w_chemicalshift_noe
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/abinitio_w_chemicalshift_noe/command.sh
Finished abinitio_w_chemicalshift_noe in 57 seconds [~ 91 test (98%) started, 1 in queue, 25 running]
Running Test rosetta_scripts_enzdes
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_enzdes/command.sh
Finished rosetta_scripts_enzdes in 39 seconds [~ 92 test (100%) started, 0 in queue, 25 running]
Running Test ligand_dock_commandline
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/ligand_dock_commandline/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/ligand_dock_commandline/command.sh
*** Test ligand_dock_commandline did not run! Check your --mode flag and paths. [2016-08-10 00:03:57.735706]
Running Test analyzing_interface_quality
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/analyzing_interface_quality/command.sh
Running Test model_missing_loop
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/model_missing_loop/command.sh
Running Test protein_rna_interface_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/protein_rna_interface_design/command.sh
Running Test rosetta_scripts_LoopRemodel
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_LoopRemodel/command.sh
Running Test symmetry_examples
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/symmetry_examples/command.sh
Running Test design_with_flex_loops
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/design_with_flex_loops/command.sh
Running Test design_raf_rac_interface
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/design_raf_rac_interface/command.sh
Running Test rosettaligand_transform
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosettaligand_transform/command.sh
Running Test rosetta_scripts_pp-interfaceredesign
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/rosetta_scripts_pp-interfaceredesign/command.sh
Running Test vip
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/vip/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/vip/command.sh
*** Test vip did not run! Check your --mode flag and paths. [2016-08-10 00:08:31.599932]
Running Test molecular_replacement
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/molecular_replacement/command.sh
Running Test topology_broker_gpcr
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/topology_broker_gpcr/command.sh
Running Test protein_dna_interface_design
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/protein_dna_interface_design/command.sh
Running Test abinitio
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/abinitio/command.sh
Running Test mp_symdock
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_symdock/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/mp_symdock/command.sh
*** Test mp_symdock did not run! Check your --mode flag and paths. [2016-08-10 00:15:14.066435]
Running Test nucleobase_sample_around
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/nucleobase_sample_around/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/nucleobase_sample_around/command.sh
*** Test nucleobase_sample_around did not run! Check your --mode flag and paths. [2016-08-10 00:16:19.097932]
Running Test stepwise_monte_carlo_rna_multiloop
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/stepwise_monte_carlo_rna_multiloop/command.sh
Running Test membrane_homology_modeling
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/membrane_homology_modeling/command.sh
Running Test ideal_proteins
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/ideal_proteins/command.sh
Encounter error while executing: ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/ideal_proteins/command.sh
*** Test ideal_proteins did not run! Check your --mode flag and paths. [2016-08-10 00:17:39.956715]
Running Test prepare_pdb_for_rosetta_with_relax
ulimit -t 1800 && bash /scratch/local-benchmark/T/rosetta.Takeshi/master/demos/new/prepare_pdb_for_rosetta_with_relax/command.sh
Finished ligand_dock_commandline in 52 seconds [~ 92 test (100%) started, 0 in queue, 24 running]
Finished analyzing_interface_quality in 34 seconds [~ 92 test (100%) started, 0 in queue, 23 running]
Finished model_missing_loop in 537 seconds [~ 92 test (100%) started, 0 in queue, 22 running]
Finished protein_rna_interface_design in 54 seconds [~ 92 test (100%) started, 0 in queue, 21 running]
Finished rosetta_scripts_LoopRemodel in 755 seconds [~ 92 test (100%) started, 0 in queue, 20 running]
Finished symmetry_examples in 763 seconds [~ 92 test (100%) started, 0 in queue, 19 running]
Finished design_with_flex_loops in 250 seconds [~ 92 test (100%) started, 0 in queue, 18 running]
Finished design_raf_rac_interface in 178 seconds [~ 92 test (100%) started, 0 in queue, 17 running]
Finished rosettaligand_transform in 938 seconds [~ 92 test (100%) started, 0 in queue, 16 running]
Finished rosetta_scripts_pp-interfaceredesign in 744 seconds [~ 92 test (100%) started, 0 in queue, 15 running]
Finished vip in 617 seconds [~ 92 test (100%) started, 0 in queue, 14 running]
Finished molecular_replacement in 873 seconds [~ 92 test (100%) started, 0 in queue, 13 running]
Finished topology_broker_gpcr in 1067 seconds [~ 92 test (100%) started, 0 in queue, 12 running]
Finished protein_dna_interface_design in 504 seconds [~ 92 test (100%) started, 0 in queue, 11 running]
Finished abinitio in 620 seconds [~ 92 test (100%) started, 0 in queue, 10 running]
Finished mp_symdock in 1393 seconds [~ 92 test (100%) started, 0 in queue, 9 running]
Finished nucleobase_sample_around in 808 seconds [~ 92 test (100%) started, 0 in queue, 8 running]
Finished stepwise_monte_carlo_rna_multiloop in 1063 seconds [~ 92 test (100%) started, 0 in queue, 7 running]
Finished membrane_homology_modeling in 1102 seconds [~ 92 test (100%) started, 0 in queue, 6 running]
Finished ideal_proteins in 1439 seconds [~ 92 test (100%) started, 0 in queue, 5 running]
Finished prepare_pdb_for_rosetta_with_relax in 1491 seconds [~ 92 test (100%) started, 0 in queue, 4 running]
*** Test optE exceeded the timeout=1800 and will be killed! [2016-08-10 00:22:00.565859]
Finished optE in 1800 seconds [~ 92 test (100%) started, 0 in queue, 3 running]
*** Test beta_strand_homodimer_design exceeded the timeout=1800 and will be killed! [2016-08-10 00:22:34.348912]
Finished beta_strand_homodimer_design in 1800 seconds [~ 92 test (100%) started, 0 in queue, 2 running]
*** Test spin_labels exceeded the timeout=1800 and will be killed! [2016-08-10 00:28:52.191807]
Finished spin_labels in 1800 seconds [~ 92 test (100%) started, 0 in queue, 1 running]