Warning: no access to tty (Bad file descriptor). Thus no job control in this shell. 06-Dec-2005 20:49:02 n-1<26823> ssi:boot:base:linear: booting n0 (wolf01) n-1<26823> ssi:boot:base:linear: booting n1 (wolf02) n-1<26823> ssi:boot:base:linear: booting n2 (wolf03) n-1<26823> ssi:boot:base:linear: booting n3 (wolf04) n-1<26823> ssi:boot:base:linear: booting n4 (wolf05) n-1<26823> ssi:boot:base:linear: booting n5 (wolf06) n-1<26823> ssi:boot:base:linear: booting n6 (wolf07) n-1<26823> ssi:boot:base:linear: booting n7 (wolf08) n-1<26823> ssi:boot:base:linear: booting n8 (wolf09) n-1<26823> ssi:boot:base:linear: booting n9 (wolf10) n-1<26823> ssi:boot:base:linear: booting n10 (wolf11) n-1<26823> ssi:boot:base:linear: booting n11 (wolf12) n-1<26823> ssi:boot:base:linear: booting n12 (wolf13) n-1<26823> ssi:boot:base:linear: finished LAM 7.2b1svn10112005/MPI 2 C++/ROMIO - Indiana University ___________________________________________________________________ CYANA 2.1 (intel-lam) Copyright (c) 2002-05 Peter Guntert. All rights reserved. ___________________________________________________________________ Library file "/user/cyana-2.1/lib/cyana.lib" read, 37 residue types. Sequence file "znf42.seq" read, 219 residues. Symmetric dimer: Molecule 1: residues 35..128 Molecule 2: residues 335..428 403 identity constraints created. 8836 symmetry constraints created. cyana> cyana> cyana> - znf42: ./init - init: read lib /user/cyana-2.1/lib/cyana.lib Library file "/user/cyana-2.1/lib/cyana.lib" read, 37 residue types. - init: read seq znf42.seq Sequence file "znf42.seq" read, 219 residues. - init: molecules define 35..128 335..428 Symmetric dimer: Molecule 1: residues 35..128 Molecule 2: residues 335..428 - init: molecule identity 403 identity constraints created. - init: molecule symdist "CA 35..128" "CA 335..428" 8836 symmetry constraints created. - znf42: read upl znf42_rev.upl Distance constraint file "znf42_rev.upl" read, 2153 upper limits, 2153 assignments. - znf42: read aco znf42.aco Angle constraint file "znf42.aco" read, 264 constraints for 264 angles. - znf42: calc_all structures=100 command=anneal steps=10000 100 structures selected. 100 random structures created (seed 35671). Structure annealed in 38 s, f = 6.01725. Structure annealed in 39 s, f = 4.43013. Structure annealed in 39 s, f = 6.11191. Structure annealed in 39 s, f = 2.40314. Structure annealed in 39 s, f = 6.76432. Structure annealed in 39 s, f = 3.37300. Structure annealed in 39 s, f = 3.88446. Structure annealed in 39 s, f = 4.31463. Structure annealed in 39 s, f = 3.35334. Structure annealed in 39 s, f = 4.21742. Structure annealed in 39 s, f = 3.57021. Structure annealed in 39 s, f = 3.11806. Structure annealed in 40 s, f = 102.559. Structure annealed in 39 s, f = 2.24331. Structure annealed in 39 s, f = 6.63297. Structure annealed in 39 s, f = 4.39311. Structure annealed in 39 s, f = 3.59031. Structure annealed in 39 s, f = 2.56597. Structure annealed in 39 s, f = 2.72727. Structure annealed in 41 s, f = 105.912. Structure annealed in 40 s, f = 4.01456. Structure annealed in 39 s, f = 4.21089. Structure annealed in 39 s, f = 3.63603. Structure annealed in 39 s, f = 2.45794. Structure annealed in 39 s, f = 3.63500. Structure annealed in 38 s, f = 3.44578. Structure annealed in 40 s, f = 42.4329. Structure annealed in 39 s, f = 3.88590. Structure annealed in 39 s, f = 3.45454. Structure annealed in 39 s, f = 5.17445. Structure annealed in 39 s, f = 3.25360. Structure annealed in 39 s, f = 3.26202. Structure annealed in 39 s, f = 9.52752. Structure annealed in 39 s, f = 6.21470. Structure annealed in 39 s, f = 5.92336. Structure annealed in 39 s, f = 6.79512. Structure annealed in 39 s, f = 4.18848. Structure annealed in 39 s, f = 4.04815. Structure annealed in 39 s, f = 3.71265. Structure annealed in 39 s, f = 3.54172. Structure annealed in 39 s, f = 2.89661. Structure annealed in 39 s, f = 5.94487. Structure annealed in 41 s, f = 324.011. Structure annealed in 39 s, f = 9.61183. Structure annealed in 39 s, f = 3.32972. Structure annealed in 39 s, f = 3.07842. Structure annealed in 39 s, f = 3.35439. Structure annealed in 40 s, f = 40.5413. Structure annealed in 40 s, f = 3.87007. Structure annealed in 39 s, f = 5.05560. Structure annealed in 38 s, f = 3.01168. Structure annealed in 39 s, f = 6.10094. Structure annealed in 39 s, f = 4.11604. Structure annealed in 39 s, f = 6.63399. Structure annealed in 39 s, f = 6.89799. Structure annealed in 39 s, f = 4.17569. Structure annealed in 39 s, f = 7.05639. Structure annealed in 39 s, f = 3.26683. Structure annealed in 39 s, f = 3.29818. Structure annealed in 39 s, f = 7.92778. Structure annealed in 39 s, f = 2.55430. Structure annealed in 39 s, f = 3.76689. Structure annealed in 41 s, f = 291.273. Structure annealed in 39 s, f = 6.98801. Structure annealed in 40 s, f = 3.86155. Structure annealed in 39 s, f = 4.93517. Structure annealed in 41 s, f = 183.243. Structure annealed in 39 s, f = 7.54682. Structure annealed in 39 s, f = 3.80762. Structure annealed in 39 s, f = 4.15874. Structure annealed in 39 s, f = 3.98548. Structure annealed in 39 s, f = 8.50403. Structure annealed in 39 s, f = 6.18826. Structure annealed in 39 s, f = 2.27287. Structure annealed in 39 s, f = 2.96098. Structure annealed in 40 s, f = 303.501. Structure annealed in 39 s, f = 2.82494. Structure annealed in 39 s, f = 4.25500. Structure annealed in 41 s, f = 286.408. Structure annealed in 40 s, f = 6.49690. Structure annealed in 39 s, f = 7.42807. Structure annealed in 39 s, f = 7.64380. Structure annealed in 39 s, f = 3.87925. Structure annealed in 39 s, f = 2.53584. Structure annealed in 39 s, f = 4.13874. Structure annealed in 39 s, f = 104.998. Structure annealed in 41 s, f = 327.215. Structure annealed in 39 s, f = 2.97873. Structure annealed in 39 s, f = 2.39574. Structure annealed in 40 s, f = 3.74135. Structure annealed in 39 s, f = 8.53707. Structure annealed in 39 s, f = 3.01902. Structure annealed in 40 s, f = 4.37347. Structure annealed in 40 s, f = 55.1066. Structure annealed in 40 s, f = 4.13085. Structure annealed in 39 s, f = 2.98742. Structure annealed in 39 s, f = 2.27312. Structure annealed in 39 s, f = 5.19113. Structure annealed in 39 s, f = 7.07135. Structure annealed in 39 s, f = 3.74835. 100 structures finished in 164 s (1 s/structure). - znf42: overview znf42.ovw structures=20 pdb Structural statistics: str target upper limits van der Waals torsion angles function # rms max # sum max # rms max 1 2.24 3 0.0099 0.39 0 7.3 0.18 0 0.3760 2.24 2 2.27 0 0.0067 0.19 1 7.0 0.23 0 0.3399 2.61 3 2.27 1 0.0081 0.21 0 7.7 0.19 0 0.2737 1.79 4 2.40 1 0.0077 0.23 0 6.9 0.17 0 0.3522 2.36 5 2.40 1 0.0076 0.22 0 8.1 0.18 0 0.2791 2.13 6 2.46 2 0.0075 0.23 1 7.2 0.22 0 0.2648 1.65 7 2.54 2 0.0085 0.29 2 7.8 0.29 0 0.2420 1.75 8 2.55 2 0.0089 0.32 0 7.4 0.20 0 0.3204 2.14 9 2.57 1 0.0071 0.21 0 6.6 0.16 0 0.3251 2.33 10 2.73 2 0.0085 0.26 0 7.7 0.19 0 0.2921 2.05 11 2.82 1 0.0079 0.21 3 7.7 0.29 0 0.3105 2.25 12 2.90 3 0.0089 0.28 2 8.2 0.29 0 0.3685 2.13 13 2.96 4 0.0095 0.28 4 8.5 0.28 0 0.4425 3.32 14 2.98 0 0.0066 0.17 0 6.6 0.17 0 0.3158 1.91 15 2.99 2 0.0085 0.23 3 7.9 0.29 0 0.3824 2.86 16 3.01 2 0.0073 0.22 4 8.3 0.29 0 0.2916 2.00 17 3.02 2 0.0089 0.29 1 7.1 0.22 0 0.3544 2.18 18 3.08 4 0.0098 0.36 3 8.8 0.29 0 0.4225 2.18 19 3.12 1 0.0090 0.21 1 9.2 0.21 0 0.3715 2.01 20 3.25 1 0.0093 0.25 3 9.0 0.29 0 0.3796 3.09 Ave 2.73 2 0.0083 0.25 1 7.7 0.23 0 0.3352 2.25 +/- 0.31 1 0.0010 0.06 1 0.7 0.05 0 0.0518 0.42 Min 2.24 0 0.0066 0.17 0 6.6 0.16 0 0.2420 1.65 Max 3.25 4 0.0099 0.39 4 9.2 0.29 0 0.4425 3.32 Cut 0.20 0.20 5.00 Overview file "znf42.ovw" written. PDB coordinate file "znf42.pdb" written, 20 conformers. - znf42: ramaplot znf42.rama nobackground label Struct fav add gen dis ------ --- --- --- --- 1 143 9 0 0 2 133 17 2 0 3 134 18 0 0 4 141 9 2 0 5 137 13 0 2 (ARG 123, ARG 423) 6 138 12 0 2 (ASP 37, ASP 337) 7 137 15 0 0 8 142 8 0 2 (GLU 125, GLU 425) 9 141 11 0 0 10 136 16 0 0 11 136 16 0 0 12 145 7 0 0 13 136 14 2 0 forrtl: Stale NFS file handle forrtl: severe (38): error during write, unit 41, file /user/francis/znf42/8cyana/119/znf42.grf Image PC Routine Line Source cyanaexe.intel-la 40000000004FC670 Unknown Unknown Unknown cyanaexe.intel-la 40000000004F8A50 Unknown Unknown Unknown cyanaexe.intel-la 40000000004A0250 Unknown Unknown Unknown cyanaexe.intel-la 40000000004207C0 Unknown Unknown Unknown cyanaexe.intel-la 400000000041FB70 Unknown Unknown Unknown cyanaexe.intel-la 4000000000473F90 Unknown Unknown Unknown cyanaexe.intel-la 4000000000470770 Unknown Unknown Unknown cyanaexe.intel-la 40000000002C5A30 Unknown Unknown Unknown cyanaexe.intel-la 40000000002C51E0 Unknown Unknown Unknown cyanaexe.intel-la 40000000002B08B0 Unknown Unknown Unknown cyanaexe.intel-la 4000000000295780 Unknown Unknown Unknown cyanaexe.intel-la 4000000000007370 Unknown Unknown Unknown cyanaexe.intel-la 4000000000006A90 Unknown Unknown Unknown libc.so.6.1 2000000000456970 Unknown Unknown Unknown cyanaexe.intel-la 40000000000068C0 Unknown Unknown Unknown forrtl: severe (28): CLOSE error, unit 41, file "Unknown" Image PC Routine Line Source cyanaexe.intel-la 40000000004FC670 Unknown Unknown Unknown cyanaexe.intel-la 40000000004F8A50 Unknown Unknown Unknown cyanaexe.intel-la 40000000004A0250 Unknown Unknown Unknown cyanaexe.intel-la 40000000004207C0 Unknown Unknown Unknown cyanaexe.intel-la 4000000000423180 Unknown Unknown Unknown cyanaexe.intel-la 4000000000420620 Unknown Unknown Unknown cyanaexe.intel-la 400000000041FB70 Unknown Unknown Unknown cyanaexe.intel-la 4000000000473F90 Unknown Unknown Unknown cyanaexe.intel-la 4000000000470770 Unknown Unknown Unknown cyanaexe.intel-la 40000000002C5A30 Unknown Unknown Unknown cyanaexe.intel-la 40000000002C51E0 Unknown Unknown Unknown cyanaexe.intel-la 40000000002B08B0 Unknown Unknown Unknown cyanaexe.intel-la 4000000000295780 Unknown Unknown Unknown cyanaexe.intel-la 4000000000007370 Unknown Unknown Unknown cyanaexe.intel-la 4000000000006A90 Unknown Unknown Unknown libc.so.6.1 2000000000456970 Unknown Unknown Unknown cyanaexe.intel-la 40000000000068C0 Unknown Unknown Unknown getRegFromUnwindContext: Can't get Gr0 from UnwindContext, using 0 getRegFromUnwindContext: Can't get Gr0 from UnwindContext, using 0 MPI_Recv: process in local group is dead (rank 1, comm 3) MPI_Recv: process in local group is dead (rank 2, comm 3) MPI_Recv: process in local group is dead (rank 4, comm 3) MPI_Recv: process in local group is dead (rank 8, comm 3) Rank (4, MPI_COMM_WORLD): Call stack within LAM: Rank (4, MPI_COMM_WORLD): - MPI_Recv() Rank (4, MPI_COMM_WORLD): - MPI_Bcast() Rank (4, MPI_COMM_WORLD): - MPI_Bcast() Rank (4, MPI_COMM_WORLD): - main() Rank (2, MPI_COMM_WORLD): Call stack within LAM: Rank (2, MPI_COMM_WORLD): - MPI_Recv() Rank (2, MPI_COMM_WORLD): - MPI_Bcast() Rank (2, MPI_COMM_WORLD): - MPI_Bcast() Rank (2, MPI_COMM_WORLD): - main() ----------------------------------------------------------------------------- One of the processes started by mpirun has exited with a nonzero exit code. This typically indicates that the process finished in error. If your process did not finish in error, be sure to include a "return 0" or "exit(0)" in your C code before exiting the application. PID 26905 failed on node n0 (192.168.96.101) with exit status 28. ----------------------------------------------------------------------------- MPI_Recv: process in local group is dead (rank 3, comm 3) Rank (6, MPI_COMM_WORLD): Call stack within LAM: Rank (6, MPI_COMM_WORLD): - MPI_Recv() Rank (6, MPI_COMM_WORLD): - MPI_Bcast() Rank (6, MPI_COMM_WORLD): - MPI_Bcast() Rank (6, MPI_COMM_WORLD): - main() Rank (8, MPI_COMM_WORLD): Call stack within LAM: Rank (8, MPI_COMM_WORLD): - MPI_Recv() Rank (8, MPI_COMM_WORLD): - MPI_Bcast() Rank (8, MPI_COMM_WORLD): - MPI_Bcast() Rank (8, MPI_COMM_WORLD): - main() Rank (16, MPI_COMM_WORLD): Call stack within LAM: Rank (16, MPI_COMM_WORLD): - MPI_Recv() Rank (16, MPI_COMM_WORLD): - MPI_Bcast() Rank (16, MPI_COMM_WORLD): - MPI_Bcast() Rank (16, MPI_COMM_WORLD): - main() LAM 7.2b1svn10112005/MPI 2 C++/ROMIO - Indiana University 06-Dec-2005 20:52:16