++ pwd
+ ORIGDIR=/usr/users/0/nigra/hmmer
+ PID=7157
+ export PID
+ TMPDIR=/scratch/nigra/7157
+ export TMPDIR
+ mkdir -p /scratch/nigra/7157
+ cd /scratch/nigra/7157
+ cp /usr/users/0/nigra/hmmer/carp_r_5_msa_10_1000_msa250_optimal.msf carp_r_5_msa_10_1000_msa250_optimal.msf
+ /biomed/bin/hmmbuild carp_hmmb_pam200.hmm carp_r_5_msa_10_1000_msa250_optimal.msf
hmmbuild - build a hidden Markov model from an alignment
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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Alignment file:                    carp_r_5_msa_10_1000_msa250_optimal.msf
File format:                       MSF
Search algorithm configuration:    Multiple domain (hmmls)
Model construction strategy:       MAP (gapmax hint: 0.50)
Null model used:                   (default)
Prior used:                        (default)
Sequence weighting method:         G/S/C tree weights
New HMM file:                      carp_hmmb_pam200.hmm 
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Alignment:           #1
Number of sequences: 5
Number of columns:   440

Determining effective sequence number    ... done. [5]
Weighting sequences heuristically        ... done.
Constructing model architecture          ... done.
Converting counts to probabilities       ... done.
Setting model name, etc.                 ... done. [carp_r_5_msa_10_1000_msa250_optimal]

Constructed a profile HMM (length 435)
Average score:      922.80 bits
Minimum score:      849.96 bits
Maximum score:      999.61 bits
Std. deviation:      61.01 bits

Finalizing model configuration           ... done.
Saving model to file                     ... done.
//

+ cp carp_hmmb_pam200.hmm /usr/users/0/nigra/hmmer/carp_hmmb_pam200.hmm
+ '[' 0 -eq 0 ']'
+ echo ' '
 
+ echo 'Successfully copied carp_hmmb_pam200.hmm'
Successfully copied carp_hmmb_pam200.hmm
+ echo ' '
 
+ cd /usr/users/0/nigra/hmmer
+ /bin/rm -rf /scratch/nigra/7157