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}
#________________________________________________________________________________
# Title : bla_to_msf (this is not used. Use convert_bla_to_msf)
# Usage : @msf_file_made=@{&bla_to_msf(\@bla_file)};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced
# Example :
# Keywords : convert_bla_to_msf
# Options :
# Author :
# Category :
# Version : 1.1
#--------------------------------------------------------------------------------
sub bla_to_msf{
#"""""""""""""""""< handle_arguments{ head Ver 4.1 >"""""""""""""""""""
my(@A)=&handle_arguments(@_);my($num_opt)=${$A[7]};my($char_opt)=${$A[8]};
}
return(\@final_out);
}
#________________________________________________________________________________
# Title : convert_bla_to_msf
# Usage : @msf_file_made=@{&convert_bla_to_msf(\@bla_file)};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced
# Example :
# Keywords : convert_bla_to_msf
# Options :
# Author :
# Category :
# Version : 1.1
#--------------------------------------------------------------------------------
sub convert_bla_to_msf{
#"""""""""""""""""< handle_arguments{ head Ver 4.1 >"""""""""""""""""""
my(@A)=&handle_arguments(@_);my($num_opt)=${$A[7]};my($char_opt)=${$A[8]};
return(\@finale_out);
}
#________________________________________________________________________________
# Title : convert_bla_multaln_to_msf
# Usage : @msf_file_made=@{&convert_bla_multaln_to_msf(\@bla_file, [i=2])};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced,
# when you use m6 option for PSI blast
# this adds '00x' extensions to the repeatedly occurring seq names
#
# Example : @msf_file_made=@{&convert_bla_multaln_to_msf(\@bla_file,
# $verbose, "i=$iteration")};
# Keywords : psi_blast_to_msf, psi_blast_multaln_to_msf
# Options :
# i=$iteration
# v for verbose
# Author :
}
#________________________________________________________________________________
# Title : bla_to_msf (this is not used. Use convert_bla_to_msf)
# Usage : @msf_file_made=@{&bla_to_msf(\@bla_file)};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced
# Example :
# Keywords : convert_bla_to_msf
# Options :
# Author :
# Category :
# Version : 1.1
#--------------------------------------------------------------------------------
sub bla_to_msf{
#"""""""""""""""""< handle_arguments{ head Ver 4.1 >"""""""""""""""""""
my(@A)=&handle_arguments(@_);my($num_opt)=${$A[7]};my($char_opt)=${$A[8]};
}
return(\@final_out);
}
#________________________________________________________________________________
# Title : convert_bla_to_msf
# Usage : @msf_file_made=@{&convert_bla_to_msf(\@bla_file)};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced
# Example :
# Keywords : convert_bla_to_msf
# Options :
# Author :
# Category :
# Version : 1.1
#--------------------------------------------------------------------------------
sub convert_bla_to_msf{
#"""""""""""""""""< handle_arguments{ head Ver 4.1 >"""""""""""""""""""
my(@A)=&handle_arguments(@_);my($num_opt)=${$A[7]};my($char_opt)=${$A[8]};
return(\@finale_out);
}
#________________________________________________________________________________
# Title : convert_bla_multaln_to_msf
# Usage : @msf_file_made=@{&convert_bla_multaln_to_msf(\@bla_file, [i=2])};
# Function : matched each query seq name and if the E value is lower than
# my arbitrary threshold, I put the subject and target pair
# alignment into a hash.
# In later iterations, the latest is replaced,
# when you use m6 option for PSI blast
# this adds '00x' extensions to the repeatedly occurring seq names
#
# Example : @msf_file_made=@{&convert_bla_multaln_to_msf(\@bla_file,
# $verbose, "i=$iteration")};
# Keywords : psi_blast_to_msf, psi_blast_multaln_to_msf
# Options :
# i=$iteration
# v for verbose
# Author :
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