Next refresh should show more results. ( run in 1.165 )
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lib/Bio/MAGETAB/Util/Builder.pm view on Meta::CPAN
has 'relaxed_parser' => ( is => 'rw',
isa => Bool,
default => 0,
required => 1 );
sub update {
# Empty stub method; updates are not required when the objects are
# all held in scope by the database hashref. This method is
# overridden in persistence subclasses dealing with
# e.g. relational databases.
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lib/Bio/MLST/Download/Database.pm view on Meta::CPAN
has 'species' => ( is => 'ro', isa => 'Str', required => 1 );
has 'destination_directory' => ( is => 'ro', isa => 'Str', lazy => 1, builder => '_build_destination_directory' );
sub update
{
my ($self) = @_;
for my $allele_file (@{$self->database_attributes->{alleles}})
{
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lib/Bio/MUST/Apps/HmmCleaner.pm view on Meta::CPAN
}
return \%matrix;
}
sub update_cleaners {
my $self = shift;
my $threshold = shift;
$self->_set_threshold($threshold);
my $costs = shift // $self->_get_default_cost;
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lib/Bio/MUST/Core/Taxonomy.pm view on Meta::CPAN
### Done!
return $tax;
}
sub update_cache {
my $self = shift;
my $cachefile = file($self->tax_dir, $CACHEDB);
### Updating binary cache file: $cachefile->stringify
$self->store($cachefile);
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lib/Bio/Phylo/Beagle.pm view on Meta::CPAN
-deriv1 => Optional: List of indices of first derivative matrices to update
-deriv2 => Optional: List of indices of second derivative matrices to update
=cut
sub update_transition_matrices {
$logger->info("@_");
my $self = shift;
my %args = looks_like_hash @_;
# create node and edge arrays
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lib/Bio/RNA/Barriers/Results.pm view on Meta::CPAN
# RateMatrix::keep_connected()), delete all other minima and update their
# ancesters' basin size information accordingly.
# Arguments:
# ordered_connected_indices: ordered list of indices of (all???)
# connected minima.
sub update_connected {
my ($self, @ordered_connected_indices) = @_;
# Go through all mins and check whether they're next in the connected
# (==kept) index list. If not, add to removal list.
my @connected_mins = $self->get_mins(@ordered_connected_indices);
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lib/Bio/ToolBox/parser/ucsc.pm view on Meta::CPAN
# transcript is complete
return $transcript;
}
sub update_attributes {
my ($self, $seqf) = @_;
# add Note if possible
if (defined $self->note ) {
$self->add_unique_attribute($seqf, 'Note', $self->note );
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lib/Bio/VertRes/Config/MultipleTopLevelFiles.pm view on Meta::CPAN
has 'database' => ( is => 'ro', isa => 'Str', required => 1 );
has 'pipeline_configs' => ( is => 'ro', isa => 'ArrayRef', required => 1 );
has 'config_base' => ( is => 'ro', isa => 'Str', required => 1 );
sub update_or_create {
my ($self) = @_;
my %short_name_to_configs;
#Â split by short name
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lib/Bio/DB/BioSQL/BaseDriver.pm view on Meta::CPAN
then give the class name.
=cut
sub update_object{
my ($self,$adp,$obj,$fkobjs) = @_;
# obtain the object's slots to be serialized
my @slots = $adp->get_persistent_slots($obj);
# get the UPDATE statement
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lib/Bio/Tools/Run/Phylo/Hyphy/Base.pm view on Meta::CPAN
Args : boolean: keep existing parameter values
=cut
sub update_ordered_parameters {
my ($self) = @_;
for (my $i=0; $i < scalar(@{$self->{'_orderedparams'}}); $i++) {
my ($param,$val) = each %{$self->{'_orderedparams'}[$i]};
if (exists $self->{'_params'}{$param}) {
$self->{'_orderedparams'}[$i] = {$param, $self->{'_params'}{$param}};
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Bio/Assembly/Scaffold.pm view on Meta::CPAN
Returns : 1 for success
Args : none
=cut
sub update_seq_list {
my $self = shift;
$self->{'_seqs'} = {};
# Put sequences in contigs in list of sequences belonging to the scaffold
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lib/BioX/Workflow/Command/run/Rules/Directives/Walk.pm view on Meta::CPAN
Take the values from walk_directive and update the directive
=cut
sub update_directive {
my $self = shift;
my $text = shift;
my ( $key, $container, $index );
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# Returns :
# Argument :
# Category :
# Version : 2.8
#--------------------------------------------------------------------
sub update_subroutines{
#"""""""""""""""""< handle_arguments{ head Ver 4.1 >"""""""""""""""""""
my(@A)=&handle_arguments(@_);my($num_opt)=${$A[7]};my($char_opt)=${$A[8]};
my(@hash)=@{$A[0]};my(@file)=@{$A[4]};my(@dir)=@{$A[3]};my(@array)=@{$A[1]};
my(@string)=@{$A[2]};my(@num_opt)=@{$A[5]};my(@char_opt)=@{$A[6]};
my(@raw_string)=@{$A[9]};my(%vars)=%{$A[10]};my(@range)=@{$A[11]};
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lib/Bitcoin/Crypto/Transaction.pm view on Meta::CPAN
signature_for update_utxos => (
method => Object,
positional => [],
);
sub update_utxos
{
my ($self) = @_;
foreach my $input (@{$self->inputs}) {
$input->utxo->unregister;
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lib/BlankOnDev/Repo.pm view on Meta::CPAN
# Read Sources list :
}
# Subroutine for update database repository on local system :
# ------------------------------------------------------------------------
sub update {
# repo update :
system('sudo apt-get update');
}
# Subroutine for install packages before build :
# ------------------------------------------------------------------------
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lib/BmltClient/ApiClient.pm view on Meta::CPAN
# update header and query param based on authentication setting
#
# @param array $headerParams header parameters (by ref)
# @param array $queryParams query parameters (by ref)
# @param array $authSettings array of authentication scheme (e.g ['api_key'])
sub update_params_for_auth {
my ($self, $header_params, $query_params, $auth_settings) = @_;
return $self->_global_auth_setup($header_params, $query_params)
unless $auth_settings && @$auth_settings;
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lib/Bootylicious/Document.pm view on Meta::CPAN
print $file $self->content || '';
return $self;
}
sub update {
my $self = shift;
my $hash = shift;
$hash ||= {};
foreach my $key (keys %$hash) {
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lib/Bot/Backbone/Service/OFun/Karma.pm view on Meta::CPAN
# OK!
return 1;
}
sub update_scores {
my ($self, $message) = @_;
my @args = $message->all_args;
THING: for my $i (0 .. $#args) {
my $arg = $args[$i];
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lib/Bot/BasicBot/Pluggable/Module/Seen.pm view on Meta::CPAN
my $what = 'joining the channel';
$self->update_seen( $mess->{who}, $mess->{channel}, $what );
return;
}
sub update_seen {
my ( $self, $who, $channel, $what ) = @_;
my $nick = lc $who;
$channel = lc $channel;
my $ignore_channels = $self->get('user_ignore_channels') || {};
return if exists $ignore_channels->{$channel};
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JabberBot.pm view on Meta::CPAN
}
$self->roster(\@roster);
}
}
sub update_session {
my ($self,$said) = @_;
my $session = $self->session;
my $dialogue = $session->{$said->{who}} || [ ];
my $session_length = $self->session_length || '8';
if (scalar(@{$dialogue}) > 8) {
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examples/UberBot/Seen.pm view on Meta::CPAN
else {
return "I haven't seen $user, $nick";
}
}
sub update_seen {
my ($self, $nick, $channel, $msg) = @_;
$self->{seen}{$nick} = {
'time' => time(),
'msg' => $msg,
'channel' => $channel,
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lib/Bracket/Controller/Admin.pm view on Meta::CPAN
return 0;
}
else { return 1; }
}
sub update_player_points : Global {
my ($self, $c) = @_;
$c->stash->{template} = 'player/all_home.tt';
my @players = $c->model('DBIC::Player')->all;
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my ($bugid) = $dbh->fetch_one_value( sql => $Query{AutoIncrement} );
update_bug( $dbh, $bugid, undef, undef, $text );
return $bugid;
}
sub update_bug {
my ( $dbh, $bug_id, $bug_resolution, $bug_status, $text ) = @_;
if ( defined $bug_resolution ) {
$dbh->do_update(
'table' => 'bugs',
'values' => { resolution => "'$bug_resolution'" },
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lib/Biblio/Bibtex.pm view on Meta::CPAN
$v =~ s/%(\d)/ @pars[$1-1] /ge;
return $v;
# return $shortcuts->{$text};
}
#sub updateShortcuts {
# my ($self) = @_;
# delete $self->{'shortcuts'};
#}
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lib/Business/AU/Ledger.pm view on Meta::CPAN
} # End of tab_set.
# -----------------------------------------------
sub update_context
{
my($self) = @_;
$self -> log(__PACKAGE__ . '. Leaving update_context');
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lib/Business/Address/POBox.pm view on Meta::CPAN
sub init {
my $self = shift;
$self->update;
}
sub update {
my $self = shift;
for ($self->matcher) {
$_->blacklist($self->blacklist);
$_->whitelist($self->whitelist);
$_->update;
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lib/Business/AuthorizeNet/CIM.pm view on Meta::CPAN
$writer->end;
return $self->_send($xml);
}
sub updateCustomerProfile {
my $self = shift;
my $args = scalar @_ % 2 ? shift : {@_};
my $xml;
my $writer = XML::Writer->new(OUTPUT => \$xml);
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