Result:
found more than 668 distributions - search limited to the first 2001 files matching your query
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Bio-Emboss
view release on metacpan or search on metacpan
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
Bio-Epithelium
view release on metacpan or search on metacpan
lib/Bio/Epithelium.pm view on Meta::CPAN
=head1 SEE ALSO
=head1 AUTHOR
koboldwiz, E<lt>koboldwiz@yahoo.comE<gt>
=head1 COPYRIGHT AND LICENSE
Copyright (C) 2021 by koboldwiz
This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself, either Perl version 5.28.2 or,
at your option, any later version of Perl 5 you may have available.
Bio-Genex
view release on metacpan or search on metacpan
samples/query-intro.pl.in view on Meta::CPAN
alignment: left;
indent: 20pt;
}
P.Alert {
font-size: 18;
font-style: bold;
font-family: serif;
alignment: left;
indent: 20pt;
}
END
Bio-Graphics
view release on metacpan or search on metacpan
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
'c_terminal_offset' => { 'private' => 'c_term_offset',
'default' => 0},
## colour scheme & display options
'show_labels' => { 'private' => 'labels',
'default' => 'on'},
'bold_helices' => { 'private' => 'bold_helices',
'default' => 1},
'bold_labels' => { 'private' => 'bold_labels',
'default' => 0},
'colour_scheme' => { 'private' => 'scheme',
'default' => 'yellow'},
'draw_cytosol' => { 'private' => 'draw_cytosol',
'default' => 0},
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
$self->{'im'}->filledRectangle($x+4,$y+4,($x + $self->{'helix_width'})-4,($y + $self->{'helix_height'})-4,$colour2);
$self->{'im'}->filledRectangle($x+5,$y+5,($x + $self->{'helix_width'})-5,($y + $self->{'helix_height'})-5,$colour1);
$self->{'im'}->filledRectangle($x+6,$y+6,($x + $self->{'helix_width'})-6,($y + $self->{'helix_height'})-6,$colour);
## draw a white box around it
if ($self->{'bold_helices'}){
$self->{'im'}->rectangle($x,$y,($x + $self->{'helix_width'}),($y + $self->{'helix_height'}),$self->{'black'});
$self->{'im'}->rectangle($x - 1,$y - 1,($x + $self->{'helix_width'} + 1),($y + $self->{'helix_height'} + 1),$self->{'white'});
}else{
$self->{'im'}->rectangle($x,$y,($x + $self->{'helix_width'}),($y + $self->{'helix_height'}),$self->{'white'});
}
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
$label_length = 9 + (6 * length $self->{'loop_labels'}{$l});
}
if ($_ % 2){
if ($self->{'bold_labels'}){
$self->{'im'}->filledRectangle(($x + ($self->{'helix_width'} / 2)) + 5,($y + ($self->{'helix_height'} / 2) - 30) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)) + 2,12 + ($y + ($self->{'helix_height'} / 2) - 24) + $y_mod,$self->{'...
my $b = new GD::Polygon;
$b->addPt(($x + ($self->{'helix_width'} / 2)) + 4,($y + ($self->{'helix_height'} / 2) - 30) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
$b->addPt(($x + ($self->{'helix_width'} / 2)) - 5,($y + ($self->{'helix_height'} / 2) - 21) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
$b->addPt(($x + ($self->{'helix_width'} / 2)) + 4,($y + ($self->{'helix_height'} / 2) - 12) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
$y_mod = $y_mod - 19;
}else{
if ($self->{'bold_labels'}){
$self->{'im'}->filledRectangle(($x + ($self->{'helix_width'} / 2)) + 5,($y + ($self->{'helix_height'} / 2) + 9) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)) + 2,13 + ($y + ($self->{'helix_height'} / 2) + 15) + $y_mod,$self->{'b...
my $b = new GD::Polygon;
$b->addPt(($x + ($self->{'helix_width'} / 2)) + 4,($y + ($self->{'helix_height'} / 2) + 10) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
$b->addPt(($x + ($self->{'helix_width'} / 2)) - 5,($y + ($self->{'helix_height'} / 2) + 19) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
$b->addPt(($x + ($self->{'helix_width'} / 2)) + 4,($y + ($self->{'helix_height'} / 2) + 28) + $y_mod,$label_length + ($x + ($self->{'helix_width'} / 2)));
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
170 => '170 - Phosphorylation Site',
200 => 'Last Helix');
my $im = Bio::Graphics::DrawTransmembrane->new(-n_terminal=> 'out',
-topology => \@topology,
-bold_helices=> 1,
-labels=> \%labels,
-text_offset=> -15,
-outside_label=>'Lumen',
-inside_label=>'Cytoplasm',
-membrane_label=>'Membrane',
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
## Parse Tmhmm data
use Bio::Tools::Tmhmm;
my $im = Bio::Graphics::DrawTransmembrane->new(
-title=>'Let\'s parse some Tmhmm output...',
-bold_helices=> 1);
open(FILE, 'tmhmm.out');
my $parser = new Bio::Tools::Tmhmm(-fh => \*FILE );
while(my $tmhmm_feat = $parser->next_result ) {
## Load features into DrawTransmembrane object
$im->add_tmhmm_feat($tmhmm_feat);
lib/Bio/Graphics/DrawTransmembrane.pm view on Meta::CPAN
190 => 'Binding Site');
The hash key must be numeric, ranges are
not allowed.
-bold_helices Draws black boxes round helices 1
-bold_labels Draws black boxes round labels 0
-text_offset Shift the text labeling the loops. Use a 0
negative value to shift it left, a positive
value to shift it right
Bio-Grep
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lib/Bio/Grep.pm view on Meta::CPAN
=begin html
<table><tr><th>Feature</th><th>Agrep</th><th>GUUGle</th><th>RE</th><th>Vmatch</th></tr><tr><td>Suffix Arrays/Trees</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Sliding Window</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
</tr>
<tr><td>Persistent Index<sup>1</sup></td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Mismatches</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Edit Distance</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Insertions</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
lib/Bio/Grep.pm view on Meta::CPAN
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
</tr>
<tr><td>Multiple Queries<sup>2</sup></td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>GU</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
</tr>
<tr><td>DNA/RNA</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Protein</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Direct and Revcom</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Reverse Complement</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Upstream/Downstream</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Filters</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Query Length<sup>3</sup></td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
</tr>
<tr><td>Regular Expressions<sup>4</sup></td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
<td style="font-weight: bold;text-align: center;background-color: #00ff00;">yes</td>
<td style="text-align:center;background-color: #ffe0e0;">no</td>
</tr>
</table><br/><div style="font-size: smaller"><hr width="300"
align="left"><sup>1</sup>Needs pre-calculation and (much) more memory but queries are in general faster<br/><sup>2</sup>With query_file<br/><sup>3</sup>Matches if a substring of the query of size n or larger matches<br/><sup>4</sup>Agrep soon</div>
Bio-MCPrimers
view release on metacpan or search on metacpan
mcprimers_gui.pl view on Meta::CPAN
$text_frame = $mw->Frame->pack(-pady=>5, -side=>'top', -anchor=>'nw');
$text_message = $text_frame->Message(
-width => 600,
-text => "First load a vector file and a DNA nucleotide sequence in FASTA format",
-font => 'Helvetica 12 bold');
$text_message->pack(-anchor=>'nw', -padx=>20);
}
###################################################################
mcprimers_gui.pl view on Meta::CPAN
$fname_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$fname_message = $fname_frame->Message(
-width => 200,
-text => "FASTA: undefined",
-font => 'Helvetica 10 bold')->pack(-anchor=>'nw');
$start_scale_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$start_scale_frame->Message(
-text => "Search NTs past start codon",
-font => 'Helvetica 10 bold',
-width => 200)->pack(-anchor=>'nw');
$start_scale_frame->Scale(
-resolution => 1,
-from => 60,
-to => 0,
mcprimers_gui.pl view on Meta::CPAN
-sliderlength => 10,
-length => 180,
-orient => 'horizontal',
-showvalue => 1,
-state => 'active',
-font => 'Helvetica 10 bold',)->pack(-padx => 5, -anchor=>'nw');
$stop_scale_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$stop_scale_frame->Message(
-text => "Search NTs before stop codon",
-font => 'Helvetica 10 bold',
-width => 200)->pack(-anchor=>'nw');
$stop_scale_frame->Scale(
-resolution => 1,
-from => 60,
-to => 0,
mcprimers_gui.pl view on Meta::CPAN
-sliderlength => 10,
-length => 180,
-orient => 'horizontal',
-showvalue => 1,
-state => 'active',
-font => 'Helvetica 10 bold',)->pack(-padx => 5, -anchor=>'nw');
$maxchanges_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$maxchanges_frame->Message(
-text => "Maximum changes per primer",
-font => 'Helvetica 10 bold',
-width => 200,
)->pack(-anchor=>'nw');
$maxchanges_frame->Scale(
-resolution => 1,
-from => 3,
mcprimers_gui.pl view on Meta::CPAN
-sliderlength => 10,
-length => 180,
-orient => 'horizontal',
-showvalue => 1,
-state => 'active',
-font => 'Helvetica 10 bold',)->pack(-padx => 5, -anchor=>'nw');
$para_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$para_frame->Message(
-text => "GC clamping",
-font => 'Helvetica 10 bold',
-width => 160)->pack(-anchor=>'nw');
$para_frame->Radiobutton (
-text => 'GC clamp 3\' and 5\'',
-variable => \$clamp,
-value => 'both',
mcprimers_gui.pl view on Meta::CPAN
$p3_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$p3_frame->Message(
-text => "Primer3 file",
-font => 'Helvetica 10 bold',
-width => 200)->pack(-anchor=>'nw');
$p3_check = $p3_frame->Checkbutton (
-text => 'Unspecified',
-variable => \$p3_used,
-state => 'disabled',
mcprimers_gui.pl view on Meta::CPAN
$vec_frame = $right_frame->Frame->pack(-padx=>5, -pady=>2, -anchor=>'nw');
$vec_message = $vec_frame->Message(
-width => 200,
-text => "\n",
-font => 'Helvetica 10 bold')->pack(-anchor=>'nw');
}
###################################################################
Bio-MUST-Apps-FortyTwo
view release on metacpan or search on metacpan
bin/yaml-generator-42.pl view on Meta::CPAN
use IO::Prompter [
-verbatim,
-style => 'blue strong ',
-must => { 'be a string' => qr{\S+} }
];
# bold => [qw<boldly strong heavy emphasis emphatic highlight highlighted fort forte>],
# dark => [qw<darkly dim deep>],
# faint => [qw<faintly light soft>],
# underline => [qw<underlined underscore underscored italic italics>],
# blink => [qw<blinking flicker flickering flash flashing>],
# reverse => [qw<reversed inverse inverted>],
Bio-NEXUS
view release on metacpan or search on metacpan
t/data/compliant/Bird_Ovomucoids.nex view on Meta::CPAN
Dromaius_novaehollandiae ........D....L.....N..........D......A..??D?????...--.......S.E.......N..D.....N...G.... [86]
Nothoprocta_cinerascens .....A.D.....P...TP...A.NA.FGS....V....I..DHDK?????T-..G...AT.E.F..NQ.A..A....KNV....L.. [87]
Eudromia_elegans .R.....D.....P...TP..V.AN....S....V....I?.?????????S-I.G...AT.EFF..NQ....A.A..KNV..N.I.E [87]
Pygoscelis_adeliae_f .TF..........LVT.......T..................DHDKEVI..--.......S.E..............D.N...S.... [86]
Pygoscelis_adeliae_y .T...........LVT.......T..................DHDKEVI..--.......S.E..............D.N...S.... [86]
Spheniscus_humboldti .T.S.........LIT.......T..................D?DKEVI..--I......S.E..............D.N.I.S.... [86]
Phalacrocorax_sulcirostris .S.SK.......ALVT.......T..............KI..DHDKEVI..--.......S.E.............AD.N...S.... [86]
Anhinga_novaehollandeae .L.S.........LVT.......T................T.DHDKEVI.S--.......S.E..............D.N...S.... [86]
Nycticorax_nycticorax .T.S.A....R..LVT.......A..........M....I..DHDGEVIV.--.......SPEN.V.......D..AD.N...S.... [86]
Chauna_chavaria .R...........L.T.T.....T..................DRDKEAV..--......AT.E....NQ....S...D.N...S.... [86]
Anseranas_semipalmata .R...S.......L.T.D...................A....DHDKEAV..--..E...AT.E....NQ........D.N...S.... [86]
t/data/compliant/Bird_Ovomucoids.nex view on Meta::CPAN
5 Dromaius_novaehollandiae,
6 Nothoprocta_cinerascens,
7 Eudromia_elegans,
8 Pygoscelis_adeliae_f,
9 Pygoscelis_adeliae_y,
10 Spheniscus_humboldti,
11 Phalacrocorax_sulcirostris,
12 Anhinga_novaehollandeae,
13 Nycticorax_nycticorax,
14 Chauna_chavaria,
15 Anseranas_semipalmata,
Bio-Phylo-Beagle
view release on metacpan or search on metacpan
beagle_wrap.c view on Meta::CPAN
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef INT2PTR
# if (IVSIZE == PTRSIZE) && (UVSIZE == PTRSIZE)
Bio-Phylo-Forest-DBTree
view release on metacpan or search on metacpan
lib/Bio/Phylo/Forest/DBTree/Result/Node.pm
LICENSE
Makefile.PL
MANIFEST This list of files
README.md
script/megatree-bold-loader
script/megatree-loader
script/megatree-ncbi-loader
script/megatree-phylotree-loader
script/megatree-pruner
script/megatree-pruner.py
Bio-Phylo
view release on metacpan or search on metacpan
lib/Bio/Phylo/Forest/DrawNodeRole.pm view on Meta::CPAN
Usage : $node->set_clade_label_font({ '-face' => 'Verdana' });
Function: Sets font properties for the clade label
Returns : $self
Args : {
'-face' => 'Verdana', # Arial, Times, etc.
'-weight' => 'bold',
'-style' => 'italic',
'-colour' => 'red',
}
=back
Bio-Roary
view release on metacpan or search on metacpan
contrib/roary_plots/roary.html view on Meta::CPAN
<style type="text/css">
/*!
*
* Twitter Bootstrap
*
*//*! normalize.css v3.0.2 | MIT License | git.io/normalize */html{font-family:sans-serif;-ms-text-size-adjust:100%;-webkit-text-size-adjust:100%}body{margin:0}article,aside,details,figcaption,figure,footer,header,hgroup,main,menu,nav,section,summary...
*
* Font Awesome
*
*//*!
* Font Awesome 4.3.0 by @davegandy - http://fontawesome.io - @fontawesome
* License - http://fontawesome.io/license (Font: SIL OFL 1.1, CSS: MIT License)
*/@font-face{font-family:'FontAwesome';src:url('../components/font-awesome/fonts/fontawesome-webfont.eot?v=4.3.0');src:url('../components/font-awesome/fonts/fontawesome-webfont.eot?#iefix&v=4.3.0') format('embedded-opentype'),url('../components/font...
*
* IPython base
*
*/.modal.fade .modal-dialog{-webkit-transform:translate(0, 0);-ms-transform:translate(0, 0);-o-transform:translate(0, 0);transform:translate(0, 0)}code{color:#000}pre{font-size:inherit;line-height:inherit}label{font-weight:normal}.border-box-sizing{b...
*
* IPython auth
*
*/.center-nav{display:inline-block;margin-bottom:-4px}/*!
*
* IPython tree view
*
*/.alternate_upload{background-color:none;display:inline}.alternate_upload.form{padding:0;margin:0}.alternate_upload input.fileinput{display:inline;opacity:0;z-index:2;width:12ex;margin-right:-12ex}.alternate_upload .input-overlay{display:inline-bloc...
*
* IPython text editor webapp
*
*/.selected-keymap i.fa{padding:0 5px}.selected-keymap i.fa:before{content:"\f00c"}#mode-menu{overflow:auto;max-height:20em}.edit_app #header{-webkit-box-shadow:0 0 12px 1px rgba(87,87,87,0.2);box-shadow:0 0 12px 1px rgba(87,87,87,0.2)}.edit_app #men...
*
* IPython notebook
*
*/.ansibold{font-weight:bold}.ansiblack{color:black}.ansired{color:darkred}.ansigreen{color:darkgreen}.ansiyellow{color:#c4a000}.ansiblue{color:darkblue}.ansipurple{color:darkviolet}.ansicyan{color:steelblue}.ansigray{color:gray}.ansibgblack{backgrou...
*
* IPython notebook webapp
*
*/@media (max-width:767px){.notebook_app{padding-left:0;padding-right:0}}#ipython-main-app{box-sizing:border-box;-moz-box-sizing:border-box;-webkit-box-sizing:border-box;height:100%}div#notebook_panel{margin:0;padding:0;box-sizing:border-box;-moz-box...
</style>
<style type="text/css">
.highlight .hll { background-color: #ffffcc }
.highlight { background: #f8f8f8; }
.highlight .c { color: #408080; font-style: italic } /* Comment */
.highlight .err { border: 1px solid #FF0000 } /* Error */
.highlight .k { color: #008000; font-weight: bold } /* Keyword */
.highlight .o { color: #666666 } /* Operator */
.highlight .cm { color: #408080; font-style: italic } /* Comment.Multiline */
.highlight .cp { color: #BC7A00 } /* Comment.Preproc */
.highlight .c1 { color: #408080; font-style: italic } /* Comment.Single */
.highlight .cs { color: #408080; font-style: italic } /* Comment.Special */
.highlight .gd { color: #A00000 } /* Generic.Deleted */
.highlight .ge { font-style: italic } /* Generic.Emph */
.highlight .gr { color: #FF0000 } /* Generic.Error */
.highlight .gh { color: #000080; font-weight: bold } /* Generic.Heading */
.highlight .gi { color: #00A000 } /* Generic.Inserted */
.highlight .go { color: #888888 } /* Generic.Output */
.highlight .gp { color: #000080; font-weight: bold } /* Generic.Prompt */
.highlight .gs { font-weight: bold } /* Generic.Strong */
.highlight .gu { color: #800080; font-weight: bold } /* Generic.Subheading */
.highlight .gt { color: #0044DD } /* Generic.Traceback */
.highlight .kc { color: #008000; font-weight: bold } /* Keyword.Constant */
.highlight .kd { color: #008000; font-weight: bold } /* Keyword.Declaration */
.highlight .kn { color: #008000; font-weight: bold } /* Keyword.Namespace */
.highlight .kp { color: #008000 } /* Keyword.Pseudo */
.highlight .kr { color: #008000; font-weight: bold } /* Keyword.Reserved */
.highlight .kt { color: #B00040 } /* Keyword.Type */
.highlight .m { color: #666666 } /* Literal.Number */
.highlight .s { color: #BA2121 } /* Literal.String */
.highlight .na { color: #7D9029 } /* Name.Attribute */
.highlight .nb { color: #008000 } /* Name.Builtin */
.highlight .nc { color: #0000FF; font-weight: bold } /* Name.Class */
.highlight .no { color: #880000 } /* Name.Constant */
.highlight .nd { color: #AA22FF } /* Name.Decorator */
.highlight .ni { color: #999999; font-weight: bold } /* Name.Entity */
.highlight .ne { color: #D2413A; font-weight: bold } /* Name.Exception */
.highlight .nf { color: #0000FF } /* Name.Function */
.highlight .nl { color: #A0A000 } /* Name.Label */
.highlight .nn { color: #0000FF; font-weight: bold } /* Name.Namespace */
.highlight .nt { color: #008000; font-weight: bold } /* Name.Tag */
.highlight .nv { color: #19177C } /* Name.Variable */
.highlight .ow { color: #AA22FF; font-weight: bold } /* Operator.Word */
.highlight .w { color: #bbbbbb } /* Text.Whitespace */
.highlight .mf { color: #666666 } /* Literal.Number.Float */
.highlight .mh { color: #666666 } /* Literal.Number.Hex */
.highlight .mi { color: #666666 } /* Literal.Number.Integer */
.highlight .mo { color: #666666 } /* Literal.Number.Oct */
.highlight .sb { color: #BA2121 } /* Literal.String.Backtick */
.highlight .sc { color: #BA2121 } /* Literal.String.Char */
.highlight .sd { color: #BA2121; font-style: italic } /* Literal.String.Doc */
.highlight .s2 { color: #BA2121 } /* Literal.String.Double */
.highlight .se { color: #BB6622; font-weight: bold } /* Literal.String.Escape */
.highlight .sh { color: #BA2121 } /* Literal.String.Heredoc */
.highlight .si { color: #BB6688; font-weight: bold } /* Literal.String.Interpol */
.highlight .sx { color: #008000 } /* Literal.String.Other */
.highlight .sr { color: #BB6688 } /* Literal.String.Regex */
.highlight .s1 { color: #BA2121 } /* Literal.String.Single */
.highlight .ss { color: #19177C } /* Literal.String.Symbol */
.highlight .bp { color: #008000 } /* Name.Builtin.Pseudo */
contrib/roary_plots/roary.html view on Meta::CPAN
#MathJax_Message {position: fixed; left: 1em; bottom: 1.5em; background-color: #E6E6E6; border: 1px solid #959595; margin: 0px; padding: 2px 8px; z-index: 102; color: black; font-size: 80%; width: auto; white-space: nowrap}
#MathJax_MSIE_Frame {position: absolute; top: 0; left: 0; width: 0px; z-index: 101; border: 0px; margin: 0px; padding: 0px}
.MathJax_Error {color: #CC0000; font-style: italic}
</style><style type="text/css">.fancybox-margin{margin-right:15px;}</style><style type="text/css">.MJXc-script {font-size: .8em}
.MJXc-right {-webkit-transform-origin: right; -moz-transform-origin: right; -ms-transform-origin: right; -o-transform-origin: right; transform-origin: right}
.MJXc-bold {font-weight: bold}
.MJXc-italic {font-style: italic}
.MJXc-scr {font-family: MathJax_Script,'Times New Roman',Times,STIXGeneral,serif}
.MJXc-frak {font-family: MathJax_Fraktur,'Times New Roman',Times,STIXGeneral,serif}
.MJXc-sf {font-family: MathJax_SansSerif,'Times New Roman',Times,STIXGeneral,serif}
.MJXc-cal {font-family: MathJax_Caligraphic,'Times New Roman',Times,STIXGeneral,serif}
Bio-WebService-LANL-SequenceLocator
view release on metacpan or search on metacpan
lib/Bio/WebService/LANL/SequenceLocator.pm view on Meta::CPAN
while (my $tag = $doc->get_tag("b", "pre")) {
my $name = lc $tag->[0];
my $text = $doc->get_text;
next unless defined $text;
# <pre>s are preceeded by a bold header, which we use as an indicator
if ($name eq 'b') {
$expect_alignment = $text =~ /Alignment\s+of\s+the\s+query\s+sequence\s+to\s+HXB2/i;
} elsif ($name eq 'pre') {
if ($text =~ /^\s*Query\b/m and $text =~ /^\s*HXB2\b/m) {
push @alignments, $text;
BioPerl-DB
view release on metacpan or search on metacpan
lib/Bio/DB/DBI/Transaction.pm view on Meta::CPAN
Usage :
Function: Get/set the database connection handle for this transaction.
Transactions are connection-specific.
You should not need to call this method from outside. If
you do, call yourself bold, but you're on your own ...
Example :
Returns : A DBI database connection handle
Args : on set, the new DBI database connection handle
BioPerl-Run
view release on metacpan or search on metacpan
lib/Bio/Tools/Run/Primer3.pm view on Meta::CPAN
# this should work, but isn't
#$self->{output}->_print($_);
print OUT $_;
}
chomp;
next if( $_ eq '='); # skip over bolderio record terminator
my ($return, $value) = split('=',$_);
$self->{'results'}->{$return} = $value;
}
close RESULTS;
BioPerl
view release on metacpan or search on metacpan
deobfuscator/Deobfuscator/cgi-bin/deob_interface.cgi view on Meta::CPAN
my $style2
= qq{style="border-collapse:collapse;border:solid black 1px;font-family:verdana;font-size:10px;padding:3"};
my $style3
= qq{style="border-collapse:collapse;border:solid black 1px;font-family:verdana;font-size:14px;padding:3"};
my $style4
= qq{style="border-collapse:collapse;border:0px;font-family:verdana;font-size:18px;font-weight:bold;padding:3"};
my $style5 = qq{style="font-family:verdana;font-size:14px;padding:3"};
# Open file containing all Bioperl package names
open my $MODS, '<', $PERLMODULES
or die "Could not read list of Perl module names '$PERLMODULES': $!\n";
Bit-Fast
view release on metacpan or search on metacpan
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
Bit-Grep
view release on metacpan or search on metacpan
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
Bit-Util
view release on metacpan or search on metacpan
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
Bitcoin-Secp256k1
view release on metacpan or search on metacpan
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
Blatte-HTML
view release on metacpan or search on metacpan
lib/Blatte/HTML.pm view on Meta::CPAN
This module tries hard to keep HTML element nesting correct. For
instance, this:
Paragraph 1.
Paragraph 2 {\b with some bold text
continuing to paragraph 3}.
becomes this:
Paragraph 1.
<p>Paragraph 2 <b>with some bold text</b></p>
<p><b>continuing to paragraph 3</b>.
Entity-encoding is automatic too. So this:
Blockchain-Contract-Solidity-ABI
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode Documentation::PodSpelling ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Modules::RequireEndWithOne Subroutines::Protect...
exclude = Subroutines::ProhibitExplicitReturnUndef
Blockchain-Ethereum-ABI
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Subroutines::ProtectPrivateSubs TestingAndDebugging::ProhibitNoStrict Test...
exclude = Subroutines::ProhibitExplicitReturnUndef
Blockchain-Ethereum-Keystore
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Subroutines::ProtectPrivateSubs TestingAndDebugging::ProhibitNoStrict Test...
exclude = Subroutines::ProhibitExplicitReturnUndef Subroutines::ProtectPrivateSubs
Blockchain-Ethereum-RLP
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Modules::RequireEndWithOne Subroutines::ProtectPrivateSubs TestingAndDebug...
exclude = Subroutines::ProhibitExplicitReturnUndef
Blockchain-Ethereum-Transaction
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Subroutines::ProtectPrivateSubs TestingAndDebugging::ProhibitNoStrict Test...
exclude = Subroutines::ProhibitExplicitReturnUndef
Blockchain-Ethereum
view release on metacpan or search on metacpan
.perlcriticrc view on Meta::CPAN
force = 1
only = 1
severity = 1
verbose = 5
color-severity-highest = bold red underline
color-severity-high = bold magenta
color-severity-medium = bold yellow
include = BuiltinFunctions::ProhibitShiftRef CodeLayout::ProhibitTrailingWhitespace CodeLayout::RequireTidyCode ErrorHandling::RequireCarping Modules::ProhibitMultiplePackages Subroutines::ProtectPrivateSubs TestingAndDebugging::ProhibitNoStrict Test...
exclude = Subroutines::ProhibitExplicitReturnUndef Subroutines::ProtectPrivateSubs
Blog-Simple-HTMLOnly
view release on metacpan or search on metacpan
blogcal.cgi view on Meta::CPAN
<style type='text/css'>
.cal table { border-collapse: collapse; padding:0; margin:0; border:none }
.cal a {
position:relative;
color:black;
font-weight:bold;
width:100%;
height:100%;
text-decoration:none;
background: lime;
}
Bloom-Faster
view release on metacpan or search on metacpan
* capable of those should have IVSIZE already. */
#if !defined(IVSIZE) && defined(LONGSIZE)
# define IVSIZE LONGSIZE
#endif
#ifndef IVSIZE
# define IVSIZE 4 /* A bold guess, but the best we can make. */
#endif
#ifndef UVSIZE
# define UVSIZE IVSIZE
#endif
Boost-Geometry-Utils
view release on metacpan or search on metacpan
src/ppport.h view on Meta::CPAN
#ifndef IVSIZE
# ifdef LONGSIZE
# define IVSIZE LONGSIZE
# else
# define IVSIZE 4 /* A bold guess, but the best we can make. */
# endif
#endif
#ifndef UVTYPE
# define UVTYPE unsigned IVTYPE
#endif
( run in 2.456 seconds using v1.01-cache-2.11-cpan-c333fce770f )