Last active
December 12, 2015 09:39
-
-
Save cory-ko/4753253 to your computer and use it in GitHub Desktop.
Sample script to submit sequence data to G-Links (http://link.g-language.org/) with feeling lucky (-direct = 1).
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
#!/usr/bin/env perl | |
use strict; | |
use warnings; | |
use LWP::UserAgent; | |
use HTTP::Request::Common qw/POST/; | |
my $serv_url= 'http://link.g-language.org/'; | |
my %form_data= ( | |
'query' => _return_seq(), # load sequence data | |
'format' => 'tsv', # TSV format | |
'direct' => 1, # convert seq to gene ID directly | |
); | |
my $ua= LWP::UserAgent->new(); | |
my $request= POST($serv_url, [%form_data]); | |
$ua->request( | |
$request, | |
sub{ | |
my($response_data, $status)= @_; | |
if ($status->is_error()) { | |
# connection error or internal server error | |
die ('Problems with the web server: '.$status->status_line()); | |
} else { | |
# $status->is_success() | |
print $response_data; | |
} | |
}, | |
1000, # timeout | |
); | |
sub _return_seq { | |
return<<SEQ; | |
MMQESATETISNSSMNQNGMSTLSSQLDAGSRDGRSSGDTSSEVSTVELLHLQQQQALQA | |
ARQLLLQQQTSGLKSPKSSDKQRPLQVPVSVAMMTPQVITPQQMQQILQQQVLSPQQLQA | |
LLQQQQAVMLQQQQLQEFYKKQQEQLHLQLLQQQQQQQQQQQQQQQQQQQQQQQQQQQQQ | |
QQQQQQQQQQQHPGKQAKEQQQQQQQQQQLAAQQLVFQQQLLQMQQLQQQQHLLSLQRQG | |
LISIPPGQAALPVQSLPQAGLSPAEIQQLWKEVTGVHSMEDNGIKHGGLDLTTNNSSSTT | |
SSNTSKASPPITHHSIVNGQSSVLSARRDSSSHEETGASHTLYGHGVCKWPGCESICEDF | |
GQFLKHLNNEHALDDRSTAQCRVQMQVVQQLEIQLSKERERLQAMMTHLHMRPSEPKPSP | |
KPLNLVSSVTMSKNMLETSPQSLPQTPTTPTAPVTPITQGPSVITPASVPNVGAIRRRHS | |
DKYNIPMSSEIAPNYEFYKNADVRPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAY | |
FRRNAATWKNAVRHNLSLHKCFVRVENVKGAVWTVDEVEYQKRRSQKITGSPTLVKNIPT | |
SLGYGAALNASLQAALAESSLPLLSNPGLINNASSGLLQAVHEDLNGSLDHIDSNGNSSP | |
GCSPQPHIHSIHVKEEPVIAEDEDCPMSLVTTANHSPELEDDREIEEEPLSEDLE | |
SEQ | |
} |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment