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annotate t/lib/hmdbTest.pm @ 18:ec7c05889e67 draft

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author fgiacomoni
date Wed, 23 Jan 2019 03:02:07 -0500
parents 4eb2de7c24d1
children 2d8a310e86ce
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1 package lib::hmdbTest ;
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3 use diagnostics; # this gives you more debugging information
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4 use warnings; # this warns you of bad practices
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5 use strict; # this prevents silly errors
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6 use Exporter ;
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7 use Carp ;
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9 our $VERSION = "1.0";
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10 our @ISA = qw(Exporter);
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11 our @EXPORT = qw( parse_hmdb_csv_resultsTest check_state_from_hmdb_uaTest test_matches_from_hmdb_uaTest extract_sub_mz_listsTest prepare_multi_masses_queryTest get_matches_from_hmdb_uaTest);
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12 our %EXPORT_TAGS = ( ALL => [qw( parse_hmdb_csv_resultsTest check_state_from_hmdb_uaTest test_matches_from_hmdb_uaTest extract_sub_mz_listsTest prepare_multi_masses_queryTest get_matches_from_hmdb_uaTest)] );
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14 use lib '/Users/fgiacomoni/Inra/labs/perl/galaxy_tools/hmdb' ;
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15 use lib::hmdb qw( :ALL ) ;
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17 use Data::Dumper ;
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19 ## sub
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20 sub extract_sub_mz_listsTest {
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22 my ($masses, $hmdb_limits, ) = @_ ;
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24 my $oHmdb = lib::hmdb->new() ;
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25 my $submasses = $oHmdb->extract_sub_mz_lists($masses, $hmdb_limits ) ;
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27 return ($submasses) ;
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28 }
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30 ## sub
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31 sub prepare_multi_masses_queryTest {
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33 my ($mzs ) = @_ ;
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35 my $oHmdb = lib::hmdb->new() ;
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36 my ( $hmdb_masses, $nb_masses_to_submit ) = $oHmdb->prepare_multi_masses_query($mzs) ;
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38 return ($hmdb_masses) ;
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39 }
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41 ## sub
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42 sub get_matches_from_hmdb_uaTest {
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44 my ( $hmdb_masses, $delta, $molecular_species ) = @_ ;
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46 my $oHmdb = lib::hmdb->new() ;
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47 my $hmdb_pages = $oHmdb->get_matches_from_hmdb_ua($hmdb_masses, $delta, $molecular_species) ;
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48 print Dumper $hmdb_pages ;
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49 return ($hmdb_pages) ;
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50 }
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53 ## sub
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54 sub test_matches_from_hmdb_uaTest {
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56 my $oHmdb = lib::hmdb->new() ;
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57 my $status = $oHmdb->test_matches_from_hmdb_ua() ;
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58 return ($status) ;
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59 }
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62 ## sub
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63 sub check_state_from_hmdb_uaTest {
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64 my ($status ) = @_ ;
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66 my $oHmdb = lib::hmdb->new() ;
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67 my $res = $oHmdb->check_state_from_hmdb_ua($status) ;
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68 return($res) ;
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69 }
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73 ## sub
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74 sub parse_hmdb_csv_resultsTest {
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75 my ($hmdb_pages, $mzs, $max ) = @_ ;
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77 my $oHmdb = lib::hmdb->new() ;
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78 my $result = $oHmdb->parse_hmdb_csv_results($hmdb_pages, $mzs, $max) ; ## hash format result
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79 print Dumper $result ;
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80 return($result) ;
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81 }
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84 1 ;