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1 #! perl
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2 use diagnostics;
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3 use warnings;
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4 no warnings qw/void/;
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5 use strict;
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6 no strict "refs" ;
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7 #use Test::More qw( no_plan );
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8 use Test::More tests => 29 ;
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9 use FindBin ;
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10
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11 ## Specific Modules
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12 use lib $FindBin::Bin ;
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13 my $binPath = $FindBin::Bin ;
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14 use lib::hrTest qw( :ALL ) ;
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15
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16 ## testing manage_atoms
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17 print "\n-- Test manage_atoms lib\n\n" ;
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18 is( manage_atomsTest('', 'C,H,O,N'),'C,H,O,N', 'Works with void argvt' ) ;
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19 is( manage_atomsTest(undef, 'C,H,O,N'), 'C,H,O,N', 'Works with undef argvt in input');
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20 isnt( manage_atomsTest('C,H,O,N', undef), 'C,H,O,N', 'Doesn\'t work with undef argvt in conf');
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21 is( manage_atomsTest(' ', 'C,H,O,N'), 'C,H,O,N', 'Works with \'space\' argvt in input' ) ;
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22 is( manage_atomsTest('None', 'C,H,O,N'), 'C,H,O,N', 'Works with \'None\' argvt in input' ) ;
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23 isnt( manage_atomsTest('C,H,O,N', 'C,H,O,N'), 'C,H,O,N', 'Doesn\'t work with same argvt in conf and input' );
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24 is( manage_atomsTest('P', 'C,H,O,N'), 'C,H,O,N,P', 'Works with P argvt in input');
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25 is( manage_atomsTest('1', 'C,H,O,N'), 'C,H,O,N,1', 'Works with 13C argvt in input');
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26 is( manage_atomsTest('P,S', 'C,H,O,N'), 'C,H,O,N,P,S', 'Works with P and S argvt in input');
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27 is( manage_atomsTest('X', 'C,H,O,N'), 'C,H,O,N', 'Doesn\'t work with other character diff than [P|S|F|L|K|B|A|1|] in input');
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28 print "\n--\n" ;
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29
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30 print "\n-- Test check_hr_exe lib\n\n" ;
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31 is ( check_hr_exeTest('J:\\BioInfoTools\\_BINARIES\\HR2-all-res.exe', 'hr version 20050617'), 1, 'Works with WIN path and good version') ;
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32 is ( check_hr_exeTest('J:\\BioInfoTools\\_BINARIES\\HR2-all-res.exe', undef), undef, 'Doesn\'t work with WIN path and bad version') ;
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33 is ( check_hr_exeTest('Z:\\BioInfoTools\\TOTO\\HR2-all-res.exe', 'hr version 20050617'), undef, 'Doesn\'t work with bullshit path and good version') ;
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34 is ( check_hr_exeTest(undef, 'hr version 20050617'), undef, 'Doesn\'t work with undef path and good version') ;
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35 # need to test unix path
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36 print "\n--\n" ;
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37
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38 print "\n-- Test manage_tolerance lib --\n\n" ;
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39 is ( manage_toleranceTest( '5.0', '1.0' ), '5.0', 'Works with tolerance of 5.0' ) ;
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40 is ( manage_toleranceTest( '5,0', '1.0' ), '5.0', 'Works with tolerance of 5,0 (french number)' ) ;
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41 is ( manage_toleranceTest( undef, '1.0' ), undef, 'Doesn\'t work with undef tolerance' ) ;
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42 is ( manage_toleranceTest( '5.0', undef ), undef, 'Doesn\'t work with undef default tolerance' ) ;
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43 is ( manage_toleranceTest( '20.0', '1.0' ), '1.0', 'Works with hight tolerance (20.0), use default tolerance' ) ;
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44 is ( manage_toleranceTest( '-10.0', '1.0' ), '1.0', 'Works with negative tolerance (-10.0), use default tolerance' ) ;
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45 print "\n--\n" ;
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46
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47 print "\n-- Test manage_mode lib\n\n" ;
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48 is ( manage_modeTest('positive', '1', '0.0005486', '1.007825', '100.00'), '98.9927236', 'Works and computes right mass (98.9927236) with positive mode and complete conf') ;
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49 is ( manage_modeTest('negative', '1', '0.0005486', '1.007825', '100.00') , '101.0072764', 'Works and computes right mass (101.0072764) with negative mode and complete conf') ;
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50 is ( manage_modeTest('neutral', '1', '0.0005486', '1.007825', '100.00' ), '100.00', 'Works and computes right mass (100.00) with neutral mode and complete conf') ;
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51 is ( manage_modeTest('banane', '1', '0.0005486', '1.007825', '100.00' ), undef, 'Works and warns with unbelievable argt mode') ;
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52 is ( manage_modeTest('positive', '1', '0.0005486', '1.007825', '100,00' ), '98.9927236', 'Works with french mass format in positive mode') ;
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53 is ( manage_modeTest('neutral', '1', undef, undef, '100.00' ), undef, 'Works and warns when missing some conf paramaters (electron, proton, mass)') ;
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54 is ( manage_modeTest('negative', '0', '0.0005486', '1.007825', '100.00') , '101.0072764', 'Works and computes right mass (101.0072764) with negative mode and charge = 0 become 1 ') ;
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55 is ( manage_modeTest('positive', '3', '0.0005486', '1.007825', '100.00'), '298.9938208', 'Works and computes right mass (298.9938208) with positive mode, charge = 3 and complete conf') ;
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56 is ( manage_modeTest('neutral', undef, '0.0005486', '1.007825', '100.00' ), '100.00', 'Works and warns when missing charge') ;
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57 print "\n--\n" ;
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58
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59
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60
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61
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62
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63
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64
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