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Warnings |
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/home/jesus/devel/php/pear/Science/Chemistry/PDBFile.php
1 Warning(s).
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[class] Science_Chemistry_PDBFile |
mismatch |
PHPDoc found 1 syntax error(s) in the tag list. Tag: '@see Science_Chemistry_PDBParser' - Could not understand all references. Use function() to referr to functions and to referr to variables - don't know what 'Science_Chemistry_PDBParser' referrs to.. Syntax: '([^\s]+(?:::))?([^:][a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*\(\s*\))' (function), '([^\s]+(?:::))?([$][^:][a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*)' (variable), '([^\s]+)' (module or class).. |
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/home/jesus/devel/php/pear/Science/Chemistry/PDBParser.php
2 Warning(s).
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[class] Science_Chemistry_PDBParser |
mismatch |
PHPDoc found 1 syntax error(s) in the tag list. Tag: '@see Science_Chemistry_PDBFile' - Could not understand all references. Use function() to referr to functions and to referr to variables - don't know what 'Science_Chemistry_PDBFile' referrs to.. Syntax: '([^\s]+(?:::))?([^:][a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*\(\s*\))' (function), '([^\s]+(?:::))?([$][^:][a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*)' (variable), '([^\s]+)' (module or class).. |
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[variable] $date |
mismatch |
PHPDoc found 1 syntax error(s) in the tag list. Tag: '@var date' - General syntax error, syntax: '@var (object objectname|type) [$varname]'./(string|integer|int|long|real|double|float|boolean|bool|mixed|array|object)(?:\s+([a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*))?(?:\s+([&]?[$][a-zA-Z_\x7f-\xff][a-zA-Z0-9_\xzf-\xff]*))?\s*(.*)?/is. |
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/home/jesus/devel/php/pear/Science/Chemistry/Atom_PDB.php
4 Warning(s).
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[functions] $valid |
mismatch |
@see referrs to the function 'initAtom()' which is not defined in the class. Entry gets ignored. |
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[function] science_chemistry_atom_pdb |
missing |
1st parameter '$atomrec' is not documented add '@param (object objectname|type) [description]' to the end of the @param[eter] list. |
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[function] science_chemistry_atom_pdb |
missing |
2nd parameter '$residue' is not documented add '@param string [description]' to the end of the @param[eter] list. |
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[function] getfield |
missing |
1st parameter '$field' is not documented add '@param (object objectname|type) [description]' to the end of the @param[eter] list. |
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/home/jesus/devel/php/pear/Science/Chemistry/Atom.php
2 Warning(s).
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[function] science_chemistry_atom |
mismatch |
2nd parameter type '$coords' does match the the documented type 'array', possible error consider an update to '@param string $coords array of coordinates (x, y, z)' or '@param string array of coordinates (x, y, z)', the variable name is optional. |
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[function] tocml |
mismatch |
1st parameter type '$id' does match the the documented type 'string', possible error consider an update to '@param integer $id (description)' or '@param integer (description)', the variable name is optional. |
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/home/jesus/devel/php/pear/Science/Chemistry/Macromolecule_PDB.php
2 Warning(s).
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[variables] science_chemistry_macromolecule_pdb |
mismatch |
@see referrs to the variable '$pdb' which is not defined in the class. Entry gets ignored. |
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[function] science_chemistry_macromolecule_pdb |
mismatch |
3th parameter type '$pdbfile' does match the the documented type 'object PDBFile', possible error consider an update to '@param string $pdbfile reference to the PDB file object' or '@param string reference to the PDB file object', the variable name is optional. |
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/home/jesus/devel/php/pear/Science/Chemistry/Macromolecule.php
5 Warning(s).
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[function] science_chemistry_macromolecule |
mismatch |
2nd parameter type '$molecules' does match the the documented type 'array', possible error consider an update to '@param string $molecules (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
1st parameter '$title' does not match the documented name '$id', update the tag to '@param string $title (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
2nd parameter type '$id' does match the the documented type 'boolean', possible error consider an update to '@param string $id (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
2nd parameter '$id' does not match the documented name '$connect', update the tag to '@param string $id (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
missing |
3th parameter '$connect' is not documented add '@param boolean [description]' to the end of the @param[eter] list. |
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/home/jesus/devel/php/pear/Science/Chemistry/Residue_PDB.php
2 Warning(s).
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[function] science_chemistry_residue_pdb |
mismatch |
3th parameter type '$macromol' does match the the documented type 'object Science_Chemistry_Macromolecule_PDB', possible error consider an update to '@param string $macromol reference to the containing macromolecule' or '@param string reference to the containing macromolecule', the variable name is optional. |
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[function] getgeomparams |
missing |
1st parameter '$param' is not documented add '@param (object objectname|type) [description]' to the end of the @param[eter] list. |
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/home/jesus/devel/php/pear/Science/Chemistry/Molecule.php
5 Warning(s).
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[function] science_chemistry_molecule |
mismatch |
2nd parameter type '$atoms' does match the the documented type 'array', possible error consider an update to '@param string $atoms (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
1st parameter '$title' does not match the documented name '$id', update the tag to '@param string $title (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
2nd parameter type '$id' does match the the documented type 'boolean', possible error consider an update to '@param string $id (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
mismatch |
2nd parameter '$id' does not match the documented name '$connect', update the tag to '@param string $id (description)' or '@param string (description)', the variable name is optional. |
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[function] tocml |
missing |
3th parameter '$connect' is not documented add '@param boolean [description]' to the end of the @param[eter] list. |
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/home/jesus/devel/php/pear/Science/Chemistry/PDBFile.php
2 Warning(s).
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[functions] science_chemistry_pdbfile |
mismatch |
@see referrs to the function 'mkArrays()' which is not defined in the class. Entry gets ignored. |
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[functions] parsefile |
mismatch |
@see referrs to the function 'Science_Chemistry_Macromolecule_PDB()' which is not defined in the class. Entry gets ignored. |
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/home/jesus/devel/php/pear/Science/Chemistry/PDBParser.php
3 Warning(s).
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[functions] parseresidues |
mismatch |
@see referrs to the function 'parseFile()' which is not defined in the class. Entry gets ignored. |
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[function] parseatom |
missing |
3th parameter '&$atomname' is not documented add '@param (object objectname|type) [description]' to the end of the @param[eter] list. |
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[function] getresiduelist |
mismatch |
2nd parameter '$resname' does not match the documented name '$resnam', update the tag to '@param string $resname Residue name, e.g. HIS, CYS, etc.' or '@param string Residue name, e.g. HIS, CYS, etc.', the variable name is optional. |
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PHPDoc 1.0beta |