| 665 | |
| 666 | |
| 667 | void MzMLHandler::startElement(const XMLCh* const /*uri*/, const XMLCh* const /*local_name*/, const XMLCh* const qname, const xercesc::Attributes& attributes) |
| 668 | { |
| 669 | constexpr XMLCh s_count[] = {'c','o','u','n','t', 0}; |
| 670 | constexpr XMLCh s_default_array_length[] = { 'd','e','f','a','u','l','t','A','r','r','a','y','L','e','n','g','t','h' , 0}; |
| 671 | constexpr XMLCh s_array_length[] = { 'a','r','r','a','y','L','e','n','g','t','h' , 0}; |
| 672 | constexpr XMLCh s_accession[] = { 'a','c','c','e','s','s','i','o','n' , 0}; |
| 673 | constexpr XMLCh s_name[] = { 'n','a','m','e' , 0}; |
| 674 | constexpr XMLCh s_type[] = { 't','y','p','e' , 0}; |
| 675 | constexpr XMLCh s_value[] = { 'v','a','l','u','e' , 0}; |
| 676 | constexpr XMLCh s_unit_accession[] = { 'u','n','i','t','A','c','c','e','s','s','i','o','n' , 0}; |
| 677 | constexpr XMLCh s_id[] = { 'i','d' , 0}; |
| 678 | constexpr XMLCh s_ref[] = { 'r','e','f' , 0}; |
| 679 | constexpr XMLCh s_version[] = { 'v','e','r','s','i','o','n' , 0}; |
| 680 | constexpr XMLCh s_version_mzml[] = { 'm','z','M','L',':','v','e','r','s','i','o','n' , 0}; |
| 681 | constexpr XMLCh s_order[] = { 'o','r','d','e','r' , 0}; |
| 682 | constexpr XMLCh s_location[] = { 'l','o','c','a','t','i','o','n' , 0}; |
| 683 | constexpr XMLCh s_sample_ref[] = { 's','a','m','p','l','e','R','e','f' , 0}; |
| 684 | constexpr XMLCh s_software_ref[] = { 's','o','f','t','w','a','r','e','R','e','f' , 0}; |
| 685 | constexpr XMLCh s_source_file_ref[] = { 's','o','u','r','c','e','F','i','l','e','R','e','f' , 0}; |
| 686 | constexpr XMLCh s_spectrum_ref[] = { 's','p','e','c','t','r','u','m','R','e','f' , 0}; |
| 687 | constexpr XMLCh s_default_instrument_configuration_ref[] = { 'd','e','f','a','u','l','t','I','n','s','t','r','u','m','e','n','t','C','o','n','f','i','g','u','r','a','t','i','o','n','R','e','f' , 0}; |
| 688 | constexpr XMLCh s_instrument_configuration_ref[] = { 'i','n','s','t','r','u','m','e','n','t','C','o','n','f','i','g','u','r','a','t','i','o','n','R','e','f' , 0}; |
| 689 | constexpr XMLCh s_default_data_processing_ref[] = { 'd','e','f','a','u','l','t','D','a','t','a','P','r','o','c','e','s','s','i','n','g','R','e','f' , 0}; |
| 690 | constexpr XMLCh s_data_processing_ref[] = { 'd','a','t','a','P','r','o','c','e','s','s','i','n','g','R','e','f' , 0}; |
| 691 | constexpr XMLCh s_start_time_stamp[] = { 's','t','a','r','t','T','i','m','e','S','t','a','m','p' , 0}; |
| 692 | constexpr XMLCh s_external_spectrum_id[] = { 'e','x','t','e','r','n','a','l','S','p','e','c','t','r','u','m','I','D' , 0}; |
| 693 | // constexpr XMLCh s_default_source_file_ref[] = { 'd','e','f','a','u','l','t','S','o','u','r','c','e','F','i','l','e','R','e','f' , 0}; |
| 694 | constexpr XMLCh s_scan_settings_ref[] = { 's','c','a','n','S','e','t','t','i','n','g','s','R','e','f' , 0}; |
| 695 | String tag = sm_.convert(qname); |
| 696 | open_tags_.push_back(tag); |
| 697 | |
| 698 | // do nothing until a spectrum/chromatogram/spectrumList ends |
| 699 | if (skip_spectrum_ || skip_chromatogram_) |
| 700 | { |
| 701 | return; |
| 702 | } |
| 703 | |
| 704 | //determine parent tag |
| 705 | String parent_tag; |
| 706 | if (open_tags_.size() > 1) |
| 707 | { |
| 708 | parent_tag = *(open_tags_.end() - 2); |
| 709 | } |
| 710 | String parent_parent_tag; |
| 711 | if (open_tags_.size() > 2) |
| 712 | { |
| 713 | parent_parent_tag = *(open_tags_.end() - 3); |
| 714 | } |
| 715 | |
| 716 | if (tag == "spectrum") |
| 717 | { |
| 718 | // for cppcheck |
| 719 | constexpr XMLCh s_spot_id[] = { 's','p','o','t','I','D', 0 }; |
| 720 | |
| 721 | //number of peaks |
| 722 | spec_ = SpectrumType(); |
| 723 | default_array_length_ = attributeAsInt_(attributes, s_default_array_length); |
| 724 | //spectrum source file |
nothing calls this directly
no test coverage detected