pyopenms 2.3.0__zip

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (166) hide show
  1. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/License.txt +52 -0
  2. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/__init__.py +54 -0
  3. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/__init__.pyc +0 -0
  4. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/all_modules.py +4 -0
  5. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/all_modules.pyc +0 -0
  6. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/docompile.py +35 -0
  7. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/docompile.pyc +0 -0
  8. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/libOpenMS.so +0 -0
  9. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/libOpenSwathAlgo.so +0 -0
  10. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/libSuperHirn.so +0 -0
  11. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/pyopenms_1.so +0 -0
  12. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/pyopenms_2.so +0 -0
  13. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/pyopenms_3.so +0 -0
  14. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/pyopenms_4.so +0 -0
  15. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/python_extras.py +22 -0
  16. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/python_extras.pyc +0 -0
  17. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/qt_version_info.py +2 -0
  18. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/qt_version_info.pyc +0 -0
  19. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/Elements.xml +1221 -0
  20. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/Enzymes.xml +269 -0
  21. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/HMDBMappingFile.tsv +10104 -0
  22. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModel.scale +6 -0
  23. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModel.svm +626 -0
  24. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModelNoised2.scale +4 -0
  25. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModelNoised2.svm +559 -0
  26. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModelNoised5.scale +4 -0
  27. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MetaboliteIsoModelNoised5.svm +1010 -0
  28. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/MissedCleavage.model +229 -0
  29. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/NegativeAdducts.tsv +15 -0
  30. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/OMSSA_modification_mapping +158 -0
  31. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/PSI-MOD.obo +23804 -0
  32. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/PositiveAdducts.tsv +33 -0
  33. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/Residues.xml +470 -0
  34. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/XLMOD.obo +623 -0
  35. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/XTandem_default_input.xml +181 -0
  36. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CHEMISTRY/unimod.xml +38885 -0
  37. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/brenda.obo +22923 -0
  38. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/goslim_goa.obo +823 -0
  39. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/psi-ms.obo +17899 -0
  40. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/psi-mzdata.obo +2920 -0
  41. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/qc-cv.obo +471 -0
  42. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/quality.obo +12581 -0
  43. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/unimod.obo +13214 -0
  44. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/CV/unit.obo +2585 -0
  45. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/DESKTOP/TOPPAS.appdata.xml +33 -0
  46. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/DESKTOP/TOPPAS.desktop +10 -0
  47. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/DESKTOP/TOPPView.appdata.xml +35 -0
  48. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/DESKTOP/TOPPView.desktop +11 -0
  49. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/DESKTOP/readme.txt +5 -0
  50. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/GUISTYLE/qtStyleSheet.qss +9 -0
  51. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/IDPool/IDPool.txt +0 -0
  52. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/IDPool/README +29 -0
  53. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/TraML-mapping.xml +171 -0
  54. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/ms-mapping.xml +187 -0
  55. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/mzIdentML-mapping.xml +221 -0
  56. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/mzdata-mapping.xml +158 -0
  57. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/PIP/codebooks.data +2 -0
  58. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/PIP/linearMapping.data +2 -0
  59. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/CTD_0_3.xsd +168 -0
  60. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_0.xsd +376 -0
  61. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_1.xsd +381 -0
  62. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_2.xsd +202 -0
  63. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_3.xsd +686 -0
  64. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_4.xsd +694 -0
  65. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_5.xsd +698 -0
  66. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_6.xsd +613 -0
  67. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ConsensusXML_1_7.xsd +618 -0
  68. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/CvMapping.xsd +157 -0
  69. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_0.xsd +737 -0
  70. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_1.xsd +770 -0
  71. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_2.xsd +770 -0
  72. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_3.xsd +660 -0
  73. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_4.xsd +660 -0
  74. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_5.xsd +670 -0
  75. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_6.xsd +674 -0
  76. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_7.xsd +679 -0
  77. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_8.xsd +587 -0
  78. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FeatureXML_1_9.xsd +592 -0
  79. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/FuGElightv1.0.0.xsd +1118 -0
  80. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_0.xsd +340 -0
  81. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_1.xsd +345 -0
  82. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_2.xsd +354 -0
  83. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_3.xsd +367 -0
  84. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_4.xsd +371 -0
  85. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/IdXML_1_5.xsd +371 -0
  86. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_0.xsd +91 -0
  87. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_1.xsd +101 -0
  88. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_2.xsd +168 -0
  89. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_3.xsd +173 -0
  90. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_4.xsd +149 -0
  91. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/Param_1_6_2.xsd +99 -0
  92. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/ToolDescriptor_1_0.xsd +232 -0
  93. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/TraML0.9.3.xsd +552 -0
  94. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/TraML1.0.0.xsd +622 -0
  95. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/TrafoXML_1_0.xsd +102 -0
  96. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/general_types_1.0.xsd +17 -0
  97. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzData_1_05.xsd +631 -0
  98. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzIdentML1.0.0.xsd +1339 -0
  99. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzIdentML1.1.0.xsd +1845 -0
  100. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzML_1_00.xsd +921 -0
  101. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzML_1_10.xsd +1119 -0
  102. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzML_idx_1_00.xsd +992 -0
  103. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzML_idx_1_10.xsd +1201 -0
  104. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzQCML_0_0_5.xsd +220 -0
  105. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzQuantML_1_0_0-rc2.xsd +1557 -0
  106. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzXML_2_1.xsd +1 -1
  107. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzXML_3.1.xsd +1 -1
  108. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzXML_3.1_mod.xsd +686 -0
  109. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/mzXML_idx_3.1.xsd +60 -0
  110. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/pepXML_v114.xsd +1448 -0
  111. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/protXML_v6.xsd +935 -0
  112. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/qcML_0.0.7.xsd +235 -0
  113. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/separation_technique_1.0.xsd +10 -0
  114. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCHEMAS/xQuest_1_0.xsd +210 -0
  115. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/InternalCalibration_Models.R +40 -0
  116. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/InternalCalibration_Residuals.R +57 -0
  117. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_acc.R +28 -0
  118. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_idmap.R +39 -0
  119. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_inj.R +27 -0
  120. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_rt_acc.R +31 -0
  121. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_setid.R +27 -0
  122. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/ProduceQCFigures_tic.R +23 -0
  123. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/Rscript_generic_example.R +88 -0
  124. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/mzTab2tsv_PEP.R +47 -0
  125. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/mzTab2tsv_PRT.R +104 -0
  126. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/mzTab2tsv_PSM.R +80 -0
  127. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/SCRIPTS/plot_trafo.R +126 -0
  128. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/THIRDPARTY/ReadMe.txt +9 -0
  129. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Hardkloer.ttd +109 -0
  130. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/LINUX/TPP_ProteinProphet.ttd +46 -0
  131. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/LINUX/mail.ttd +22 -0
  132. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/MSGFtoPercolator.ttd +30 -0
  133. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/MascotPercolator.ttd +42 -0
  134. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Percolator.ttd +29 -0
  135. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/QCExporter.ttd +51 -0
  136. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/RawDirConvert.ttd +25 -0
  137. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/ReadMe.txt +72 -0
  138. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_generic.ttd +42 -0
  139. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_mzTab2tsv_PEP.ttd +26 -0
  140. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_mzTab2tsv_PRT.ttd +26 -0
  141. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_mzTab2tsv_PSM.ttd +26 -0
  142. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_acc.ttd +30 -0
  143. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_idmap.ttd +33 -0
  144. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_rt_acc.ttd +30 -0
  145. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_setid.ttd +30 -0
  146. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_tic.ttd +30 -0
  147. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/Rscript_qcfigures_trapfill.ttd +30 -0
  148. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/TEMPLATE.ttd_ +52 -0
  149. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/TPP_RefreshParser.ttd +28 -0
  150. media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/TOOLS/EXTERNAL/WINDOWS/TPP_ProteinProphet.ttd +46 -0
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media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/mzIdentML-mapping.xml ADDED
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1
+ <?xml version="1.0" encoding="UTF-8"?>
2
+ <?xml-stylesheet href="https://psidev.svn.sourceforge.net/svnroot/psidev/psi/tools/current/xsl/cv-mapping/CvMappingRules.xsl" type="text/xsl"?>
3
+ <!-- mzIdentML mapping file created by ARJ and AB and the whole PSI-PI group -->
4
+ <!-- $Id: mzIdentML-mapping.xml 478 2009-08-19 11:15:20Z a.bertsch0815 $ -->
5
+ <CvMapping xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
6
+ xsi:noNamespaceSchemaLocation="http://www.psidev.info/files/validator/CvMapping.xsd" modelName="axml.xsd" modelURI="http://code.google.com/p/psi-pi/source/browse/#svn/trunk/schema/mzIdentML_working.xsd" modelVersion="beta">
7
+
8
+ <CvReferenceList>
9
+ <CvReference cvName="PSI-MS" cvIdentifier="MS"/>
10
+ <CvReference cvName="MOD" cvIdentifier="MOD"/>
11
+ <CvReference cvName="Brenda" cvIdentifier="BTO"/>
12
+ <CvReference cvName="UNIMOD" cvIdentifier="UNIMOD"/>
13
+ <CvReference cvName="GO" cvIdentifier="GO"/>
14
+ <CvReference cvName="PATO" cvIdentifier="PATO"/>
15
+ <CvReference cvName="UO" cvIdentifier="UO"/>
16
+ </CvReferenceList>
17
+
18
+ <CvMappingRuleList>
19
+ <CvMappingRule id="AnalysisSoftwareContactRole_rule" cvElementPath="/mzIdentML/AnalysisSoftwareList/AnalysisSoftware/ContactRole/role/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
20
+ <CvTerm termAccession="MS:1001266" useTermName="false" useTerm="false" termName="role type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
21
+ </CvMappingRule>
22
+
23
+ <CvMappingRule id="ProviderContactRole_rule" cvElementPath="/mzIdentML/Provider/ContactRole/role/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
24
+ <CvTerm termAccession="MS:1001266" useTermName="false" useTerm="false" termName="role type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
25
+ </CvMappingRule>
26
+
27
+ <CvMappingRule id="DatabaseContactRole_rule" cvElementPath="/mzIdentML/ReferenceableCollection/Database/ContactRole/role/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
28
+ <CvTerm termAccession="MS:1001266" useTermName="false" useTerm="false" termName="role type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
29
+ </CvMappingRule>
30
+
31
+ <CvMappingRule id="SampleContactRole_rule" cvElementPath="/mzIdentML/AnalysisSampleCollection/Sample/ContactRole/role/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
32
+ <CvTerm termAccession="MS:1001266" useTermName="false" useTerm="false" termName="role type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
33
+ </CvMappingRule>
34
+
35
+ <CvMappingRule id="Sample_rule" cvElementPath="/mzIdentML/AnalysisSampleCollection/Sample/cvParam/@accession" requirementLevel="SHOULD" scopePath="" cvTermsCombinationLogic="AND">
36
+ <CvTerm termAccession="BTO:0000000" useTermName="false" useTerm="false" termName="brenda source tissue ontology" isRepeatable="true" allowChildren="true" cvIdentifierRef="BTO" />
37
+ <CvTerm termAccession="MS:1001089" useTermName="false" useTerm="false" termName="molecule taxonomy" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
38
+ </CvMappingRule>
39
+
40
+
41
+ <CvMappingRule id="DBSequence_rule" cvElementPath="/mzIdentML/SequenceCollection/DBSequence/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
42
+ <CvTerm termAccession="MS:1001342" useTermName="false" useTerm="false" termName="database sequence details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
43
+ <CvTerm termAccession="MS:1001089" useTermName="false" useTerm="false" termName="molecule taxonomy" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
44
+ </CvMappingRule>
45
+
46
+ <CvMappingRule id="Peptide_rule" cvElementPath="/mzIdentML/SequenceCollection/Peptide/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
47
+ <CvTerm termAccession="MS:1001355" useTermName="false" useTerm="false" termName="peptide descriptions" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
48
+ </CvMappingRule>
49
+
50
+ <CvMappingRule id="PeptideModification_rule" cvElementPath="/mzIdentML/SequenceCollection/Peptide/Modification/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
51
+ <CvTerm termAccession="UNIMOD:0" useTermName="false" useTerm="false" termName="UNIMOD root" isRepeatable="false" allowChildren="true" cvIdentifierRef="UNIMOD" />
52
+ <CvTerm termAccession="MOD:00000" useTermName="false" useTerm="false" termName="protein modification" isRepeatable="false" allowChildren="true" cvIdentifierRef="MOD" />
53
+ <CvTerm termAccession="MS:1001471" useTermName="false" useTerm="false" termName="peptide modification details" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
54
+ </CvMappingRule>
55
+
56
+ <!--CvMappingRule id="PeptideSubstitutionModification_rule" cvElementPath="/mzIdentML/SequenceCollection/Peptide/SubstitutionModification/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
57
+ <CvTerm termAccession="UNIMOD:0" useTermName="false" useTerm="false" termName="UNIMOD root" isRepeatable="true" allowChildren="true" cvIdentifierRef="UNIMOD" />
58
+ <CvTerm termAccession="MOD:00000" useTermName="false" useTerm="false" termName="protein modification" isRepeatable="true" allowChildren="true" cvIdentifierRef="MOD" />
59
+ <CvTerm termAccession="MS:1001471" useTermName="false" useTerm="false" termName="peptide modification details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
60
+ </CvMappingRule-->
61
+
62
+ <CvMappingRule id="SoftwareName_rule" cvElementPath="/mzIdentML/AnalysisSoftwareList/AnalysisSoftware/SoftwareName/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
63
+ <CvTerm termAccession="MS:1001456" useTermName="false" useTerm="false" termName="analysis software" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
64
+ </CvMappingRule>
65
+
66
+ <CvMappingRule id="ProteinDetectionProtocolThreshold_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/ProteinDetectionProtocol/Threshold/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
67
+ <CvTerm termAccession="MS:1001447" useTermName="false" useTerm="true" termName="prot:FDR threshold" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
68
+ <CvTerm termAccession="MS:1001494" useTermName="false" useTerm="true" termName="no threshold" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
69
+ <CvTerm termAccession="MS:1001153" useTermName="false" useTerm="false" termName="search engine specific score" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
70
+ <CvTerm termAccession="MS:1001302" useTermName="false" useTerm="false" termName="search engine specific input parameter" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
71
+ </CvMappingRule>
72
+
73
+ <CvMappingRule id="SpectrumIdentificationProtocolThreshold_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/Threshold/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
74
+ <CvTerm termAccession="MS:1001448" useTermName="false" useTerm="true" termName="pep:FDR threshold" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
75
+ <CvTerm termAccession="MS:1001494" useTermName="false" useTerm="true" termName="no threshold" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
76
+ <CvTerm termAccession="MS:1001153" useTermName="false" useTerm="false" termName="search engine specific score" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
77
+ <CvTerm termAccession="MS:1001302" useTermName="false" useTerm="false" termName="search engine specific input parameter" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
78
+ </CvMappingRule>
79
+
80
+ <CvMappingRule id="SpectrumIdentificationContactRole_rule" cvElementPath="/mzIdentML/AnalysisCollection/SpectrumIdentification/ContactRole/role/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
81
+ <CvTerm termAccession="MS:1001266" useTermName="false" useTerm="false" termName="role type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
82
+ </CvMappingRule>
83
+
84
+ <CvMappingRule id="SearchType_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/SearchType/cvParam/@accession" requirementLevel="MUST" scopePath="/mzIdentML/AnalysisProtocolCollection/" cvTermsCombinationLogic="OR">
85
+ <CvTerm termAccession="MS:1001080" useTermName="false" useTerm="false" termName="search type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
86
+ </CvMappingRule>
87
+
88
+ <CvMappingRule id="AdditionalSearchParams" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/AdditionalSearchParams/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
89
+ <CvTerm termAccession="MS:1001210" useTermName="false" useTerm="false" termName="mass type settings" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
90
+ <CvTerm termAccession="MS:1001302" useTermName="false" useTerm="false" termName="search engine specific input parameter" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
91
+ <CvTerm termAccession="MS:1001066" useTermName="false" useTerm="false" termName="ions series considered in search" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
92
+ </CvMappingRule>
93
+
94
+ <CvMappingRule id="SearchModificationModParam_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/ModificationParams/SearchModification/ModParam/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
95
+ <CvTerm termAccession="UNIMOD:0" useTermName="false" useTerm="false" termName="UNIMOD root" isRepeatable="true" allowChildren="true" cvIdentifierRef="UNIMOD" />
96
+ <CvTerm termAccession="MOD:00000" useTermName="false" useTerm="false" termName="protein modification" isRepeatable="true" allowChildren="true" cvIdentifierRef="MOD" />
97
+ <CvTerm termAccession="MS:1001471" useTermName="false" useTerm="false" termName="peptide modification details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MOD" />
98
+ </CvMappingRule>
99
+
100
+ <CvMappingRule id="SearchModificationSpecificityRules_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/ModificationParams/SearchModification/SpecificityRules/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
101
+ <CvTerm termAccession="MS:1001056" useTermName="false" useTerm="false" termName="modification specificity rule" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
102
+ </CvMappingRule>
103
+
104
+ <CvMappingRule id="EnzymeName_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/Enzymes/Enzyme/EnzymeName/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
105
+ <CvTerm termAccession="MS:1001045" useTermName="false" useTerm="false" termName="cleavage agent name" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
106
+ </CvMappingRule>
107
+
108
+ <CvMappingRule id="ParentTolerance_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/ParentTolerance/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="AND">
109
+ <CvTerm termAccession="MS:1001412" useTermName="false" useTerm="true" termName="search tolerance plus value" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
110
+ <CvTerm termAccession="MS:1001413" useTermName="false" useTerm="true" termName="search tolerance minus value" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
111
+ </CvMappingRule>
112
+
113
+ <CvMappingRule id="FragmentTolerance_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/FragmentTolerance/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="AND">
114
+ <CvTerm termAccession="MS:1001412" useTermName="false" useTerm="true" termName="search tolerance plus value" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
115
+ <CvTerm termAccession="MS:1001413" useTermName="false" useTerm="true" termName="search tolerance minus value" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
116
+ </CvMappingRule>
117
+
118
+ <CvMappingRule id="MassTable_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/MassTable/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
119
+ <CvTerm termAccession="MS:1001354" useTermName="false" useTerm="false" termName="mass table options" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
120
+ </CvMappingRule>
121
+
122
+ <CvMappingRule id="MassTableAmbiguousResidue_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/MassTable/AmbiguousResidue/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
123
+ <CvTerm termAccession="MS:1001359" useTermName="false" useTerm="false" termName="ambiguous residues" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
124
+ </CvMappingRule>
125
+
126
+ <CvMappingRule id="DatabaseFiltersFilterType_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/DatabaseFilters/Filter/FilterType/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
127
+ <CvTerm termAccession="MS:1001511" useTermName="false" useTerm="false" termName="Sequence database filter types" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
128
+ </CvMappingRule>
129
+
130
+ <CvMappingRule id="DatabaseFiltersInclude_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/DatabaseFilters/Filter/Include/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
131
+ <CvTerm termAccession="MS:1001512" useTermName="false" useTerm="false" termName="Sequence database filters" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
132
+ </CvMappingRule>
133
+
134
+ <CvMappingRule id="DatabaseFiltersExclude_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/DatabaseFilters/Filter/Exclude/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
135
+ <CvTerm termAccession="MS:1001512" useTermName="false" useTerm="false" termName="Sequence database filters" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
136
+ </CvMappingRule>
137
+
138
+ <CvMappingRule id="DatabaseTranslationTranslationTable_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/SpectrumIdentificationProtocol/DatabaseTranslation/TranslationTable/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
139
+ <CvTerm termAccession="MS:1001025" useTermName="false" useTerm="true" termName="translation table" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
140
+ <CvTerm termAccession="MS:1001410" useTermName="false" useTerm="true" termName="translation start codons" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
141
+ <CvTerm termAccession="MS:1001423" useTermName="false" useTerm="true" termName="translation table description" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
142
+ </CvMappingRule>
143
+
144
+ <CvMappingRule id="AnalysisParams_rule" cvElementPath="/mzIdentML/AnalysisProtocolCollection/ProteinDetectionProtocol/AnalysisParams/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
145
+ <CvTerm termAccession="MS:1001194" useTermName="false" useTerm="false" termName="quality estimation with decoy database" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
146
+ <CvTerm termAccession="MS:1001302" useTermName="false" useTerm="false" termName="search engine specific input parameter" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
147
+ </CvMappingRule>
148
+
149
+ <CvMappingRule id="SourceFileFileFormat_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SourceFile/fileFormat/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
150
+ <CvTerm termAccession="MS:1001040" useTermName="false" useTerm="false" termName="intermediate analysis format" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
151
+ </CvMappingRule>
152
+
153
+ <CvMappingRule id="SourceFile_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SourceFile/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
154
+ <CvTerm termAccession="MS:1000561" useTermName="false" useTerm="false" termName="data file checksum type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
155
+ </CvMappingRule>
156
+
157
+ <CvMappingRule id="SearchDatabaseFileFormat_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SearchDatabase/fileFormat/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
158
+ <CvTerm termAccession="MS:1001347" useTermName="false" useTerm="false" termName="database file formats" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
159
+ </CvMappingRule>
160
+
161
+ <CvMappingRule id="SpectraDataFileFormat_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SpectraData/fileFormat/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
162
+ <CvTerm termAccession="MS:1000560" useTermName="false" useTerm="false" termName="mass spectrometer file format" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
163
+ </CvMappingRule>
164
+
165
+ <CvMappingRule id="SpectraDataSpectrumIDFormat_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SpectraData/spectrumIDFormat/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="XOR">
166
+ <CvTerm termAccession="MS:1000767" useTermName="false" useTerm="false" termName="native spectrum identifier format" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
167
+ <CvTerm termAccession="MS:1001529" useTermName="false" useTerm="false" termName="spectra data details" isRepeatable="false" allowChildren="true" cvIdentifierRef="MS" />
168
+ </CvMappingRule>
169
+
170
+ <CvMappingRule id="SearchDatabaseDatabaseName_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SearchDatabase/DatabaseName/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
171
+ <CvTerm termAccession="MS:1001013" useTermName="false" useTerm="false" termName="database name" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
172
+ </CvMappingRule>
173
+
174
+ <CvMappingRule id="SearchDatabase_rule" cvElementPath="/mzIdentML/DataCollection/Inputs/SearchDatabase/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
175
+ <CvTerm termAccession="MS:1001011" useTermName="false" useTerm="false" termName="search database details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
176
+ <CvTerm termAccession="MS:1000561" useTermName="false" useTerm="false" termName="data file checksum type" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
177
+ </CvMappingRule>
178
+
179
+
180
+ <CvMappingRule id="FragmentationTableMeasure_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/FragmentationTable/Measure/cvParam/@accession" requirementLevel="MUST" scopePath="" cvTermsCombinationLogic="OR">
181
+ <CvTerm termAccession="MS:1001225" useTermName="false" useTerm="true" termName="product ion m/z" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
182
+ <CvTerm termAccession="MS:1001226" useTermName="false" useTerm="true" termName="product ion intensity" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
183
+ <CvTerm termAccession="MS:1001227" useTermName="false" useTerm="true" termName="product ion m/z error" isRepeatable="false" allowChildren="false" cvIdentifierRef="MS" />
184
+ </CvMappingRule>
185
+
186
+ <!--CvMappingRule id="R30" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/SpectrumIdentificationResult/SpectrumIdentificationItem/PeptideEvidence/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
187
+ <CvTerm termAccession="" useTermName="false" useTerm="false" termName="" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
188
+ </CvMappingRule-->
189
+
190
+ <CvMappingRule id="SpectrumIdentificationItem_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/SpectrumIdentificationResult/SpectrumIdentificationItem/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
191
+ <CvTerm termAccession="MS:1001405" useTermName="false" useTerm="false" termName="spectrum identification result details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
192
+ </CvMappingRule>
193
+
194
+ <CvMappingRule id="FragmentationIonType_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/SpectrumIdentificationResult/SpectrumIdentificationItem/Fragmentation/IonType/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
195
+ <CvTerm termAccession="MS:1001221" useTermName="false" useTerm="false" termName="fragmentation information" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
196
+ </CvMappingRule>
197
+
198
+ <CvMappingRule id="SpectrumIdentificationResult_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/SpectrumIdentificationResult/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
199
+ <CvTerm termAccession="MS:1001405" useTermName="false" useTerm="false" termName="spectrum identification result details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
200
+ </CvMappingRule>
201
+
202
+ <CvMappingRule id="SpectrumIdentificationList_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/SpectrumIdentificationList/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
203
+ <CvTerm termAccession="MS:1001184" useTermName="false" useTerm="false" termName="search statistics" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
204
+ </CvMappingRule>
205
+
206
+ <CvMappingRule id="ProteinDetectionList_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/ProteinDetectionList/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
207
+ <CvTerm termAccession="MS:1001184" useTermName="false" useTerm="false" termName="search statistics" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
208
+ </CvMappingRule>
209
+
210
+ <CvMappingRule id="ProteinAmbiguityGroupProteinDetectionHypothesis_rule" cvElementPath="/mzIdentML/DataCollection/AnalysisData/ProteinDetectionList/ProteinAmbiguityGroup/ProteinDetectionHypothesis/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
211
+ <CvTerm termAccession="MS:1001153" useTermName="false" useTerm="false" termName="search engine specific score" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
212
+ <CvTerm termAccession="MS:1001085" useTermName="false" useTerm="false" termName="protein result details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
213
+ <CvTerm termAccession="MS:1001060" useTermName="false" useTerm="false" termName="quality estimation method details" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
214
+ </CvMappingRule>
215
+
216
+ <!--CvMappingRule id="R37" cvElementPath="/mzIdentML/DataCollection/AnalysisData/ProteinDetectionList/ProteinAmbiguityGroup/cvParam/@accession" requirementLevel="MAY" scopePath="" cvTermsCombinationLogic="OR">
217
+ <CvTerm termAccession="" useTermName="false" useTerm="false" termName="" isRepeatable="true" allowChildren="true" cvIdentifierRef="MS" />
218
+ </CvMappingRule-->
219
+
220
+ </CvMappingRuleList>
221
+ </CvMapping>
media/doc/pyenv/py27_bleeding/lib/python2.7/site-packages/pyopenms/share/OpenMS/MAPPING/mzdata-mapping.xml ADDED
@@ -0,0 +1,158 @@
1
+ <?xml version="1.0" encoding="UTF-8"?>
2
+ <CvMapping xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="http://www.psidev.info/files/validator/CvMapping.xsd" modelName="mzData.xsd" modelURI="" modelVersion="1.0.5"> <CvReferenceList>
3
+ <CvReference cvName="mzData CV" cvIdentifier="PSI"/>
4
+ </CvReferenceList>
5
+ <CvMappingRuleList>
6
+ <CvMappingRule id="0" cvElementPath="/mzData/description/admin/sampleDescription/cvParam/@accession" requirementLevel="MAY" scopePath="/mzData/description/admin/sampleDescription" cvTermsCombinationLogic="OR">
7
+ <CvTerm termAccession="PSI:1000001" useTermName="false" useTerm="true" termName="Sample Number" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
8
+ <CvTerm termAccession="PSI:1000002" useTermName="false" useTerm="true" termName="Sample Name" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
9
+ <CvTerm termAccession="PSI:1000003" useTermName="false" useTerm="true" termName="Sample State" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
10
+ <CvTerm termAccession="PSI:1000004" useTermName="false" useTerm="true" termName="Sample Mass" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
11
+ <CvTerm termAccession="PSI:1000005" useTermName="false" useTerm="true" termName="Sample Volume" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
12
+ <CvTerm termAccession="PSI:1000006" useTermName="false" useTerm="true" termName="Sample Concentration" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
13
+ <CvTerm termAccession="PSI:1000047" useTermName="false" useTerm="true" termName="Emulsion" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
14
+ <CvTerm termAccession="PSI:1000048" useTermName="false" useTerm="true" termName="Gas" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
15
+ <CvTerm termAccession="PSI:1000049" useTermName="false" useTerm="true" termName="Liquid" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
16
+ <CvTerm termAccession="PSI:1000050" useTermName="false" useTerm="true" termName="Solid" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
17
+ <CvTerm termAccession="PSI:1000051" useTermName="false" useTerm="true" termName="Solution" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
18
+ <CvTerm termAccession="PSI:1000052" useTermName="false" useTerm="true" termName="Suspension" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
19
+ <CvTerm termAccession="PSI:1000053" useTermName="false" useTerm="true" termName="Batch" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
20
+ <CvTerm termAccession="PSI:1000054" useTermName="false" useTerm="true" termName="Chromatography" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
21
+ </CvMappingRule>
22
+ <CvMappingRule id="1" cvElementPath="/mzData/description/instrument/source/cvParam/@accession" requirementLevel="MAY" scopePath="/mzData/description/instrument/source" cvTermsCombinationLogic="OR">
23
+ <CvTerm termAccession="PSI:1000007" useTermName="false" useTerm="true" termName="Inlet Type" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
24
+ <CvTerm termAccession="PSI:1000008" useTermName="false" useTerm="true" termName="Ionization Type" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
25
+ <CvTerm termAccession="PSI:1000009" useTermName="false" useTerm="true" termName="Ionization Mode" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
26
+ <CvTerm termAccession="PSI:1000055" useTermName="false" useTerm="true" termName="Continuous Flow Fast Atom Bombardment" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
27
+ <CvTerm termAccession="PSI:1000056" useTermName="false" useTerm="true" termName="Direct" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
28
+ <CvTerm termAccession="PSI:1000057" useTermName="false" useTerm="true" termName="Electrospray Inlet" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
29
+ <CvTerm termAccession="PSI:1000058" useTermName="false" useTerm="true" termName="Flow Injection Analysis" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
30
+ <CvTerm termAccession="PSI:1000059" useTermName="false" useTerm="true" termName="Inductively Coupled Plasma" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
31
+ <CvTerm termAccession="PSI:1000060" useTermName="false" useTerm="true" termName="Infusion" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
32
+ <CvTerm termAccession="PSI:1000061" useTermName="false" useTerm="true" termName="Jet Separator" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
33
+ <CvTerm termAccession="PSI:1000062" useTermName="false" useTerm="true" termName="Membrane Separator" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
34
+ <CvTerm termAccession="PSI:1000063" useTermName="false" useTerm="true" termName="Moving Belt" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
35
+ <CvTerm termAccession="PSI:1000064" useTermName="false" useTerm="true" termName="Moving Wire" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
36
+ <CvTerm termAccession="PSI:1000065" useTermName="false" useTerm="true" termName="Open Split" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
37
+ <CvTerm termAccession="PSI:1000066" useTermName="false" useTerm="true" termName="Particle Beam" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
38
+ <CvTerm termAccession="PSI:1000067" useTermName="false" useTerm="true" termName="Reservoir" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
39
+ <CvTerm termAccession="PSI:1000068" useTermName="false" useTerm="true" termName="Septum" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
40
+ <CvTerm termAccession="PSI:1000069" useTermName="false" useTerm="true" termName="Thermospray Inlet" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
41
+ <CvTerm termAccession="PSI:1000070" useTermName="false" useTerm="true" termName="Atmospheric Pressure Chemical Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
42
+ <CvTerm termAccession="PSI:1000071" useTermName="false" useTerm="true" termName="Chemical Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
43
+ <CvTerm termAccession="PSI:1000072" useTermName="false" useTerm="true" termName="Electronic Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
44
+ <CvTerm termAccession="PSI:1000073" useTermName="false" useTerm="true" termName="Electrospray Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
45
+ <CvTerm termAccession="PSI:1000074" useTermName="false" useTerm="true" termName="Fast Atom Bombardment Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
46
+ <CvTerm termAccession="PSI:1000075" useTermName="false" useTerm="true" termName="Matrix-assisted Laser Desorption Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
47
+ <CvTerm termAccession="PSI:1000076" useTermName="false" useTerm="true" termName="Negative Ion Mode" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
48
+ <CvTerm termAccession="PSI:1000077" useTermName="false" useTerm="true" termName="Positive Ion Mode" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
49
+ <CvTerm termAccession="PSI:1000239" useTermName="false" useTerm="true" termName="Atmospheric Pressure Matrix-Assisted Laser Desorption Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
50
+ <CvTerm termAccession="PSI:1000240" useTermName="false" useTerm="true" termName="Atmospheric Pressure Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
51
+ <CvTerm termAccession="PSI:1000241" useTermName="false" useTerm="true" termName="Atmostpheric Pressure Photoionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
52
+ <CvTerm termAccession="PSI:1000247" useTermName="false" useTerm="true" termName="Desorption Ionization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
53
+ <CvTerm termAccession="PSI:1000248" useTermName="false" useTerm="true" termName="Direct Insertion Probe" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
54
+ <CvTerm termAccession="PSI:1000249" useTermName="false" useTerm="true" termName="Direct Liquid Introduction" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
55
+ </CvMappingRule>
56
+ <CvMappingRule id="2" cvElementPath="/mzData/description/instrument/analyzerList/analyzer/cvParam/@accession" requirementLevel="MAY" scopePath="/mzData/description/instrument/analyzerList/analyzer" cvTermsCombinationLogic="OR">
57
+ <CvTerm termAccession="PSI:1000010" useTermName="false" useTerm="true" termName="Analyzer Type" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
58
+ <CvTerm termAccession="PSI:1000011" useTermName="false" useTerm="true" termName="Mass Resolution" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
59
+ <CvTerm termAccession="PSI:1000012" useTermName="false" useTerm="true" termName="Resolution Method" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
60
+ <CvTerm termAccession="PSI:1000013" useTermName="false" useTerm="true" termName="Resolution Type" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
61
+ <CvTerm termAccession="PSI:1000014" useTermName="false" useTerm="true" termName="Accuracy" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
62
+ <CvTerm termAccession="PSI:1000015" useTermName="false" useTerm="true" termName="Scan Rate" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
63
+ <CvTerm termAccession="PSI:1000016" useTermName="false" useTerm="true" termName="Scan Time" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
64
+ <CvTerm termAccession="PSI:1000017" useTermName="false" useTerm="true" termName="Scan Function" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
65
+ <CvTerm termAccession="PSI:1000018" useTermName="false" useTerm="true" termName="Scan Direction" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
66
+ <CvTerm termAccession="PSI:1000019" useTermName="false" useTerm="true" termName="Scan Law" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
67
+ <CvTerm termAccession="PSI:1000020" useTermName="false" useTerm="true" termName="Tandem Scanning Method" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
68
+ <CvTerm termAccession="PSI:1000021" useTermName="false" useTerm="true" termName="Reflectron State" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
69
+ <CvTerm termAccession="PSI:1000022" useTermName="false" useTerm="true" termName="TOF Total Path Length" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
70
+ <CvTerm termAccession="PSI:1000023" useTermName="false" useTerm="true" termName="Isolation Width" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
71
+ <CvTerm termAccession="PSI:1000024" useTermName="false" useTerm="true" termName="Final MS Exponent" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
72
+ <CvTerm termAccession="PSI:1000025" useTermName="false" useTerm="true" termName="Magnetic Field Strength" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
73
+ <CvTerm termAccession="PSI:1000078" useTermName="false" useTerm="true" termName="Axial Ejection Linear Ion Trap" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
74
+ <CvTerm termAccession="PSI:1000079" useTermName="false" useTerm="true" termName="Fourier Transform Ion Cyclotron Resonance Mass Spectrometer" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
75
+ <CvTerm termAccession="PSI:1000080" useTermName="false" useTerm="true" termName="Magnetic Sector" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
76
+ <CvTerm termAccession="PSI:1000081" useTermName="false" useTerm="true" termName="Quadrupole" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
77
+ <CvTerm termAccession="PSI:1000082" useTermName="false" useTerm="true" termName="Quadrupole Ion Trap" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
78
+ <CvTerm termAccession="PSI:1000083" useTermName="false" useTerm="true" termName="Radial Ejection Linear Ion Trap" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
79
+ <CvTerm termAccession="PSI:1000084" useTermName="false" useTerm="true" termName="Time-of-flight" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
80
+ <CvTerm termAccession="PSI:1000085" useTermName="false" useTerm="true" termName="Baseline" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
81
+ <CvTerm termAccession="PSI:1000086" useTermName="false" useTerm="true" termName="Full Width at Half-Maximum" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
82
+ <CvTerm termAccession="PSI:1000087" useTermName="false" useTerm="true" termName="Ten Percent Valley" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
83
+ <CvTerm termAccession="PSI:1000088" useTermName="false" useTerm="true" termName="Constant" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
84
+ <CvTerm termAccession="PSI:1000089" useTermName="false" useTerm="true" termName="Proportional" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
85
+ <CvTerm termAccession="PSI:1000090" useTermName="false" useTerm="true" termName="Mass Scan" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
86
+ <CvTerm termAccession="PSI:1000091" useTermName="false" useTerm="true" termName="Selected Ion Detection" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
87
+ <CvTerm termAccession="PSI:1000092" useTermName="false" useTerm="true" termName="Down" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
88
+ <CvTerm termAccession="PSI:1000093" useTermName="false" useTerm="true" termName="Up" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
89
+ <CvTerm termAccession="PSI:1000094" useTermName="false" useTerm="true" termName="Exponential" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
90
+ <CvTerm termAccession="PSI:1000095" useTermName="false" useTerm="true" termName="Linear" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
91
+ <CvTerm termAccession="PSI:1000096" useTermName="false" useTerm="true" termName="Quadratic" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
92
+ <CvTerm termAccession="PSI:1000097" useTermName="false" useTerm="true" termName="Constant Neutral Mass Loss" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
93
+ <CvTerm termAccession="PSI:1000098" useTermName="false" useTerm="true" termName="Multiple Ion Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
94
+ <CvTerm termAccession="PSI:1000099" useTermName="false" useTerm="true" termName="Multiple Reaction Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
95
+ <CvTerm termAccession="PSI:1000100" useTermName="false" useTerm="true" termName="Precursor Ion Scan" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
96
+ <CvTerm termAccession="PSI:1000101" useTermName="false" useTerm="true" termName="Product Ion Scan" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
97
+ <CvTerm termAccession="PSI:1000102" useTermName="false" useTerm="true" termName="Single Ion Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
98
+ <CvTerm termAccession="PSI:1000103" useTermName="false" useTerm="true" termName="Single Reaction Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
99
+ <CvTerm termAccession="PSI:1000104" useTermName="false" useTerm="true" termName="None" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
100
+ <CvTerm termAccession="PSI:1000105" useTermName="false" useTerm="true" termName="Off" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
101
+ <CvTerm termAccession="PSI:1000106" useTermName="false" useTerm="true" termName="On" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
102
+ <CvTerm termAccession="PSI:1000206" useTermName="false" useTerm="true" termName="Selected Reaction Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
103
+ </CvMappingRule>
104
+ <CvMappingRule id="3" cvElementPath="/mzData/description/instrument/detector/cvParam/@accession" requirementLevel="MAY" scopePath="/mzData/description/instrument/detector" cvTermsCombinationLogic="OR">
105
+ <CvTerm termAccession="PSI:1000026" useTermName="false" useTerm="true" termName="Detector Type" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
106
+ <CvTerm termAccession="PSI:1000027" useTermName="false" useTerm="true" termName="Detector Acquisition Mode" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
107
+ <CvTerm termAccession="PSI:1000028" useTermName="false" useTerm="true" termName="Detector Resolution" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
108
+ <CvTerm termAccession="PSI:1000029" useTermName="false" useTerm="true" termName="Sampling Frequency" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
109
+ <CvTerm termAccession="PSI:1000107" useTermName="false" useTerm="true" termName="Channeltron" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
110
+ <CvTerm termAccession="PSI:1000108" useTermName="false" useTerm="true" termName="Conversion Dynode Electron Multiplier" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
111
+ <CvTerm termAccession="PSI:1000109" useTermName="false" useTerm="true" termName="Conversion Dynode Photomultiplier" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
112
+ <CvTerm termAccession="PSI:1000110" useTermName="false" useTerm="true" termName="Daly Detector" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
113
+ <CvTerm termAccession="PSI:1000111" useTermName="false" useTerm="true" termName="Electron Multiplier Tube" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
114
+ <CvTerm termAccession="PSI:1000112" useTermName="false" useTerm="true" termName="Faraday Cup" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
115
+ <CvTerm termAccession="PSI:1000113" useTermName="false" useTerm="true" termName="Focal Plane Array" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
116
+ <CvTerm termAccession="PSI:1000114" useTermName="false" useTerm="true" termName="Microchannel Plate Detector" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
117
+ <CvTerm termAccession="PSI:1000115" useTermName="false" useTerm="true" termName="Multi-Collector" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
118
+ <CvTerm termAccession="PSI:1000116" useTermName="false" useTerm="true" termName="Photomultiplier" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
119
+ <CvTerm termAccession="PSI:1000117" useTermName="false" useTerm="true" termName="Analog-Digital Converter" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
120
+ <CvTerm termAccession="PSI:1000118" useTermName="false" useTerm="true" termName="Pulse Counting" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
121
+ <CvTerm termAccession="PSI:1000119" useTermName="false" useTerm="true" termName="Time-Digital Converter" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
122
+ <CvTerm termAccession="PSI:1000120" useTermName="false" useTerm="true" termName="Transient Recorder" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
123
+ <CvTerm termAccession="PSI:1000037" useTermName="false" useTerm="true" termName="Polarity Mode" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
124
+ </CvMappingRule>
125
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+ <CvTerm termAccession="PSI:1000031" useTermName="false" useTerm="true" termName="Model" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000032" useTermName="false" useTerm="true" termName="Customization" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000041" useTermName="false" useTerm="true" termName="Charge State" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
143
+ <CvTerm termAccession="PSI:1000042" useTermName="false" useTerm="true" termName="Intensity" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
144
+ <CvTerm termAccession="PSI:1000043" useTermName="false" useTerm="true" termName="Intensity Units" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000044" useTermName="false" useTerm="true" termName="Method" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000045" useTermName="false" useTerm="true" termName="Collision Energy" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000046" useTermName="false" useTerm="true" termName="Energy Units" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000242" useTermName="false" useTerm="true" termName="Blackbody Infrared Radiative Dissociation" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000243" useTermName="false" useTerm="true" termName="Charge-Remote Fragmentation" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000244" useTermName="false" useTerm="true" termName="Consecutive Reaction Monitoring" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
153
+ <CvTerm termAccession="PSI:1000245" useTermName="false" useTerm="true" termName="Charge Stripping" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
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+ <CvTerm termAccession="PSI:1000246" useTermName="false" useTerm="true" termName="Delayed Extraction" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
155
+ <CvTerm termAccession="PSI:1000250" useTermName="false" useTerm="true" termName="Electron Capture Dissociation" isRepeatable="true" allowChildren="true" cvIdentifierRef="PSI" />
156
+ </CvMappingRule>
157
+ </CvMappingRuleList>
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+ </CvMapping>
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