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Validating data for experiment Id: 1556, validation Id: 308

Utrecht U Targeted Proteomics - Veth_et_al_2023

Job Status

Created: 2022-12-20 22:33:57
Modified: 2022-12-20 22:33:58
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Validating data for experiment Id: 1556, validation Id: 308
File Path: /data/labkey/files/Panorama Public/2022/Utrecht U Targeted Proteomics - Veth_et_al_2023/@files/Experiment_Validation_1636_2022-12-20_22-33-56.log
Files: Experiment_Validation_1636_2022-12-20_22-33-56.log
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Log File


20 Dec 2022 22:33:57,350 INFO : Validating data for a ProteomeXchange submission.
20 Dec 2022 22:33:57,351 INFO : =======================================
20 Dec 2022 22:33:57,385 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.PxDataValidationTask' at location 'webserver'
20 Dec 2022 22:33:57,386 INFO : Validating data for experiment Id: 1556, validation Id: 308
20 Dec 2022 22:33:57,452 INFO : Validating data for 6 Skyline documents in 1 folders
20 Dec 2022 22:33:57,518 INFO : Sample file validation for Skyline document: FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,518 INFO :   Found all sample files.
20 Dec 2022 22:33:57,574 INFO : Sample file validation for Skyline document: FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,574 INFO :   Found all sample files.
20 Dec 2022 22:33:57,633 INFO : Sample file validation for Skyline document: FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,633 INFO :   Found all sample files.
20 Dec 2022 22:33:57,643 INFO : Sample file validation for Skyline document: FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,643 INFO :   Found all sample files.
20 Dec 2022 22:33:57,648 INFO : Sample file validation for Skyline document: 2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,648 INFO :   Found all sample files.
20 Dec 2022 22:33:57,667 INFO : Sample file validation for Skyline document: PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,667 INFO :   Found all sample files.
20 Dec 2022 22:33:57,905 INFO : Modifications validation:
20 Dec 2022 22:33:57,905 INFO : VALID MODIFICATIONS:
20 Dec 2022 22:33:57,905 INFO : 1191: Phospho (ST): UNIMOD:21 - Phospho
20 Dec 2022 22:33:57,905 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,905 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,905 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,905 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,905 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,905 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,905 INFO : 1192: Phospho (Y): UNIMOD:21 - Phospho
20 Dec 2022 22:33:57,905 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,905 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,905 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,906 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,906 INFO : 1193: Carbamidomethyl (C): UNIMOD:4 - Carbamidomethyl
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,906 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,906 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,906 INFO : 1194: Oxidation (M): UNIMOD:35 - Oxidation
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,906 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,906 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,907 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1195: Label:13C(6)15N(2) (C-term K): 
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,907 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,907 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1196: Label:13C(6)15N(4) (C-term R): 
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,907 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_FGF3_FGF4_clean_2022-12-14_10-43-52.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_FGF10_FGF19_clean_2022-12-14_10-44-48.sky.zip
20 Dec 2022 22:33:57,907 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1197: Label:13C(6)15N(1) (L): UNIMOD:695 - Label:13C(6)15N(1)
20 Dec 2022 22:33:57,907 INFO :     2nd_batch_peptides_PRM_2022-12-19_11-29-04.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1198: Label:13C(5)15N(1) (V): UNIMOD:268 - Label:13C(5)15N(1)
20 Dec 2022 22:33:57,907 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,907 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1199: Label:13C(5)15N(1) (P): UNIMOD:268 - Label:13C(5)15N(1)
20 Dec 2022 22:33:57,907 INFO :     FGFR_A-loop-iRT_found_2022-12-14_10-42-47.sky.zip
20 Dec 2022 22:33:57,907 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,907 INFO :     PRM_HL_library_last_batch_2022-12-19_11-30-24.sky.zip
20 Dec 2022 22:33:57,907 INFO : 1200: Label:13C15N: 
20 Dec 2022 22:33:57,907 INFO :     FGFR_method_JPT1_HLlib_2022-12-19_11-27-59.sky.zip
20 Dec 2022 22:33:57,907 INFO : INVALID MODIFICATIONS (No Unimod ID):
20 Dec 2022 22:33:57,909 INFO : Validating spectral library: 2nd_batch_peptides_PRM_PseudoMS2.blib
20 Dec 2022 22:33:57,922 INFO : '2nd_batch_peptides_PRM_PseudoMS2' (2nd_batch_peptides_PRM_PseudoMS2.blib) library in 4 Skyline documents was built with 3 raw files; 0 peptide Id files. Status: Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:57,923 INFO : Validating spectral library: 2nd_batch_peptides_PRM.blib
20 Dec 2022 22:33:57,932 INFO : '2nd_batch_peptides_PRM' (2nd_batch_peptides_PRM.blib) library in 1 Skyline documents was built with 2 raw files; 3 peptide Id files. Status: VALID
20 Dec 2022 22:33:57,933 INFO : Validating spectral library: 02A11_AL_jpt_DDA_TripleTOF3.blib
20 Dec 2022 22:33:57,950 INFO : '02A11_AL_jpt_DDA_TripleTOF3' (02A11_AL_jpt_DDA_TripleTOF3.blib) library in 3 Skyline documents was built with 1 raw files; 0 peptide Id files. Status: Missing spectrum  files. Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:57,950 INFO :   MISSING FILES:
20 Dec 2022 22:33:57,950 INFO :     Spectrum File: TT_20160426_TTS_AL_pool_jpt_250fmol_BSA_DDA_run3.mgf
20 Dec 2022 22:33:57,951 INFO : Validating spectral library: FGFR_method_JPT1_HLlib_PseudoMS2.blib
20 Dec 2022 22:33:57,965 INFO : 'FGFR_method_JPT1_HLIB_pseudoMS2' (FGFR_method_JPT1_HLlib_PseudoMS2.blib) library in 4 Skyline documents was built with 6 raw files; 0 peptide Id files. Status: Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:57,966 INFO : Validating spectral library: FGFR_method_JPT1_HLlib_cortrans.blib
20 Dec 2022 22:33:58,035 INFO : 'FGFR_HL_lib' (FGFR_method_JPT1_HLlib_cortrans.blib) library in 3 Skyline documents was built with 5 raw files; 3 peptide Id files. Status: VALID
20 Dec 2022 22:33:58,037 INFO : Validating spectral library: TSQ_DDA_AL.blib
20 Dec 2022 22:33:58,096 INFO : 'TSQ_DDA_AL' (TSQ_DDA_AL.blib) library in 3 Skyline documents was built with 1 raw files; 0 peptide Id files. Status: Missing spectrum  files. Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:58,096 INFO :   MISSING FILES:
20 Dec 2022 22:33:58,096 INFO :     Spectrum File: 20170720_TSQ_PrG_Schmi020_SA_02A11ZB_AL_DDA_It1.raw
20 Dec 2022 22:33:58,097 INFO : Validating spectral library: FGFR_method_JPT1_HLlib.blib
20 Dec 2022 22:33:58,121 INFO : 'FGFR_method_JPT1_HLlib' (FGFR_method_JPT1_HLlib.blib) library in 1 Skyline documents was built with 5 raw files; 3 peptide Id files. Status: VALID
20 Dec 2022 22:33:58,122 INFO : Validating spectral library: PRM_HL_library_last_batch_PseudoMS2.blib
20 Dec 2022 22:33:58,135 INFO : 'PRM_HL_library_last_batch_PseudoMS2' (PRM_HL_library_last_batch_PseudoMS2.blib) library in 4 Skyline documents was built with 9 raw files; 0 peptide Id files. Status: Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:58,136 INFO : Validating spectral library: HpH_library_phosphoRS.blib
20 Dec 2022 22:33:58,168 INFO : 'HpH_library_phosphoRS' (HpH_library_phosphoRS.blib) library in 3 Skyline documents was built with 5 raw files; 0 peptide Id files. Status: Missing spectrum  files. Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:58,168 INFO :   MISSING FILES:
20 Dec 2022 22:33:58,168 INFO :     Spectrum File: TT_20150909_LBG_HpH_FracA.mgf
20 Dec 2022 22:33:58,168 INFO :     Spectrum File: TT_20150909_LBG_HpH_FracB.mgf
20 Dec 2022 22:33:58,168 INFO :     Spectrum File: TT_20150909_LBG_HpH_FracC.mgf
20 Dec 2022 22:33:58,168 INFO :     Spectrum File: TT_20150909_LBG_HpH_FracD.mgf
20 Dec 2022 22:33:58,168 INFO :     Spectrum File: TT_20150909_LBG_HpH_FracE.mgf
20 Dec 2022 22:33:58,169 INFO : Validating spectral library: PRM_HL_library_last_batch.blib
20 Dec 2022 22:33:58,190 INFO : 'PRM_HL_library_last_batch' (PRM_HL_library_last_batch.blib) library in 1 Skyline documents was built with 8 raw files; 3 peptide Id files. Status: VALID
20 Dec 2022 22:33:58,191 INFO : Validating spectral library: 02A11_AL_jpt_DDA_TripleTOF2.blib
20 Dec 2022 22:33:58,207 INFO : '02A11_AL_jpt_DDA_TripleTOF2' (02A11_AL_jpt_DDA_TripleTOF2.blib) library in 3 Skyline documents was built with 2 raw files; 0 peptide Id files. Status: Missing spectrum  files. Missing peptide ID file names in the .blib file.
20 Dec 2022 22:33:58,207 INFO :   MISSING FILES:
20 Dec 2022 22:33:58,207 INFO :     Spectrum File: TT_20160425_TTS_AL_pool_jpt_50fmol_BSA_DDA_run1.mgf
20 Dec 2022 22:33:58,207 INFO :     Spectrum File: TT_20160425_TTS_AL_pool_jpt_50fmol_BSA_DDA_run2.mgf
20 Dec 2022 22:33:58,207 INFO : Spectral library validation complete.
20 Dec 2022 22:33:58,208 INFO : Data validation is complete. Status is IncompleteMetadata
20 Dec 2022 22:33:58,208 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.PxDataValidationTask'