Starting DIA-Umpire conversion [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 6135/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 11765/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 14786/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 17672/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 20635/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 23462/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 26254/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 28872/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 31284/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 33803/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 36077/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 38440/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 40677/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 42013/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 44004/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 46227/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 48627/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 50882/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 53161/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 55467/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 57823/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 59832/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 62194/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 64556/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 66898/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 69484/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 71585/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 72757/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 73007/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 76404/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 79096/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 81969/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 86525/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 91710/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 96475/98373 [0001-231030-A1-LT2 (1 of 6)] [step 1 of 7] assigning spectra to DIA windows: 98373/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 3751/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 9230/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 12649/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 14912/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 17138/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 18983/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 21138/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 23010/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 24853/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 26697/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 28883/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 30618/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 31451/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 32423/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 33556/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 34997/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 36939/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 39197/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 41334/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 43522/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 45786/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 47914/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 49974/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 51855/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 53710/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 54985/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 56731/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 58524/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 60470/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 61969/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 63096/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 65176/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 66544/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 68820/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 71521/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 74884/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 77203/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 81962/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 84457/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 87466/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 91261/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 95809/98373 [0001-231030-A1-LT2 (1 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 98373/98373 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 1/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 114/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 523/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 761/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 1387/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 1693/1929 [0001-231030-A1-LT2 (1 of 6)] [step 3 of 7] building peak curves: 1929/1929 [0001-231030-A1-LT2 (1 of 6)] [step 4 of 7] smoothing peak curves: 813830/813830 [0001-231030-A1-LT2 (1 of 6)] [step 5 of 7] clustering peak curves: 1/815677 [0001-231030-A1-LT2 (1 of 6)] [step 5 of 7] clustering peak curves: 37980/815677 [0001-231030-A1-LT2 (1 of 6)] [step 5 of 7] clustering peak curves: 482916/815677 [0001-231030-A1-LT2 (1 of 6)] [step 5 of 7] clustering peak curves: 695800/815677 [0001-231030-A1-LT2 (1 of 6)] [step 5 of 7] clustering peak curves: 815677/815677 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 44/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 5438/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 10856/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 13853/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 16585/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 19216/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 21486/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 23724/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 26040/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 28278/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 30441/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 32433/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 34482/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 36536/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 38458/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 40129/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 42216/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 44173/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 46327/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 48352/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 49682/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 50715/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 52080/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 54142/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 56382/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 58154/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 59957/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 62237/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 64258/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 65692/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 66744/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 68844/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 71647/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 74890/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 78371/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 82722/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 87776/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 92760/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 97038/98373 [0001-231030-A1-LT2 (1 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 98373/98373 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 1/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 2/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 3/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 5/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 6/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 7/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 8/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 9/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 10/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 11/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 12/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 13/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 14/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 15/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 16/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 17/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 18/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 19/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 20/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 21/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 22/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 24/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 25/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 26/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 27/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 28/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 29/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 30/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 31/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 32/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 33/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 34/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 35/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 36/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 37/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 38/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 40/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 41/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 42/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 43/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 44/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 45/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 46/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 47/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 49/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 50/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 51/52 [0001-231030-A1-LT2 (1 of 6)] [step 7 of 7] processing DIA window: 52/52 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 1/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 4/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 147/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 2064/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 4812/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 7623/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 10405/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 13184/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 15980/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 18866/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 21694/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 24507/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 27366/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 30178/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 33077/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 35873/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 38649/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 41427/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 44482/47258 [0001-231030-A1-LT2 (1 of 6)] writing spectra: 47258/47258 [0001-231030-A1-LT2 (1 of 6)] writing chromatograms: 1/3 [0001-231030-A1-LT2 (1 of 6)] writing chromatograms: 3/3 [0001-231030-A1-LT2 (1 of 6)] writing indexes: 1/0 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 390/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 6955/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 13059/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 17730/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 22242/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 26261/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 30306/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 34253/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 38253/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 42328/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 46535/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 50926/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 55739/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 61073/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 67009/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 73454/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 80509/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 87626/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 94087/95677 [0002-231030-A1-THY (2 of 6)] [step 1 of 7] assigning spectra to DIA windows: 95677/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 5003/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 10801/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 14779/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 18638/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 22392/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 26030/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 29557/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 32924/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 36415/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 39874/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 43397/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 46987/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 50508/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 54583/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 59223/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 64141/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 69545/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 75550/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 81857/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 88015/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 93267/95677 [0002-231030-A1-THY (2 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 95677/95677 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 103/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 333/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 549/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 782/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 955/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1078/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1184/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1267/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1366/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1459/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1631/1877 [0002-231030-A1-THY (2 of 6)] [step 3 of 7] building peak curves: 1877/1877 [0002-231030-A1-THY (2 of 6)] [step 4 of 7] smoothing peak curves: 520358/520358 [0002-231030-A1-THY (2 of 6)] [step 5 of 7] clustering peak curves: 1/521518 [0002-231030-A1-THY (2 of 6)] [step 5 of 7] clustering peak curves: 489830/521518 [0002-231030-A1-THY (2 of 6)] [step 5 of 7] clustering peak curves: 521518/521518 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 4378/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 9319/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 13463/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 17054/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 20602/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 24062/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 27389/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 30682/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 33868/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 36995/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 40287/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 43686/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 47083/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 50662/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 54504/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 58721/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 63704/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 68869/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 74355/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 80257/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 86179/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 91809/95677 [0002-231030-A1-THY (2 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 95677/95677 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 1/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 2/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 4/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 9/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 10/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 11/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 13/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 16/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 17/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 18/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 19/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 21/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 23/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 24/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 26/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 27/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 29/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 30/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 32/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 33/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 35/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 36/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 38/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 41/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 42/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 45/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 46/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 48/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 49/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 50/52 [0002-231030-A1-THY (2 of 6)] [step 7 of 7] processing DIA window: 52/52 [0002-231030-A1-THY (2 of 6)] writing spectra: 1/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 3/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 742/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 3161/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 5883/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 8375/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 11108/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 13613/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 16232/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 18928/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 22216/22442 [0002-231030-A1-THY (2 of 6)] writing spectra: 22442/22442 [0002-231030-A1-THY (2 of 6)] writing chromatograms: 1/3 [0002-231030-A1-THY (2 of 6)] writing chromatograms: 3/3 [0002-231030-A1-THY (2 of 6)] writing indexes: 1/0 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 5932/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 11385/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 14503/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 17274/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 19775/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 22362/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 24821/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 27147/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 29524/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 31763/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 33979/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 36253/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 38539/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 40900/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 43252/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 45930/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 48835/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 51803/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 54888/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 58188/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 61896/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 66035/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 70713/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 75891/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 81293/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 87140/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 92923/97231 [0003-231030-B1-THY (3 of 6)] [step 1 of 7] assigning spectra to DIA windows: 97231/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1045/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 7148/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 11909/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 14713/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 17576/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 20278/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 22964/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 25623/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 28208/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 30832/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 33329/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 35838/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 38318/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 40923/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 43580/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 46299/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading 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[step 2 of 7] reading MS1/MS2 spectra into scan collection: 86648/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 92240/97231 [0003-231030-B1-THY (3 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 97231/97231 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 2/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 357/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 650/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 937/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1124/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1259/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1390/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1541/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1750/1907 [0003-231030-B1-THY (3 of 6)] [step 3 of 7] building peak curves: 1907/1907 [0003-231030-B1-THY (3 of 6)] [step 4 of 7] smoothing peak curves: 631912/631912 [0003-231030-B1-THY (3 of 6)] [step 4 of 7] smoothing peak curves: 432536/631912 [0003-231030-B1-THY (3 of 6)] [step 4 of 7] smoothing peak curves: 631912/631912 [0003-231030-B1-THY (3 of 6)] [step 5 of 7] clustering peak curves: 1/633266 [0003-231030-B1-THY (3 of 6)] [step 5 of 7] clustering peak curves: 633266/633266 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 2/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 5841/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 11210/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 14297/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 17261/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 20077/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 22938/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 25683/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 28381/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 31020/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 33577/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 36170/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 38730/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 41367/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 44013/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 46708/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 49403/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 52083/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 54850/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 57850/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 61067/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 64712/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 68673/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 72770/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 77125/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 82139/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 87458/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 92698/97231 [0003-231030-B1-THY (3 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 97231/97231 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 1/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 2/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 3/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 5/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 7/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 9/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 10/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 11/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 12/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 13/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 15/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 17/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 18/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 20/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 21/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 23/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 25/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 26/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 27/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 28/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 29/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 30/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 32/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 33/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 34/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 36/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 37/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 38/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 39/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 40/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 41/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 42/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 44/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 46/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 47/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 48/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 49/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 50/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 51/52 [0003-231030-B1-THY (3 of 6)] [step 7 of 7] processing DIA window: 52/52 [0003-231030-B1-THY (3 of 6)] writing spectra: 1/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 252/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 2615/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 5342/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 8124/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 11060/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 13971/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 16843/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 19705/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 22570/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 25517/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 28759/30276 [0003-231030-B1-THY (3 of 6)] writing spectra: 30276/30276 [0003-231030-B1-THY (3 of 6)] writing chromatograms: 1/3 [0003-231030-B1-THY (3 of 6)] writing chromatograms: 3/3 [0003-231030-B1-THY (3 of 6)] writing indexes: 1/0 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1538/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 8216/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 13859/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 17651/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 21139/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 24518/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 27830/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 31013/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 34099/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 37066/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 39983/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 42845/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 45711/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 48629/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 51429/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 54101/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 56824/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 59446/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 61996/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 64643/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 67392/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 70228/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 73290/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 76551/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 80041/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 83904/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 88372/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 92952/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 97801/98796 [0012-23125-A1-SAA (4 of 6)] [step 1 of 7] assigning spectra to DIA windows: 98796/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 4391/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 10335/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 14137/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 17203/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 19908/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 22573/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 25126/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 27521/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 30091/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 32718/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 35303/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 37745/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 40193/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 42555/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 44922/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 47249/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 49676/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 52047/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 54394/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 56680/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 58928/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 61172/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 63341/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 65673/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 68061/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 70495/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 72841/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 75295/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 77921/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 80906/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 84058/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 87740/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 91249/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 94656/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 98098/98796 [0012-23125-A1-SAA (4 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 98796/98796 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 1/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 404/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 597/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 787/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 983/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 1208/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 1443/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 1689/1938 [0012-23125-A1-SAA (4 of 6)] [step 3 of 7] building peak curves: 1938/1938 [0012-23125-A1-SAA (4 of 6)] [step 4 of 7] smoothing peak curves: 692273/692273 [0012-23125-A1-SAA (4 of 6)] [step 5 of 7] clustering peak curves: 1/693171 [0012-23125-A1-SAA (4 of 6)] [step 5 of 7] clustering peak curves: 693171/693171 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 2/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 4777/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 10490/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 14265/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 17200/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 19970/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 22729/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 25403/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 28119/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 30828/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 33522/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 36029/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 38505/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 40960/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 43301/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 45669/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 48135/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 50431/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 52750/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 54990/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 57193/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 59504/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 61863/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 64247/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 66604/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 69117/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 71657/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 74310/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 77159/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 80183/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 83464/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 87108/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 90945/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 94574/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 98714/98796 [0012-23125-A1-SAA (4 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 98796/98796 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 1/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 2/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 3/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 4/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 5/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 7/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 8/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 9/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 10/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 11/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 12/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 13/52 [0012-23125-A1-SAA (4 of 6)] [step 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6)] [step 7 of 7] processing DIA window: 31/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 32/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 33/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 34/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 35/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 36/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 37/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 38/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 39/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 40/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 41/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 42/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 43/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 45/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 46/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 48/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 49/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 50/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 51/52 [0012-23125-A1-SAA (4 of 6)] [step 7 of 7] processing DIA window: 52/52 [0012-23125-A1-SAA (4 of 6)] writing spectra: 1/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 37/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 645/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 3470/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 6265/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 9134/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 11960/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 14681/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 17471/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 20209/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 22960/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 25656/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 28374/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 31134/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 34002/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 37061/38386 [0012-23125-A1-SAA (4 of 6)] writing spectra: 38386/38386 [0012-23125-A1-SAA (4 of 6)] writing chromatograms: 1/3 [0012-23125-A1-SAA (4 of 6)] writing chromatograms: 3/3 [0012-23125-A1-SAA (4 of 6)] writing indexes: 1/0 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 5989/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 12195/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 16040/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 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[0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 55944/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 58767/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 61685/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 64655/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 67823/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 71184/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 74403/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 77443/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 80770/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 84266/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 87972/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 91614/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 95269/98341 [0014-23125-B1-ALL (5 of 6)] [step 1 of 7] assigning spectra to DIA windows: 98341/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1079/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 7712/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 12459/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 15930/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 19121/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 22050/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 24988/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 27820/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 30659/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 33361/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 36032/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 38372/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 40853/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 43304/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 45878/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 48566/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 51073/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 53599/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 56149/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 58528/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 60863/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 63144/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 65678/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 68571/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 71511/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 74829/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 78590/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 82690/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 87351/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 91949/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 96573/98341 [0014-23125-B1-ALL (5 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 98341/98341 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 1/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 375/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 608/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 817/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 1019/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 1302/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 1558/1929 [0014-23125-B1-ALL (5 of 6)] [step 3 of 7] building peak curves: 1929/1929 [0014-23125-B1-ALL (5 of 6)] [step 4 of 7] smoothing peak curves: 672640/672640 [0014-23125-B1-ALL (5 of 6)] [step 4 of 7] smoothing peak curves: 272/672640 [0014-23125-B1-ALL (5 of 6)] [step 4 of 7] smoothing peak curves: 672640/672640 [0014-23125-B1-ALL (5 of 6)] [step 5 of 7] clustering peak curves: 1/673245 [0014-23125-B1-ALL (5 of 6)] [step 5 of 7] clustering peak curves: 159015/673245 [0014-23125-B1-ALL (5 of 6)] [step 5 of 7] clustering peak curves: 673245/673245 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 1304/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 7373/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 12716/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 16010/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 19048/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 21869/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 24540/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 27223/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 29806/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 32333/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 34846/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 37310/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 39709/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 42067/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 44495/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 46986/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 49394/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 51780/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 54083/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 56446/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 58869/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 61350/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 63898/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 66463/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 69243/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 72199/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 75410/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 78750/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 82429/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 86522/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 90794/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 94895/98341 [0014-23125-B1-ALL (5 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 98341/98341 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 1/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 2/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 3/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 5/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 8/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 9/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 10/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 11/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 12/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 13/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 14/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 15/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 18/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 19/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 20/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 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window: 38/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 39/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 40/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 41/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 42/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 44/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 46/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 47/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 48/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 49/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 51/52 [0014-23125-B1-ALL (5 of 6)] [step 7 of 7] processing DIA window: 52/52 [0014-23125-B1-ALL (5 of 6)] writing spectra: 1/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 4/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 447/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 3220/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 6057/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 8802/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 11575/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 14403/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 17174/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 19941/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 22743/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 25591/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 28611/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 31826/32429 [0014-23125-B1-ALL (5 of 6)] writing spectra: 32429/32429 [0014-23125-B1-ALL (5 of 6)] writing chromatograms: 1/3 [0014-23125-B1-ALL (5 of 6)] writing chromatograms: 3/3 [0014-23125-B1-ALL (5 of 6)] writing indexes: 1/0 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 1/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 3179/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 10082/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 14507/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 17891/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 20954/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 23986/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 26928/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 29700/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 32557/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 35289/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 37935/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 40498/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 42965/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 45428/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 47866/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 50438/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 52966/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 55448/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 57923/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 60452/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 62953/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 65482/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 68065/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 70651/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 73355/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 76091/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 78992/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 81989/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 85335/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 88898/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 92828/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 96809/100012 [0016-23125-A1-ALL (6 of 6)] [step 1 of 7] assigning spectra to DIA windows: 100012/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 1/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 2060/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 8385/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 13098/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 15868/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 18701/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 21192/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 23659/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 26127/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 28479/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 30817/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 33155/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 35461/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 37751/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 39991/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 42263/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 44718/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 47052/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 49411/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 51678/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 53871/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 56088/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 58308/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 60545/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 62798/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 65057/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 67341/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 69696/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 72134/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 74639/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 77278/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 79942/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 82793/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 85415/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 88264/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 91549/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 94866/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 99102/100012 [0016-23125-A1-ALL (6 of 6)] [step 2 of 7] reading MS1/MS2 spectra into scan collection: 100012/100012 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 1/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 415/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 635/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 839/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 1067/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 1447/1962 [0016-23125-A1-ALL (6 of 6)] [step 3 of 7] building peak curves: 1962/1962 [0016-23125-A1-ALL (6 of 6)] [step 4 of 7] smoothing peak curves: 791455/791455 [0016-23125-A1-ALL (6 of 6)] [step 5 of 7] clustering peak curves: 1/792126 [0016-23125-A1-ALL (6 of 6)] [step 5 of 7] clustering peak curves: 38786/792126 [0016-23125-A1-ALL (6 of 6)] [step 5 of 7] clustering peak curves: 792126/792126 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 2/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 5245/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan 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[0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 63684/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 65816/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 67969/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 70156/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 72391/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 74702/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 77087/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 79581/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 82212/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 85031/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 88012/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 91185/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 94310/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 97961/100012 [0016-23125-A1-ALL (6 of 6)] [step 6 of 7] reading MS2 spectra into scan collection: 100012/100012 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 1/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 2/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 3/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 4/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 5/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 8/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 9/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 10/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 11/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 12/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 14/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 15/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 16/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 17/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 19/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 20/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 21/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 22/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 23/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 24/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 26/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 27/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 28/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 29/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 30/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 31/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 32/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 33/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 34/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 35/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 36/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 37/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 38/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 39/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 40/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 41/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 42/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 43/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 44/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 45/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 46/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 47/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 48/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 49/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 50/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 51/52 [0016-23125-A1-ALL (6 of 6)] [step 7 of 7] processing DIA window: 52/52 [0016-23125-A1-ALL (6 of 6)] writing spectra: 1/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 9/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 417/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 2820/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 5550/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 7995/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 10714/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 13260/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 15775/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 18492/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 21004/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 23645/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 26186/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 28806/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 31248/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 33854/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 36302/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 38775/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 41283/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 43882/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 46595/48960 [0016-23125-A1-ALL (6 of 6)] writing spectra: 48960/48960 [0016-23125-A1-ALL (6 of 6)] writing chromatograms: 1/3 [0016-23125-A1-ALL (6 of 6)] writing chromatograms: 3/3 [0016-23125-A1-ALL (6 of 6)] writing indexes: 1/0 Starting search... Detecting decoy prefix in amyloid-simple.fasta. No common prefixes were found. No common suffixes were found. No decoy prefix detected. A new FASTA will be generated using reverse sequences as decoys (with prefix 'DECOY_'). Using decoy database at decoy_amyloid-simple.fasta. MSFragger version MSFragger-3.4 Batmass-IO version 1.23.6 timsdata library version timsdata-2-8-7-1 (c) University of Michigan RawFileReader reading tool. Copyright (c) 2016 by Thermo Fisher Scientific, Inc. All rights reserved. System OS: Windows 10, Architecture: AMD64 Java Info: 17.0.1, OpenJDK 64-Bit Server VM, Oracle Corporation JVM started with 15 GB memory Checking database... Checking spectral files... F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0002-231030-A1-THY-diaumpire.mzML: Scans = 22442 F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0014-23125-B1-ALL-diaumpire.mzML: Scans = 32429 F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0003-231030-B1-THY-diaumpire.mzML: Scans = 30276 F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0012-23125-A1-SAA-diaumpire.mzML: Scans = 38384 F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0016-23125-A1-ALL-diaumpire.mzML: Scans = 48960 F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0001-231030-A1-LT2-diaumpire.mzML: Scans = 47257 ************************************MAIN SEARCH************************************ Checking database... Parameters: num_threads = 16 database_name = F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\decoy_amyloid-simple.fasta decoy_prefix = DECOY_ precursor_mass_lower = -20.0 precursor_mass_upper = 20.0 precursor_mass_units = 1 data_type = 0 precursor_true_tolerance = 20.0 precursor_true_units = 1 fragment_mass_tolerance = 20.0 fragment_mass_units = 1 calibrate_mass = 0 use_all_mods_in_first_search = false write_calibrated_mgf = 0 isotope_error = 0/1/2/3 mass_offsets = 0 labile_search_mode = OFF restrict_deltamass_to = all precursor_mass_mode = SELECTED localize_delta_mass = false delta_mass_exclude_ranges = (-1.5,3.5) fragment_ion_series = b,y ion_series_definitions = search_enzyme_name = Trypsin search_enzyme_sense_1 = C search_enzyme_cut_1 = KR search_enzyme_nocut_1 = P allowed_missed_cleavage_1 = 0 num_enzyme_termini = 2 clip_nTerm_M = true allow_multiple_variable_mods_on_residue = false max_variable_mods_per_peptide = 3 max_variable_mods_combinations = 5500 output_format = pepxml_pin output_report_topN = 1 output_max_expect = 50.0 report_alternative_proteins = true override_charge = false precursor_charge_low = 1 precursor_charge_high = 4 digest_min_length = 5 digest_max_length = 60 digest_mass_range_low = 200.0 digest_mass_range_high = 5000.0 max_fragment_charge = 2 deisotope = 1 deneutralloss = true track_zero_topN = 0 zero_bin_accept_expect = 0.0 zero_bin_mult_expect = 1.0 add_topN_complementary = 0 minimum_peaks = 15 use_topN_peaks = 50 minIonsScoring = 2 min_matched_fragments = 4 minimum_ratio = 0.01 intensity_transform = 0 remove_precursor_peak = 1 remove_precursor_range = -1.500000,1.500000 clear_mz_range_low = 0.0 clear_mz_range_high = 0.0 excluded_scan_list_file = mass_diff_to_variable_mod = 0 min_sequence_matches = 2 check_spectral_files = true add_C_cysteine = 57.021464 add_Cterm_peptide = 0.0 add_Cterm_protein = 0.0 add_Nterm_peptide = 0.0 add_Nterm_protein = 0.0 Number of unique peptides of length 5: 286 of length 6: 256 of length 7: 233 of length 8: 192 of length 9: 224 of length 10: 130 of length 11: 192 of length 12: 113 of length 13: 114 of length 14: 108 of length 15: 183 of length 16: 85 of length 17: 95 of length 18: 71 of length 19: 119 of length 20: 81 of length 21: 60 of length 22: 82 of length 23: 76 of length 24: 45 of length 25: 54 of length 26: 35 of length 27: 23 of length 28: 17 of length 29: 25 of length 30: 37 of length 31: 13 of length 32: 28 of length 33: 23 of length 34: 31 of length 35: 46 of length 36: 17 of length 37: 54 of length 38: 31 of length 39: 13 of length 40: 7 of length 41: 5 of length 42: 19 of length 43: 7 of length 44: 12 of length 45: 5 of length 46: 1 of length 47: 2 of length 56: 1 In total 3251 peptides. Generated 3251 modified peptides. Number of peptides with more than 5500 modification patterns: 0 Selected fragment index width 0.10 Da. 92346 fragments to be searched in 1 slices (0.00 GB total) Operating on slice 1 of 1: Fragment index slice generated in 0.02 s 001. 0001-231030-A1-LT2-diaumpire.mzML 1.6 s | deisotoping 0.4 s [progress: 47238/47238 (100%) - 46956 spectra/s] 1.0s | postprocessing 0.5 s 002. 0002-231030-A1-THY-diaumpire.mzML 0.5 s | deisotoping 0.0 s [progress: 22433/22433 (100%) - 103856 spectra/s] 0.2s | postprocessing 0.2 s 003. 0003-231030-B1-THY-diaumpire.mzML 0.6 s | deisotoping 0.1 s [progress: 30269/30269 (100%) - 91447 spectra/s] 0.3s | postprocessing 0.3 s 004. 0012-23125-A1-SAA-diaumpire.mzML 0.7 s | deisotoping 0.1 s [progress: 38373/38373 (100%) - 108093 spectra/s] 0.4s | postprocessing 0.3 s 005. 0014-23125-B1-ALL-diaumpire.mzML 0.6 s | deisotoping 0.1 s [progress: 32424/32424 (100%) - 140364 spectra/s] 0.2s | postprocessing 0.3 s 006. 0016-23125-A1-ALL-diaumpire.mzML 1.0 s | deisotoping 0.1 s [progress: 48949/48949 (100%) - 110744 spectra/s] 0.4s | postprocessing 0.4 s ***************************MAIN SEARCH DONE IN 0.185 MIN*************************** *******************************TOTAL TIME 0.255 MIN******************************** INFO: Writing results to output directory 'F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output'. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0001-231030-A1-LT2-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:41 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0001-231030-A1-LT2-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 246 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 237 positives and 9 negatives, size ratio=26.3333 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 3 as initial direction. Could separate 152 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 128 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 8 as initial direction. Could separate 127 training set positives with q<0.01 in that direction. INFO: Found 146 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0110 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 237 PSMs with q<0.05 INFO: Iteration 2: Estimated 237 PSMs with q<0.05 INFO: Iteration 3: Estimated 237 PSMs with q<0.05 INFO: Iteration 4: Estimated 236 PSMs with q<0.05 INFO: Iteration 5: Estimated 233 PSMs with q<0.05 INFO: Iteration 6: Estimated 233 PSMs with q<0.05 INFO: Iteration 7: Estimated 233 PSMs with q<0.05 INFO: Iteration 8: Estimated 233 PSMs with q<0.05 INFO: Iteration 9: Estimated 233 PSMs with q<0.05 INFO: Iteration 10: Estimated 233 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: -0.0879 0.1610 -0.0335 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.7836 -0.2207 -0.0584 abs_ppm INFO: 0.0435 -0.6176 -0.6384 isotope_errors INFO: 0.2172 -0.3141 -0.1360 log10_evalue INFO: -0.1244 0.1570 0.1305 hyperscore INFO: -0.1292 0.0793 0.1542 delta_hyperscore INFO: 0.6821 0.5609 0.2395 matched_ion_num INFO: 0.1236 -0.2987 -0.0648 complementary_ions INFO: 0.3768 0.6509 0.3395 ion_series INFO: -0.1098 -0.0783 -0.2689 weighted_average_abs_fragment_ppm INFO: 0.9000 0.6678 0.0364 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: 0.0470 0.1008 0.1251 Charge2 INFO: -0.0396 -0.0761 -0.1557 Charge3 INFO: -0.0341 -0.1088 0.1142 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 1.0697 1.2018 1.0908 m0 INFO: Found 155 test set PSMs with q<0.05. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 237 target PSMs and 9 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 143 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 5.9920 cpu seconds or 6 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 6.12 s INFO: Finished crux percolator. INFO: Return Code:0 Existing files will be overwritten. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0002-231030-A1-THY-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:47 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0002-231030-A1-THY-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 244 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 238 positives and 6 negatives, size ratio=39.6667 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 6 as initial direction. Could separate 135 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 142 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 11 as initial direction. Could separate 161 training set positives with q<0.01 in that direction. INFO: Found 230 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0090 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 238 PSMs with q<0.05 INFO: Iteration 2: Estimated 238 PSMs with q<0.05 INFO: Iteration 3: Estimated 238 PSMs with q<0.05 INFO: Iteration 4: Estimated 238 PSMs with q<0.05 INFO: Iteration 5: Estimated 238 PSMs with q<0.05 INFO: Iteration 6: Estimated 238 PSMs with q<0.05 INFO: Iteration 7: Estimated 238 PSMs with q<0.05 INFO: Iteration 8: Estimated 238 PSMs with q<0.05 INFO: Iteration 9: Estimated 238 PSMs with q<0.05 INFO: Iteration 10: Estimated 238 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: -0.2203 0.0472 -0.4316 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.0437 -0.2048 0.2643 abs_ppm INFO: -0.5347 0.0503 -0.2790 isotope_errors INFO: 0.2040 0.2692 -0.1758 log10_evalue INFO: -0.1654 -0.2380 0.1971 hyperscore INFO: -0.2001 -0.2873 0.1511 delta_hyperscore INFO: 0.0625 0.3289 0.2194 matched_ion_num INFO: 0.2661 0.1817 -0.3733 complementary_ions INFO: 0.8275 0.5962 -0.0311 ion_series INFO: 0.0747 -0.6389 -0.3007 weighted_average_abs_fragment_ppm INFO: 1.1822 1.0301 0.0545 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: -0.0315 0.1563 0.0992 Charge2 INFO: 0.0468 -0.1452 -0.0867 Charge3 INFO: -0.0809 -0.0705 -0.0744 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 1.2607 1.0982 1.1598 m0 INFO: Found 236 test set PSMs with q<0.05. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 238 target PSMs and 6 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 147 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 1.9330 cpu seconds or 2 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 2.05 s INFO: Finished crux percolator. INFO: Return Code:0 Existing files will be overwritten. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0003-231030-B1-THY-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:49 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0003-231030-B1-THY-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 173 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 164 positives and 9 negatives, size ratio=18.2222 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 8 as initial direction. Could separate 86 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 86 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 10 as initial direction. Could separate 88 training set positives with q<0.01 in that direction. INFO: Found 136 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0070 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 163 PSMs with q<0.05 INFO: Iteration 2: Estimated 162 PSMs with q<0.05 INFO: Iteration 3: Estimated 162 PSMs with q<0.05 INFO: Iteration 4: Estimated 162 PSMs with q<0.05 INFO: Iteration 5: Estimated 162 PSMs with q<0.05 INFO: Iteration 6: Estimated 162 PSMs with q<0.05 INFO: Iteration 7: Estimated 162 PSMs with q<0.05 INFO: Iteration 8: Estimated 162 PSMs with q<0.05 INFO: Iteration 9: Estimated 162 PSMs with q<0.05 INFO: Iteration 10: Estimated 162 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: 0.7250 0.5311 0.4095 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.1977 -0.2729 -0.2701 abs_ppm INFO: -0.5325 -0.4383 -0.6300 isotope_errors INFO: 0.1518 -0.2269 -0.0996 log10_evalue INFO: -0.1705 -0.2309 0.0488 hyperscore INFO: -0.1488 -0.2071 0.0667 delta_hyperscore INFO: 0.4905 0.5568 0.1029 matched_ion_num INFO: -0.0427 -0.2425 -0.4295 complementary_ions INFO: 0.6366 0.5506 0.2569 ion_series INFO: 0.0391 0.2458 -0.2661 weighted_average_abs_fragment_ppm INFO: 0.2892 0.3128 -0.0183 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: -0.2181 -0.1249 -0.0738 Charge2 INFO: 0.2181 0.1249 0.0738 Charge3 INFO: 0.0000 0.0000 0.0000 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 0.9392 1.0068 0.8673 m0 INFO: Found 162 test set PSMs with q<0.05. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 164 target PSMs and 9 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 93 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 0.6730 cpu seconds or 1 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 0.775 s INFO: Finished crux percolator. INFO: Return Code:0 Existing files will be overwritten. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0012-23125-A1-SAA-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:51 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0012-23125-A1-SAA-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 269 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 262 positives and 7 negatives, size ratio=37.4286 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 4 as initial direction. Could separate 169 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 145 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 5 as initial direction. Could separate 160 training set positives with q<0.01 in that direction. INFO: Found 262 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0110 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 262 PSMs with q<0.05 INFO: Iteration 2: Estimated 262 PSMs with q<0.05 INFO: Iteration 3: Estimated 262 PSMs with q<0.05 INFO: Iteration 4: Estimated 262 PSMs with q<0.05 INFO: Iteration 5: Estimated 262 PSMs with q<0.05 INFO: Iteration 6: Estimated 262 PSMs with q<0.05 INFO: Iteration 7: Estimated 262 PSMs with q<0.05 INFO: Iteration 8: Estimated 262 PSMs with q<0.05 INFO: Iteration 9: Estimated 262 PSMs with q<0.05 INFO: Iteration 10: Estimated 262 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: 0.4736 -0.4971 -0.6124 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.1632 -0.2216 -0.0737 abs_ppm INFO: -0.5193 -0.5650 -0.5351 isotope_errors INFO: 0.2085 -0.0957 -0.1833 log10_evalue INFO: -0.1615 0.0872 0.2086 hyperscore INFO: -0.2007 -0.0169 0.1064 delta_hyperscore INFO: 0.6232 0.8256 0.4387 matched_ion_num INFO: -0.2065 -0.1444 -0.0074 complementary_ions INFO: 0.7309 0.3206 -0.6541 ion_series INFO: 0.2592 0.0387 -0.1949 weighted_average_abs_fragment_ppm INFO: 0.5967 1.0848 0.5348 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: -0.0168 -0.0759 -0.0640 Charge2 INFO: 0.0291 0.0875 0.0747 Charge3 INFO: -0.0808 -0.0737 -0.0692 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 1.3223 1.2069 1.1332 m0 INFO: Found 262 test set PSMs with q<0.05. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 262 target PSMs and 7 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 192 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 1.1230 cpu seconds or 1 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 1.25 s INFO: Finished crux percolator. INFO: Return Code:0 Existing files will be overwritten. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0014-23125-B1-ALL-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:52 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0014-23125-B1-ALL-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 231 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 229 positives and 2 negatives, size ratio=114.5 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 3 as initial direction. Could separate 150 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 1 as initial direction. Could separate 153 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 1 as initial direction. Could separate 153 training set positives with q<0.01 in that direction. INFO: Found 229 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0080 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 229 PSMs with q<0.05 INFO: Iteration 2: Estimated 229 PSMs with q<0.05 INFO: Iteration 3: Estimated 229 PSMs with q<0.05 INFO: Iteration 4: Estimated 229 PSMs with q<0.05 INFO: Iteration 5: Estimated 229 PSMs with q<0.05 INFO: Iteration 6: Estimated 229 PSMs with q<0.05 INFO: Iteration 7: Estimated 229 PSMs with q<0.05 INFO: Iteration 8: Estimated 229 PSMs with q<0.05 INFO: Iteration 9: Estimated 229 PSMs with q<0.05 INFO: Iteration 10: Estimated 229 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: -0.2598 -0.4249 0.2913 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.4921 -0.2923 -0.2618 abs_ppm INFO: 0.3648 0.3277 -0.0761 isotope_errors INFO: -0.1924 -0.0989 0.0156 log10_evalue INFO: 0.1972 0.2269 -0.0183 hyperscore INFO: 0.0915 0.2304 0.0153 delta_hyperscore INFO: 0.4533 0.4662 0.0267 matched_ion_num INFO: -0.6140 -0.7796 -0.1193 complementary_ions INFO: 0.3565 0.3445 0.0438 ion_series INFO: -0.0805 0.0696 -0.0304 weighted_average_abs_fragment_ppm INFO: 0.0266 -0.0640 0.0837 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: 0.0546 -0.0943 0.2132 Charge2 INFO: -0.0546 0.0943 -0.2132 Charge3 INFO: 0.0000 0.0000 0.0000 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 1.1590 1.2136 1.0644 m0 INFO: Found 229 test set PSMs with q<0.05. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 229 target PSMs and 2 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 165 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 1.2740 cpu seconds or 1 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 1.39 s INFO: Finished crux percolator. INFO: Return Code:0 Existing files will be overwritten. INFO: CPU: LAPTOP-KAC6ORC5 INFO: Crux version: 4.1 INFO: Thu 02/22/2024 INFO: Beginning percolator. INFO: Percolator version 3.05.nightly-137-e806a0c5, Build Date Oct 8 2021 22:15:04 INFO: Copyright (c) 2006-9 University of Washington. All rights reserved. INFO: Written by Lukas Käll (lukall@u.washington.edu) in the INFO: Department of Genome Sciences at the University of Washington. INFO: Issued command: INFO: percolator --results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.peptides.txt --decoy-results-peptides F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.peptides.txt --results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.target.psms.txt --decoy-results-psms F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\crux-output/percolator.decoy.psms.txt --verbose 2 --protein-decoy-pattern DECOY_ --seed 1 --subset-max-train 0 --trainFDR 0.01 --testFDR 0.05 --maxiter 10 --search-input auto --no-schema-validation --protein-enzyme trypsin --post-processing-tdc F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0016-23125-A1-ALL-diaumpire.fixed.pin INFO: Started Thu Feb 22 00:04:54 2024 INFO: Hyperparameters: selectionFdr=0.01, Cpos=0, Cneg=0, maxNiter=10 INFO: Reading tab-delimited input from datafile F:\bugs\wphipps5\mzml_and_fasta_2\mzml_and_fasta\0016-23125-A1-ALL-diaumpire.fixed.pin INFO: Features: INFO: retentiontime rank abs_ppm isotope_errors log10_evalue hyperscore delta_hyperscore matched_ion_num complementary_ions ion_series weighted_average_abs_fragment_ppm peptide_length ntt nmc Charge1 Charge2 Charge3 Charge4 Charge5 Charge6 Charge7 INFO: Found 232 PSMs INFO: Concatenated search input detected and --post-processing-tdc flag set. Applying target-decoy competition on Percolator scores. INFO: Train/test set contains 224 positives and 8 negatives, size ratio=28 and pi0=1 INFO: Warning : the number of negative samples read is too small to perform a correct classification. INFO: INFO: Selecting Cpos by cross-validation. INFO: Selecting Cneg by cross-validation. INFO: Split 1: Selected feature 5 as initial direction. Could separate 119 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 123 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 5 as initial direction. Could separate 132 training set positives with q<0.01 in that direction. INFO: Found 210 test set positives with q<0.05 in initial direction INFO: Reading in data and feature calculation took 0.0100 cpu seconds or 0 seconds wall clock time. INFO: ---Training with Cpos selected by cross validation, Cneg selected by cross validation, initial_fdr=0.01, fdr=0.01 INFO: Iteration 1: Estimated 219 PSMs with q<0.05 INFO: Iteration 2: Estimated 223 PSMs with q<0.05 INFO: Iteration 3: Estimated 223 PSMs with q<0.05 INFO: Iteration 4: Estimated 223 PSMs with q<0.05 INFO: Iteration 5: Estimated 223 PSMs with q<0.05 INFO: Iteration 6: Estimated 223 PSMs with q<0.05 INFO: Iteration 7: Estimated 223 PSMs with q<0.05 INFO: Iteration 8: Estimated 223 PSMs with q<0.05 INFO: Iteration 9: Estimated 223 PSMs with q<0.05 INFO: Iteration 10: Estimated 223 PSMs with q<0.05 INFO: Learned normalized SVM weights for the 3 cross-validation splits: INFO: Split1 Split2 Split3 FeatureName INFO: 0.2630 -0.3651 0.1157 retentiontime INFO: 0.0000 0.0000 0.0000 rank INFO: -0.3709 -0.0041 -0.2333 abs_ppm INFO: -0.6289 -0.3313 0.1118 isotope_errors INFO: 0.2822 -0.3232 -0.6771 log10_evalue INFO: -0.1175 0.3396 0.7010 hyperscore INFO: -0.1369 0.1881 0.3998 delta_hyperscore INFO: 0.6676 0.5795 0.2723 matched_ion_num INFO: 0.3063 -0.1104 -0.7945 complementary_ions INFO: 0.6472 0.6449 0.1945 ion_series INFO: 0.0109 0.4046 -0.1060 weighted_average_abs_fragment_ppm INFO: 0.8210 0.2329 -0.1073 peptide_length INFO: 0.0000 0.0000 0.0000 ntt INFO: 0.0000 0.0000 0.0000 nmc INFO: 0.0000 0.0000 0.0000 Charge1 INFO: -0.1163 -0.2087 -0.2682 Charge2 INFO: 0.1226 0.2671 0.2789 Charge3 INFO: -0.0071 -0.1550 -0.0051 Charge4 INFO: 0.0000 0.0000 0.0000 Charge5 INFO: 0.0000 0.0000 0.0000 Charge6 INFO: 0.0000 0.0000 0.0000 Charge7 INFO: 1.2365 1.1701 1.2855 m0 INFO: Found 204 test set PSMs with q<0.05. INFO: Less identifications (204 vs 210) after percolator processing than before processing INFO: Resetting score vector, using default vector. Use --override flag to prevent this. INFO: Split 1: Selected feature 5 as initial direction. Could separate 119 training set positives with q<0.01 in that direction. INFO: Split 2: Selected feature 8 as initial direction. Could separate 123 training set positives with q<0.01 in that direction. INFO: Split 3: Selected feature 5 as initial direction. Could separate 132 training set positives with q<0.01 in that direction. INFO: Selected best-scoring PSM per scan+expMass (target-decoy competition): 224 target PSMs and 8 decoy PSMs. INFO: Multiple instantiations of Normalizer INFO: Tossing out "redundant" PSMs keeping only the best scoring PSM for each unique peptide. INFO: Calculating q values. INFO: Final list yields 109 target peptides with q<0.05. INFO: Calculating posterior error probabilities (PEPs). INFO: Processing took 2.5400 cpu seconds or 2 seconds wall clock time. INFO: Multiple instantiations of Normalizer INFO: Elapsed time: 2.66 s INFO: Finished crux percolator. INFO: Return Code:0 Search done.