psm_type = pFind3
mode = pDeep
num_psm_file = 1
psm_file1 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/pFind.spectra 
ms2_type = pf2
num_ms2_file = 24
ms2_file1 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1906_293T_proteinID_01A_QE3_122212_HCDFT.pf2
ms2_file2 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1922_293T_proteinID_02A_QE3_122212_HCDFT.pf2
ms2_file3 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1923_293T_proteinID_03A_QE3_122212_HCDFT.pf2
ms2_file4 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1924_293T_proteinID_04A_QE3_122212_HCDFT.pf2
ms2_file5 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1925_293T_proteinID_05A_QE3_122212_HCDFT.pf2
ms2_file6 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1926_293T_proteinID_06A_QE3_122212_HCDFT.pf2
ms2_file7 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1927_293T_proteinID_07A_QE3_122212_HCDFT.pf2
ms2_file8 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1928_293T_proteinID_08A_QE3_122212_HCDFT.pf2
ms2_file9 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1929_293T_proteinID_09A_QE3_122212_HCDFT.pf2
ms2_file10 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1930_293T_proteinID_10A_QE3_122212_HCDFT.pf2
ms2_file11 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1931_293T_proteinID_11A_QE3_122212_HCDFT.pf2
ms2_file12 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1932_293T_proteinID_12A_QE3_122212_HCDFT.pf2
ms2_file13 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1937_293T_proteinID_01B_QE3_122212_HCDFT.pf2
ms2_file14 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1938_293T_proteinID_02B_QE3_122212_HCDFT.pf2
ms2_file15 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1939_293T_proteinID_03B_QE3_122212_HCDFT.pf2
ms2_file16 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1940_293T_proteinID_04B_QE3_122212_HCDFT.pf2
ms2_file17 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1941_293T_proteinID_05B_QE3_122212_HCDFT.pf2
ms2_file18 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1942_293T_proteinID_06B_QE3_122212_HCDFT.pf2
ms2_file19 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1943_293T_proteinID_07B_QE3_122212_HCDFT.pf2
ms2_file20 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1944_293T_proteinID_08B_QE3_122212_HCDFT.pf2
ms2_file21 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1945_293T_proteinID_09B_QE3_122212_HCDFT.pf2
ms2_file22 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1946_293T_proteinID_10B_QE3_122212_HCDFT.pf2
ms2_file23 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1947_293T_proteinID_11B_QE3_122212_HCDFT.pf2
ms2_file24 = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/raw/b1948_293T_proteinID_12B_QE3_122212_HCDFT.pf2
output_folder = /home/pfind/Documents/pDeep/pDeepMS2/datasets/Gygi-HEK293-NBT-2015-QE-25/plabel
NH3_loss = true
H2O_loss = true
Mod_loss = true
num_ion_type = 2
iontype1 = b|N_term|0
iontype2 = y|C_term|0
num_new_aa = 0
aa1 = C|160.030654|C
aa2 = n|115.026946|N
aa3 = m|147.035405|M