Getting error "Please keep only one intensity of listed features among multiple runs from one sample"
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Sidney Kuo
Feb 13, 2017, 8:14:20 PM2/13/17
to MSstats
Hi, I have been getting this error when I run dataProcess on my data set. The exact error reads:
Please check the listed featurues (QC[+57]IMQHFQPMVYDESR_3_precursor [M+1]_3, QC[+57]IMQHFQPMVYDESR_3_precursor [M+2]_3, QC[+57]IMQHFQPMVYDESR_3_precursor_3, QC[+57]IMQHFQPMVYDESR_3_y10_1, QC[+57]IMQHFQPMVYDESR_3_y13_2, QC[+57]IMQHFQPMVYDESR_3_y3_1, QC[+57]IMQHFQPMVYDESR_3_y4_1, QC[+57]IMQHFQPMVYDESR_3_y7_1, LQNTITEGPK_2_b4_1, LQNTITEGPK_2_b7_1, LQNTITEGPK_2_precursor [M+1]_2, LQNTITEGPK_2_precursor [M+2]_2, LQNTITEGPK_2_precursor_2, LQNTITEGPK_2_y4_1, LQNTITEGPK_2_y5_1, LQNTITEGPK_2_y8_1, TAYSVWDVC[+57]R_2_precursor [M+1]_2, TAYSVWDVC[+57]R_2_precursor [M+2]_2, TAYSVWDVC[+57]R_2_precursor_2, TAYSVWDVC[+57]R_2_y4_1, TAYSVWDVC[+57]R_2_y5_1, TAYSVWDVC[+57]R_2_y6_1, TAYSVWDVC[+57]R_2_y7_1, TAYSVWDVC[+57]R_2_y8_1, AFQSAYPEFSR_2_precursor [M+1]_2, AFQSAYPEFSR_2_precursor [M+2]_2, AFQSAYPEFSR_2_precursor_2, AFQSAYPEFSR_2_y5_1, AFQSAYPEFSR_2_y6_1, AFQSAYPEFSR_2_y7_1, AFQSAYPEFSR_2_y8_1, AFQSAYPEFSR_2_y9_1, AIEMEGLTWGAHQFIPIGFGIK_3_b3_1, AIEMEGLTWGAHQFIPIGFGIK_3_precursor [M+1]_3, AIEMEGLTW... <truncated>Error in dataProcess(raw = ddaMod, skylineReport = T, censoredInt = 0) : Please keep only one intensity of listed features among multiple runs from one sample.
I looked into the part of my table for the first aforementioned peptide and it looks like this:
ProteinName PeptideModifiedSequence PrecursorCharge FragmentIon ProductCharge IsotopeLabelType Condition 37 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 38 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 39 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 40 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 41 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 42 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 43 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time4.8 44 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 45 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 46 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 47 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time4.8 48 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 49 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 50 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 51 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 52 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 53 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 54 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 55 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time4.8 56 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time4.8 57 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 58 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time4.8 59 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 60 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 61 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 62 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 63 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 64 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 65 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time3.2 66 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 67 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time0 68 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 69 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time1.6 70 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 71 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time8 72 R0020C QC[+57]IMQHFQPMVYDESR 3 precursor [M+1] 3 light time6.4 BioReplicate Run Intensity StandardType Truncated 37 strain1 1 4944713 NA False 38 strain2 2 0 NA False 39 strain1 3 6206485 NA False 40 strain1 4 3851125 NA False 41 strain2 5 0 NA False 42 strain1 6 7703605 NA False 43 strain2 7 0 NA False 44 strain2 8 0 NA False 45 strain1 9 14800182 NA False 46 strain2 10 0 NA False 47 strain1 11 2514289 NA False 48 strain1 12 3268872 NA False 49 strain2 13 0 NA False 50 strain1 14 1815011 NA False 51 strain1 15 2384564 NA False 52 strain2 16 0 NA False 53 strain2 17 228541 NA False 54 strain1 18 1549924 NA False 55 strain2 19 0 NA False 56 strain1 20 4862847 NA False 57 strain1 21 8758794 NA False 58 strain2 22 0 NA False 59 strain2 23 0 NA False 60 strain1 24 6574617 NA False 61 strain2 25 0 NA False 62 strain1 26 13445973 NA False 63 strain2 27 0 NA False 64 strain2 28 0 NA False 65 strain1 29 9312392 NA False 66 strain2 30 0 NA False 67 strain1 31 11348069 NA False 68 strain1 32 1212686 NA False 69 strain2 33 0 NA False 70 strain1 34 1256913 NA False 71 strain2 35 0 NA False 72 strain2 36 0 NA False
Am I enumerating the features incorrectly? It does not seem to me that I have multiple intensities per run.
Thanks.
Sidney Kuo
Feb 15, 2017, 5:28:22 PM2/15/17
to MSstats
Update: The script seems to be working again even though nothing was changed.
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