Hi, I can't make attachment with my last email, so I send one more about my error messages.
1. The data folder only contain one mzXML file and its mascot.dat file (searched again used current SwissProt 57.12 database in our in-house Mascot server) got: c:/Inetpub/wwwroot/ISB/data/SSM4-1/F030337.pep.xml [ Unreadable! ] run_in c:/Inetpub/wwwroot/ISB/data/SSM4-1; c:\Inetpub\tpp-bin \Mascot2XML c:/Inetpub/wwwroot/ISB/data/SSM4-1/F030337.dat -Dc:/ Inetpub/wwwroot/ISB/data/SwissProt_57.12.fasta -Etrypsin ________________________________________ filepath: c:/Inetpub/wwwroot/ISB/data/SSM4-1/, extn: F030337 A stored as 71.0371 B stored as 114.535 C stored as 103.009 D stored as 115.027 E stored as 129.043 F stored as 147.068 G stored as 57.0215 H stored as 137.059 I stored as 113.084 J stored as 0 K stored as 128.095 L stored as 113.084 M stored as 131.04 N stored as 114.043 O stored as 0 P stored as 97.0528 Q stored as 128.059 R stored as 156.101 S stored as 87.032 T stored as 101.048 U stored as 150.954 V stored as 99.0684 W stored as 186.079 X stored as 111 Y stored as 163.063 Z stored as 128.551 c stored as 17.0027 n stored as 1.00782 variable modification 1, delta mass 227.127 for ICAT-C (C): residues: C nterm: 0 cterm: 0 protterm: 0 variable modification 2, delta mass 236.157 for ICAT-C:13C(9) (C): residues: C nterm: 0 cterm: 0 protterm: 0 variable modification 3, delta mass 15.9949 for Oxidation (M): residues: M nterm: 0 cterm: 0 protterm: 0 trypsin : cut(KR) nocuts(P) sense(C) command "c:\Inetpub\tpp-bin\Mascot2XML c:/Inetpub/wwwroot/ISB/data/ SSM4-1/F030337.dat -Dc:/Inetpub/wwwroot/ISB/data/SwissProt_57.12.fasta -Etrypsin" failed: Operation not permitted Command FAILED 2. The data fold contain one mzXML file and its Mascot.pepxml file. I directly used “Analysis Pipeline (Mascot) / Analyze Peptides” got c:/Inetpub/wwwroot/ISB/data/SSM_4_1/SSM4-1.pep.shtml [ View ] run_in c:/Inetpub/wwwroot/ISB/data/SSM_4_1; c:\Inetpub\tpp-bin \xinteract -NSSM4-1.pep.xml -p0.05 -l7 -Oi -X-m1.0-nC,9.0 -A-lC-r0.5 c:/Inetpub/wwwroot/ISB/data/SSM_4_1/F028529-2.xml ________________________________________ c:\Inetpub\tpp-bin\xinteract (TPP v4.3 JETSTREAM rev 1, Build 200909091257 (MinGW)) running: "C:/Inetpub/tpp-bin/InteractParser "SSM4-1.pep.xml" "c:/ Inetpub/wwwroot/ISB/data/SSM_4_1/F028529-2.xml" -L"7"" file 1: c:/Inetpub/wwwroot/ISB/data/SSM_4_1/F028529-2.xml processed altogether 337 results results written to file c:/Inetpub/wwwroot/ISB/data/SSM_4_1/ SSM4-1.pep.xml direct your browser to http://localhost/ISB/data/SSM_4_1/SSM4-1.pep.shtml command completed in 1 sec running: "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" (MASCOT) (icat) error: -1.0 ion score command "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" failed: Operation not permitted command "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" exited with non-zero exit code: 1 QUIT - the job is incomplete command "c:\Inetpub\tpp-bin\xinteract -NSSM4-1.pep.xml -p0.05 -l7 -Oi - X-m1.0-nC,9.0 -A-lC-r0.5 c:/Inetpub/wwwroot/ISB/data/SSM_4_1/ F028529-2.xml" failed: Operation not permitted Command FAILED 3. The data fold contain one mzXML file and its Mascot.xml file. I directly used “Analysis Pipeline (Mascot) / Analyze Peptides” got c:/Inetpub/wwwroot/ISB/data/SSM_4_1/SSM4-1.pep.shtml [ View ] CAN NOT open the pepxml viewer in TPP run_in c:/Inetpub/wwwroot/ISB/data/SSM_4_1; c:\Inetpub\tpp-bin \xinteract -NSSM4-1.pep.xml -p0.05 -l7 -Oi -X-m1.0-nC,9.0 -A-lC-r0.5 c:/Inetpub/wwwroot/ISB/data/SSM_4_1/F028529.xml ________________________________________ c:\Inetpub\tpp-bin\xinteract (TPP v4.3 JETSTREAM rev 1, Build 200909091257 (MinGW)) running: "C:/Inetpub/tpp-bin/InteractParser "SSM4-1.pep.xml" "c:/ Inetpub/wwwroot/ISB/data/SSM_4_1/F028529.xml" -L"7"" file 1: c:/Inetpub/wwwroot/ISB/data/SSM_4_1/F028529.xml processed altogether 0 results ERROR: output file created, c:/Inetpub/wwwroot/ISB/data/SSM_4_1/ SSM4-1.pep.xml, appears incomplete. Please check the input files for completeness. results written to file c:/Inetpub/wwwroot/ISB/data/SSM_4_1/ SSM4-1.pep.xml direct your browser to http://localhost/ISB/data/SSM_4_1/SSM4-1.pep.shtml command completed in 0 sec running: "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" MS Instrument info: Manufacturer: UNKNOWN, Model: UNKNOWN, Ionization: UNKNOWN, Analyzer: UNKNOWN, Detector: UNKNOWN error: no peptideprophet data written to file SSM4-1.pep.xml Error: file update failed, check file SSM4-1.pep.xml.tmp.a02524 for completeness command "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" failed: Operation not permitted command "C:/Inetpub/tpp-bin/PeptideProphetParser "SSM4-1.pep.xml" MINPROB=0.05 ICAT" exited with non-zero exit code: 1 QUIT - the job is incomplete command "c:\Inetpub\tpp-bin\xinteract -NSSM4-1.pep.xml -p0.05 -l7 -Oi - X-m1.0-nC,9.0 -A-lC-r0.5 c:/Inetpub/wwwroot/ISB/data/SSM_4_1/ F028529.xml" failed: Operation not permitted Command FAILED Fay -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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