ERROR XTandemAdapter       0:43:0:45  Failing process stdout: [Debug level (after ini file): 1000, Value of string option 'no_progress': 0, Value of string option 'in': C:\Users\sachs\Google Drive\Release 2.5 Tutorials StickMaster\Example_Data\Introduction\datasets\small\velos005614.mzML, Checking input file 'C:\Users\sachs\Google Drive\Release 2.5 Tutorials StickMaster\Example_Data\Introduction\datasets\small\velos005614.mzML', Value of string option 'out': C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\0_0_XTandemAdapter_0\velos005614.idXML, Checking output file 'C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\0_0_XTandemAdapter_0\velos005614.idXML', Value of string option 'xml_out': C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\1_0_XTandemAdapter_1\velos005614.xml, <Checking output file 'C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\0_0_XTandemAdapter_0\velos005614.idXML'> occurred 2 times, Checking output file 'C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\1_0_XTandemAdapter_1\velos005614.xml', Creating temporary directory 'C:\Users\sachs\AppData\Local\Temp\20200228_105559_DESKTOP-TPBSG5G_20124_1\', <Checking output file 'C:\Users\sachs\AppData\Local\Temp\knime_Example_Proteom72459\fs-ZipLo_0-43-0-3-72462\000\000\1_0_XTandemAdapter_1\velos005614.xml'> occurred 2 times, Value of string option 'database': C:\Users\sachs\Google Drive\Release 2.4 Tutorials StickMaster\Example_Data\Labelfree\databases\s_pyo_sf370_potato_human_target_decoy_with_contaminants.fasta, Parameter '-helphelp' not found., Value of string option '-helphelp': 0, C:\jenkins\ws\openms_release_packaging\9447518b\source\src\openms\source\APPLICATIONS\ConsoleUtils.cpp(91): output shaping: COLUMNS env does not exist!, C:\jenkins\ws\openms_release_packaging\9447518b\source\src\openms\source\APPLICATIONS\ConsoleUtils.cpp(136): Console width could not be determined or is smaller than 10. Not using output shaping!, XTandemAdapter took 0.21 s (wall), 0.02 s (CPU), 0.02 s (system), 0.00 s (user)., Peak Memory Usage: 22 MB, Keeping temporary files in directory 'C:\Users\sachs\AppData\Local\Temp\20200228_105559_DESKTOP-TPBSG5G_20124_1\'. Set debug level to 2 or lower to remove them.]
ERROR XTandemAdapter       0:43:0:45  G)', 'Oxidation (D)', 'Oxidation (F)', 'Oxidation (H)', 'Oxidation (K)', 'Oxidation (M)', 'Oxidation (N)', 'Oxidation (P)', 'Oxidation (R)', 'Oxidation (U)', 'Oxidation (W)', 'Oxidation (Y)', 'Oxidation+NEM (C)', 'OxLysBiotin (K)', 'OxLysBiotinRed (K)', 'OxProBiotin (P)', 'OxProBiotinRed (P)', 'Palmitoleyl (C)', 'Palmitoleyl (S)', 'Palmitoleyl (T)', 'Palmitoyl (C)', 'Palmitoyl (K)', 'Palmitoyl (Protein N-term)', 'Palmitoyl (S)', 'Palmitoyl (T)', 'PEITC (C)', 'PEITC (K)', 'PEITC (N-term)', 'Pentose (S)', 'Pentose (T)', 'Pentylamine (Q)', 'PEO-Iodoacetyl-LC-Biotin (C)', 'PET (S)', 'PET (T)', 'Phe->Ala (F)', 'Phe->Arg (F)', 'Phe->Asn (F)', 'Phe->Asp (F)', 'Phe->CamCys (F)', 'Phe->Cys (F)', 'Phe->Gln (F)', 'Phe->Glu (F)', 'Phe->Gly (F)', 'Phe->His (F)', 'Phe->Lys (F)', 'Phe->Met (F)', 'Phe->Pro (F)', 'Phe->Ser (F)', 'Phe->Thr (F)', 'Phe->Trp (F)', 'Phe->Tyr (F)', 'Phe->Val (F)', 'Phe->Xle (F)', 'Phenylisocyanate (N-term)', 'Phenylisocyanate:2H(5) (N-term)', 'phenylsulfonylethyl (C)', 'Phospho (C)', 'Phospho (D)', 'Phospho (H)', 'Phospho (K)', 'Phospho (R)', 'Phospho (S)', 'Phospho (T)', 'Phospho (Y)', 'Phosphoadenosine (H)', 'Phosphoadenosine (K)', 'Phosphoadenosine (T)', 'Phosphoadenosine (Y)', 'Phosphogluconoylation (K)', 'Phosphogluconoylation (N-term)', 'Phosphoguanosine (H)', 'Phosphoguanosine (K)', 'PhosphoHex (S)', 'PhosphoHex (T)', 'PhosphoHex(2) (N)', 'PhosphoHex(2) (S)', 'PhosphoHex(2) (T)', 'PhosphoHexNAc (S)', 'PhosphoHexNAc (T)', 'Phosphopantetheine (S)', 'Phosphopropargyl (S)', 'Phosphopropargyl (T)', 'Phosphopropargyl (Y)', 'phosphoRibosyl (D)', 'phosphoRibosyl (E)', 'phosphoRibosyl (R)', 'PhosphoribosyldephosphoCoA (S)', 'PhosphoUridine (H)', 'PhosphoUridine (Y)', 'Phycocyanobilin (C)', 'Phycoerythrobilin (C)', 'Phytochromobilin (C)', 'Piperidine (K)', 'Piperidine (N-term)', 'Pro->Ala (P)', 'Pro->Arg (P)', 'Pro->Asn (P)', 'Pro->Asp (P)', 'Pro->Cys (P)', 'Pro->Gln (P)', 'Pro->Glu (P)', 'Pro->Gly (P)', 'Pro->His (P)', 'Pro->Lys (P)', 'Pro->Met (P)', 'Pro->Phe (P)', 'Pro->pyro-Glu (P)', 'Pro->Pyrrolidinone (P)', 'Pro->Pyrrolidone (P)', 'Pro->Ser (P)', 'Pro->Thr (P)', 'Pro->Trp (P)', 'Pro->Tyr (P)', 'Pro->Val (P)', 'Pro->Xle (P)', 'probiotinhydrazide (P)', 'Propargylamine (C-term)', 'Propargylamine (D)', 'Propargylamine (E)', 'Propionamide (C)', 'Propionamide (K)', 'Propionamide (N-term)', 'Propionamide:2H(3) (C)', 'Propionyl (K)', 'Propionyl (N-term)', 'Propionyl (Protein N-term)', 'Propionyl (S)', 'Propionyl (T)', 'Propionyl:13C(3) (K)', 'Propionyl:13C(3) (N-term)', 'Propiophenone (C)', 'Propiophenone (H)', 'Propiophenone (K)', 'Propiophenone (R)', 'Propiophenone (S)', 'Propiophenone (T)', 'Propiophenone (W)', 'Propyl (C-term)', 'Propyl (D)', 'Propyl (E)', 'Propyl (K)', 'Propyl (N-term)', 'Propyl (Protein C-term)', 'Propyl:2H(6) (K)', 'Propyl:2H(6) (N-term)', 'PropylNAGthiazoline (C)', 'PS_Hapten (C)', 'PS_Hapten (H)', 'PS_Hapten (K)', 'pupylation (K)', 'Puromycin (C-term)', 'PyMIC (N-term)', 'PyridoxalPhosphate (K)', 'PyridoxalPhosphateH2 (K)', 'Pyridylacetyl (K)', 'Pyridylacetyl (N-term)', 'Pyridylethyl (C)', 'Pyro-carbamidomethyl (N-term C)', 'pyrophospho (S)', 'pyrophospho (T)', 'PyruvicAcidIminyl (K)', 'PyruvicAcidIminyl (Protein N-term C)', 'PyruvicAcidIminyl (Protein N-term V)', 'QAT (C)', 'QAT:2H(3) (C)', 'QEQTGG (K)', 'QQQTGG (K)', 'QTGG (K)', 'Quinone (W)', 'Quinone (Y)', 'Retinylidene (K)', 'RNPXL (N-term K)', 'RNPXL (N-term R)', 'RNPXlink1 (C)', 'RNPXlink2 (F)', 'RNPXlink2 (K)', 'RNPXlink2 (L)', 'RNPXlink3 (C)', 'RNPXlink3 (F)', 'RNPXlink4 (C)', 'RNPXlink5 (F)', 'RNPXlink5 (Y)', 's-GlcNAc (S)', 's-GlcNAc (T)', 'Saligenin (H)', 'Saligenin (K)', 'Ser->Ala (S)', 'Ser->Arg (S)', 'Ser->Asn (S)', 'Ser->Asp (S)', 'Ser->Cys (S)', 'Ser->Gln (S)', 'Ser->Glu (S)', 'Ser->Gly (S)', 'Ser->His (S)', 'Ser->LacticAcid (Protein N-term S)', 'Ser->Lys (S)', 'Ser->Met (S)', 'Ser->Phe (S)', 'Ser->Pro (S)', 'Ser->Thr (S)', 'Ser->Trp (S)', 'Ser->Tyr (S)', 'Ser->Val (S)', 'Ser->Xle (S)', 'SMA (K)', 'SMA (N-term)', 'SMCC-maleimide (C)', 'spermidine (Q)', 'spermine (Q)', 'SPITC (K)', 'SPITC (N-term)', 'SPITC:13C(6) (K)', 'SPITC:13C(6) (N-term)', 'Succinyl (K)', 'Succinyl (N-term)', 'Succinyl (Protein N-term)', 'Succinyl:13C(4) (K)', 'Succinyl:13C(4) (N-term)', 'Succinyl:2H(4) (K)', 'Succinyl:2H(4) (N-term)', 'SulfanilicAcid (C-term)', 'SulfanilicAcid (D)', 'SulfanilicAcid (E)', 'SulfanilicAcid:13C(6) (C-term)', 'SulfanilicAcid:13C(6) (D)', 'SulfanilicAcid:13C(6) (E)', 'Sulfide (C)', 'Sulfide (D)', 'Sulfide (W)', 'Sulfo (C)', 'Sulfo (S)', 'Sulfo (T)', 'Sulfo (Y)', 'sulfo+amino (Y)', 'Sulfo-NHS-LC-LC-Biotin (K)', 'Sulfo-NHS-LC-LC-Biotin (N-term)', 'SulfoGMBS (C)', 'SulfurDioxide (C)', 'SUMO2135 (K)', 'SUMO3549 (K)', 'TAMRA-FP (S)', 'TAMRA-FP (Y)', 'Thiadiazole (C)', 'Thiazolidine (N-term C)', 'Thioacyl (K)', 'Thioacyl (X)', 'thioacylPA (K)', 'Thiophos-S-S-biotin (S)', 'Thiophos-S-S-biotin (T)', 'Thiophos-S-S-biotin (Y)', 'Thiophospho (S)', 'Thiophospho (T)', 'Thiophospho (Y)', 'Thr->Ala (T)', 'Thr->Arg (T)', 'Thr->Asn (T)', 'Thr->Asp (T)', 'Thr->Cys (T)', 'Thr->Gln (T)', 'Thr->Glu (T)', 'Thr->Gly (T)', 'Thr->His (T)', 'Thr->Lys (T)', 'Thr->Met (T)', 'Thr->Phe (T)', 'Thr->Pro (T)', 'Thr->Ser (T)', 'Thr->Trp (T)', 'Thr->Tyr (T)', 'Thr->Val (T)', 'Thr->Xle (T)', 'Thrbiotinhydrazide (T)', 'Thyroxine (Y)', 'TMAB (K)', 'TMAB (N-term)', 'TMAB:2H(9) (K)', 'TMAB:2H(9) (N-term)', 'TMPP-Ac (N-term)', 'TMT (H)', 'TMT (K)', 'TMT (N-term)', 'TMT (Protein N-term)', 'TMT (S)', 'TMT (T)', 'TMT2plex (H)', 'TMT2plex (K)', 'TMT2plex (N-term)', 'TMT2plex (Protein N-term)', 'TMT2plex (S)', 'TMT2plex (T)', 'TMT6plex (H)', 'TMT6plex (K)', 'TMT6plex (N-term)', 'TMT6plex (Protein N-term)', 'TMT6plex (S)', 'TMT6plex (T)', 'TNBS (K)', 'TNBS (N-term)', 'trifluoro (L)', 'Triiodo (Y)', 'Triiodothyronine (Y)', 'Trimethyl (K)', 'Trimethyl (Protein N-term A)', 'Trimethyl (R)', 'Trimethyl:13C(3)2H(9) (K)', 'Trimethyl:13C(3)2H(9) (R)', 'Trimethyl:2H(9) (K)', 'Trimethyl:2H(9) (R)', 'Trioxidation (C)', 'Trioxidation (W)', 'Trioxidation (Y)', 'Tripalmitate (Protein N-term C)', 'Tris (N)', 'Triton (C-term)', 'Triton (N-term)', 'Trp->Ala (W)', 'Trp->Arg (W)', 'Trp->Asn (W)', 'Trp->Asp (W)', 'Trp->Cys (W)', 'Trp->Gln (W)', 'Trp->Glu (W)', 'Trp->Gly (W)', 'Trp->His (W)', 'Trp->Hydroxykynurenin (W)', 'Trp->Kynurenin (W)', 'Trp->Lys (W)', 'Trp->Met (W)', 'Trp->Oxolactone (W)', 'Trp->Phe (W)', 'Trp->Pro (W)', 'Trp->Ser (W)', 'Trp->Thr (W)', 'Trp->Tyr (W)', 'Trp->Val (W)', 'Trp->Xle (W)', 'Tween20 (N-term)', 'Tween80 (C-term)', 'Tyr->Ala (Y)', 'Tyr->Arg (Y)', 'Tyr->Asn (Y)', 'Tyr->Asp (Y)', 'Tyr->Cys (Y)', 'Tyr->Dha (Y)', 'Tyr->Gln (Y)', 'Tyr->Glu (Y)', 'Tyr->Gly (Y)', 'Tyr->His (Y)', 'Tyr->Lys (Y)', 'Tyr->Met (Y)', 'Tyr->Phe (Y)', 'Tyr->Pro (Y)', 'Tyr->Ser (Y)', 'Tyr->Thr (Y)', 'Tyr->Trp (Y)', 'Tyr->Val (Y)', 'Tyr->Xle (Y)', 'Ub-amide (C)', 'Ub-Br2 (C)', 'Ub-fluorescein (C)', 'Ub-VME (C)', 'UgiJoullie (D)', 'UgiJoullie (E)', 'UgiJoullieProGly (D)', 'UgiJoullieProGly (E)', 'UgiJoullieProGlyProGly (D)', 'UgiJoullieProGlyProGly (E)', 'Val->Ala (V)', 'Val->Arg (V)', 'Val->Asn (V)', 'Val->Asp (V)', 'Val->Cys (V)', 'Val->Gln (V)', 'Val->Glu (V)', 'Val->Gly (V)', 'Val->His (V)', 'Val->Lys (V)', 'Val->Met (V)', 'Val->Phe (V)', 'Val->Pro (V)', 'Val->Ser (V)', 'Val->Thr (V)', 'Val->Trp (V)', 'Val->Tyr (V)', 'Val->Xle (V)', 'VFQQQTGG (K)', 'VIEVYQEQTGG (K)', 'Withaferin (C)', 'Xle->Ala (I)', 'Xle->Ala (L)', 'Xle->Arg (I)', 'Xle->Arg (L)', 'Xle->Asn (I)', 'Xle->Asn (L)', 'Xle->Asp (I)', 'Xle->Asp (L)', 'Xle->Cys (I)', 'Xle->Cys (L)', 'Xle->Gln (I)', 'Xle->Gln (L)', 'Xle->Glu (I)', 'Xle->Glu (L)', 'Xle->Gly (I)', 'Xle->Gly (L)', 'Xle->His (I)', 'Xle->His (L)', 'Xle->Lys (I)', 'Xle->Lys (L)', 'Xle->Met (I)', 'Xle->Met (L)', 'Xle->Phe (I)', 'Xle->Phe (L)', 'Xle->Pro (I)', 'Xle->Pro (L)', 'Xle->Ser (I)', 'Xle->Ser (L)', 'Xle->Thr (I)', 'Xle->Thr (L)', 'Xle->Trp (I)', 'Xle->Trp (L)', 'Xle->Tyr (I)', 'Xle->Tyr (L)', 'Xle->Val (I)', 'Xle->Val (L)', 'Xlink:B10621 (C)', 'Xlink:DMP (K)', 'Xlink:DMP (Protein N-term)', 'Xlink:DMP-de (K)', 'Xlink:DMP-de (Protein N-term)', 'Xlink:DMP-s (K)', 'Xlink:DMP-s (Protein N-term)', 'Xlink:DSS (K)', 'Xlink:DSS (Protein N-term)', 'Xlink:DSS-NH2 (K)', 'Xlink:DSS-NH2 (Protein N-term)', 'Xlink:DST (K)', 'Xlink:DST (Protein N-term)', 'Xlink:DTSSP (K)', 'Xlink:DTSSP (Protein N-term)', 'Xlink:EGS (K)', 'Xlink:EGS (Protein N-term)', 'Xlink:EGScleaved (K)', 'Xlink:EGScleaved (Protein N-term)', 'Xlink:SMCC (C)', 'Xlink:SSD (K)', 'ZGB (K)', 'ZGB (N-term)'),   -minimum_fragment_mz <number>      Minimum fragment m/z (default: '150.0'),   -enzyme <choice>                   The enzyme used for peptide digestion. (default: 'Trypsin' valid: 'unspecific cleavage', 'V8-E', 'Trypsin', 'Asp-N', 'Alpha-lytic protease', 'Lys-N', 'glutamyl endopeptidase', '2-iodobenzoate', 'Lys-C', 'CNBr', 'leukocyte elastase', 'PepsinA', 'Formic_acid', 'Chymotrypsin/P', 'Lys-C/P', 'Asp-N/B', 'TrypChymo', 'Asp-N_ambic', 'Arg-C/P', 'Chymotrypsin', 'Trypsin/P', 'V8-DE', 'Arg-C'),   -missed_cleavages <number>         Number of possible cleavage sites missed by the enzyme (default: '1'),   -semi_cleavage                     Require only peptide end to have a valid cleavage site, not both.,   -output_results <choice>           Which hits should be reported. All, valid ones (passing the E-Value threshold), or stochastic (failing the threshold) (default: 'all' valid: 'all', 'valid', 'stochastic'),   -max_valid_expect <value>          Maximal E-Value of a hit to be reported (only evaluated if 'output_result' is 'valid' or 'stochastic') (default: '0.1'),                                      , Common TOPP options:,   -ini <file>                        Use the given TOPP INI file,   -threads <n>                       Sets the number of threads allowed to be used by the TOPP tool (default: '1'),   -write_ini <file>                  Writes the default configuration file,   --help                             Shows options,   --helphelp                         Shows all options (including advanced), ]
ERROR XTandemAdapter       0:43:0:45  Return code: 6
ERROR XTandemAdapter       0:43:0:45  Execute failed: Failed to execute node XTandemAdapter