# ------------------------------------------------------------------
# SearchGUI 3.3.7 Report File
#
# Originally saved by: U048364 @ BEL035662
# on: 10 nov. 2018, 00:25
# as: SearchGUI Report 2018-11-10 00.25.43.html
# ------------------------------------------------------------------
Fri Nov 09 19:11:27 CET 2018 Andromeda configuration.
Fri Nov 09 19:11:27 CET 2018 Indexing spectrum files.
Fri Nov 09 19:11:28 CET 2018 Extracting search settings.
Fri Nov 09 19:11:28 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf).... loaded.
Spectra matching criteria = 6934
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ........ done.
unanticipated cleavage ........ done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2.3.4.
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 1
Fri Nov 09 19:11:45 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf (16.8 seconds).
Fri Nov 09 19:11:45 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.70 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 5.30 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-7282 (total: 7283)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 1 / 12 tasks, 30.73% 38.22 seconds elapsed
Search progress: 2 / 12 tasks, 31.96% 39.83 seconds elapsed
Search progress: 3 / 12 tasks, 35.59% 44.40 seconds elapsed
Search progress: 3 / 12 tasks, 29.57% 45.85 seconds elapsed
Search progress: 4 / 12 tasks, 50.78% 1.00 minutes elapsed
Search progress: 5 / 11 tasks, 67.08% 1.39 minutes elapsed
Search progress: 6 / 12 tasks, 68.56% 1.59 minutes elapsed
Search progress: 7 / 12 tasks, 73.39% 1.67 minutes elapsed
Search progress: 8 / 12 tasks, 76.06% 1.70 minutes elapsed
Search progress: 8 / 12 tasks, 93.03% 2.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.53% 2.18 minutes elapsed
Search progress: 10 / 12 tasks, 98.33% 2.35 minutes elapsed
Search progress: 10 / 12 tasks, 91.09% 2.44 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 2.50 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 2.50 minutes elapsed
Writing results...
Writing results finished (elapsed time: 10.14 sec)
MS-GF+ complete (total elapsed time: 165.41 sec)
Fri Nov 09 19:14:30 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf (2 minutes 46.0 seconds).
Fri Nov 09 19:14:31 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 07:14:31 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf
- Load spectra: 6901
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 07:15:19 PM, 0m:48s
Fri Nov 09 19:15:19 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf (48.5 seconds).
Fri Nov 09 19:15:19 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf for Andromeda.
Fri Nov 09 19:15:25 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 19:19:21 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction1.apl (3 minutes 56.0 seconds).
Fri Nov 09 19:19:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17446
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3381
Fri Nov 09 19:20:16 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf (54.1 seconds).
Fri Nov 09 19:20:16 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.39 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 10.45 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17655 (total: 17656)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 30.19% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.96% 1.04 minutes elapsed
Search progress: 1 / 12 tasks, 24.20% 1.15 minutes elapsed
Search progress: 2 / 12 tasks, 27.57% 1.21 minutes elapsed
Search progress: 4 / 12 tasks, 36.41% 1.22 minutes elapsed
Search progress: 4 / 12 tasks, 62.75% 2.00 minutes elapsed
Search progress: 4 / 12 tasks, 55.37% 2.09 minutes elapsed
Search progress: 6 / 12 tasks, 68.37% 2.35 minutes elapsed
Search progress: 7 / 12 tasks, 72.01% 2.49 minutes elapsed
Search progress: 8 / 12 tasks, 74.83% 2.50 minutes elapsed
Search progress: 8 / 12 tasks, 94.89% 3.00 minutes elapsed
Search progress: 8 / 12 tasks, 88.11% 3.21 minutes elapsed
Search progress: 10 / 12 tasks, 98.73% 3.60 minutes elapsed
Search progress: 11 / 12 tasks, 99.56% 3.67 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.68 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.68 minutes elapsed
Writing results...
Writing results finished (elapsed time: 25.02 sec)
MS-GF+ complete (total elapsed time: 256.64 sec)
Fri Nov 09 19:24:33 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf (4 minutes 17.0 seconds).
Fri Nov 09 19:24:33 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 07:24:33 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf
- Load spectra: 17444
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 07:27:18 PM, 2m:45s
Fri Nov 09 19:27:18 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf (2 minutes 45.0 seconds).
Fri Nov 09 19:27:19 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf for Andromeda.
Fri Nov 09 19:27:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 19:29:39 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction10.apl (1 minute 60.0 seconds).
Fri Nov 09 19:29:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17267
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3407
Fri Nov 09 19:30:35 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf (56.1 seconds).
Fri Nov 09 19:30:35 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.98 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.14 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17527 (total: 17528)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.83% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.45% 1.03 minutes elapsed
Search progress: 1 / 12 tasks, 27.12% 1.30 minutes elapsed
Search progress: 3 / 12 tasks, 36.92% 1.33 minutes elapsed
Search progress: 3 / 12 tasks, 29.18% 1.33 minutes elapsed
Search progress: 4 / 12 tasks, 62.04% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.16% 2.12 minutes elapsed
Search progress: 6 / 12 tasks, 70.13% 2.47 minutes elapsed
Search progress: 7 / 12 tasks, 73.20% 2.61 minutes elapsed
Search progress: 8 / 12 tasks, 76.85% 2.71 minutes elapsed
Search progress: 8 / 12 tasks, 90.67% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.44% 3.45 minutes elapsed
Search progress: 10 / 12 tasks, 98.92% 3.93 minutes elapsed
Search progress: 11 / 12 tasks, 99.52% 3.99 minutes elapsed
Search progress: 11 / 12 tasks, 99.57% 4.00 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.01 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.01 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.50 sec)
MS-GF+ complete (total elapsed time: 282.29 sec)
Fri Nov 09 19:35:18 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf (4 minutes 43.0 seconds).
Fri Nov 09 19:35:18 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 07:35:19 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf
- Load spectra: 17266
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 07:38:24 PM, 3m:5s
Fri Nov 09 19:38:24 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf (3 minutes 5.0 seconds).
Fri Nov 09 19:38:24 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf for Andromeda.
Fri Nov 09 19:38:49 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 19:41:18 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction11.apl (2 minutes 28.0 seconds).
Fri Nov 09 19:41:18 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17222
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3346
Fri Nov 09 19:42:40 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf (1 minute 22.0 seconds).
Fri Nov 09 19:42:40 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 5.70 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 15.74 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17524 (total: 17525)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.85% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.61% 1.04 minutes elapsed
Search progress: 2 / 12 tasks, 35.28% 1.24 minutes elapsed
Search progress: 3 / 12 tasks, 35.74% 1.25 minutes elapsed
Search progress: 3 / 12 tasks, 28.10% 1.30 minutes elapsed
Search progress: 4 / 12 tasks, 61.87% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.62% 2.24 minutes elapsed
Search progress: 6 / 12 tasks, 68.19% 2.50 minutes elapsed
Search progress: 7 / 12 tasks, 71.48% 2.64 minutes elapsed
Search progress: 8 / 12 tasks, 77.78% 2.80 minutes elapsed
Search progress: 8 / 12 tasks, 88.42% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.82% 3.62 minutes elapsed
Search progress: 9 / 12 tasks, 98.26% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.79% 4.03 minutes elapsed
Search progress: 11 / 12 tasks, 99.56% 4.14 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Writing results...
Writing results finished (elapsed time: 32.14 sec)
MS-GF+ complete (total elapsed time: 297.48 sec)
Fri Nov 09 19:47:38 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf (4 minutes 58.0 seconds).
Fri Nov 09 19:47:38 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 07:47:39 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf
- Load spectra: 17221
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 07:50:52 PM, 3m:13s
Fri Nov 09 19:50:52 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf (3 minutes 13.0 seconds).
Fri Nov 09 19:50:52 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf for Andromeda.
Fri Nov 09 19:51:18 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 19:53:42 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction12.apl (2 minutes 24.0 seconds).
Fri Nov 09 19:53:42 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17106
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 234| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3611
Fri Nov 09 19:54:44 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf (1 minute 2.0 seconds).
Fri Nov 09 19:54:44 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.23 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.14 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17399 (total: 17400)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.72% 1.00 minutes elapsed
Search progress: 0 / 12 tasks, 22.24% 1.06 minutes elapsed
Search progress: 2 / 12 tasks, 35.00% 1.23 minutes elapsed
Search progress: 3 / 12 tasks, 36.96% 1.28 minutes elapsed
Search progress: 3 / 12 tasks, 28.40% 1.32 minutes elapsed
Search progress: 4 / 12 tasks, 61.73% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.25% 2.19 minutes elapsed
Search progress: 6 / 12 tasks, 68.24% 2.52 minutes elapsed
Search progress: 7 / 12 tasks, 71.49% 2.65 minutes elapsed
Search progress: 7 / 12 tasks, 73.36% 2.90 minutes elapsed
Search progress: 8 / 12 tasks, 85.73% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.63% 3.60 minutes elapsed
Search progress: 10 / 12 tasks, 98.38% 3.95 minutes elapsed
Search progress: 10 / 12 tasks, 98.56% 4.00 minutes elapsed
Search progress: 11 / 12 tasks, 99.29% 4.10 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.20 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.20 minutes elapsed
Writing results...
Writing results finished (elapsed time: 32.77 sec)
MS-GF+ complete (total elapsed time: 297.31 sec)
Fri Nov 09 19:59:42 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf (4 minutes 58.0 seconds).
Fri Nov 09 19:59:42 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 07:59:42 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf
- Load spectra: 17103
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 08:02:54 PM, 3m:12s
Fri Nov 09 20:02:55 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf (3 minutes 12.0 seconds).
Fri Nov 09 20:02:55 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf for Andromeda.
Fri Nov 09 20:03:23 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 20:05:53 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction13.apl (2 minutes 30.0 seconds).
Fri Nov 09 20:05:53 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf).......... loaded.
Spectra matching criteria = 17855
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3320
Fri Nov 09 20:06:54 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf (1 minute 1.0 seconds).
Fri Nov 09 20:06:54 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.83 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 13.82 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-18876 (total: 18877)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.59% 1.00 minutes elapsed
Search progress: 0 / 12 tasks, 22.71% 1.16 minutes elapsed
Search progress: 2 / 12 tasks, 33.43% 1.30 minutes elapsed
Search progress: 3 / 12 tasks, 35.32% 1.32 minutes elapsed
Search progress: 4 / 12 tasks, 36.50% 1.37 minutes elapsed
Search progress: 4 / 12 tasks, 61.56% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.51% 2.27 minutes elapsed
Search progress: 5 / 12 tasks, 60.10% 2.59 minutes elapsed
Search progress: 7 / 12 tasks, 71.35% 2.69 minutes elapsed
Search progress: 8 / 12 tasks, 76.64% 2.82 minutes elapsed
Search progress: 8 / 12 tasks, 82.11% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.24% 3.85 minutes elapsed
Search progress: 9 / 12 tasks, 97.94% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.77% 4.11 minutes elapsed
Search progress: 11 / 12 tasks, 99.38% 4.15 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.21 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.21 minutes elapsed
Writing results...
Writing results finished (elapsed time: 32.36 sec)
MS-GF+ complete (total elapsed time: 299.08 sec)
Fri Nov 09 20:11:54 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf (4 minutes 59.0 seconds).
Fri Nov 09 20:11:54 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 08:11:54 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf
- Load spectra: 17849
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 08:15:25 PM, 3m:31s
Fri Nov 09 20:15:25 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf (3 minutes 30.0 seconds).
Fri Nov 09 20:15:25 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf for Andromeda.
Fri Nov 09 20:15:54 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 20:18:24 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction14.apl (2 minutes 30.0 seconds).
Fri Nov 09 20:18:25 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16699
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3603
Fri Nov 09 20:19:26 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf (1 minute 1.0 seconds).
Fri Nov 09 20:19:26 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.68 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.44 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17163 (total: 17164)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.49% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.70% 1.10 minutes elapsed
Search progress: 2 / 12 tasks, 35.35% 1.32 minutes elapsed
Search progress: 3 / 12 tasks, 35.81% 1.32 minutes elapsed
Search progress: 3 / 12 tasks, 28.04% 1.35 minutes elapsed
Search progress: 4 / 12 tasks, 61.66% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.33% 2.20 minutes elapsed
Search progress: 6 / 12 tasks, 68.87% 2.54 minutes elapsed
Search progress: 7 / 12 tasks, 71.49% 2.65 minutes elapsed
Search progress: 8 / 13 tasks, 70.74% 2.76 minutes elapsed
Search progress: 8 / 12 tasks, 86.76% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.04% 3.75 minutes elapsed
Search progress: 9 / 12 tasks, 97.98% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.79% 4.10 minutes elapsed
Search progress: 11 / 12 tasks, 99.54% 4.18 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.20 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.20 minutes elapsed
Writing results...
Writing results finished (elapsed time: 30.02 sec)
MS-GF+ complete (total elapsed time: 294.65 sec)
Fri Nov 09 20:24:21 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf (4 minutes 55.0 seconds).
Fri Nov 09 20:24:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 08:24:21 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf
- Load spectra: 16697
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 08:27:53 PM, 3m:32s
Fri Nov 09 20:27:53 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf (3 minutes 32.0 seconds).
Fri Nov 09 20:27:54 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf for Andromeda.
Fri Nov 09 20:28:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 20:31:01 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction15.apl (2 minutes 40.0 seconds).
Fri Nov 09 20:31:01 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16366
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3489
Fri Nov 09 20:32:02 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf (1 minute 356.0 milliseconds).
Fri Nov 09 20:32:02 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.67 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.09 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16885 (total: 16886)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 30.58% 1.00 minutes elapsed
Search progress: 0 / 12 tasks, 22.93% 1.03 minutes elapsed
Search progress: 2 / 12 tasks, 32.50% 1.11 minutes elapsed
Search progress: 2 / 12 tasks, 24.78% 1.13 minutes elapsed
Search progress: 4 / 12 tasks, 36.55% 1.20 minutes elapsed
Search progress: 4 / 12 tasks, 62.65% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.65% 2.09 minutes elapsed
Search progress: 5 / 12 tasks, 59.77% 2.32 minutes elapsed
Search progress: 7 / 12 tasks, 73.98% 2.50 minutes elapsed
Search progress: 7 / 12 tasks, 68.26% 2.57 minutes elapsed
Search progress: 8 / 12 tasks, 93.01% 3.00 minutes elapsed
Search progress: 8 / 12 tasks, 88.84% 3.55 minutes elapsed
Search progress: 10 / 12 tasks, 98.72% 3.82 minutes elapsed
Search progress: 11 / 12 tasks, 99.52% 3.92 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.95 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.95 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.41 sec)
MS-GF+ complete (total elapsed time: 278.53 sec)
Fri Nov 09 20:36:41 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf (4 minutes 39.0 seconds).
Fri Nov 09 20:36:41 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 08:36:42 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf
- Load spectra: 16363
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 08:39:49 PM, 3m:7s
Fri Nov 09 20:39:49 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf (3 minutes 8.0 seconds).
Fri Nov 09 20:39:50 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf for Andromeda.
Fri Nov 09 20:40:14 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 20:42:43 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction16.apl (2 minutes 29.0 seconds).
Fri Nov 09 20:42:43 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16408
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3554
Fri Nov 09 20:43:50 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf (1 minute 7.0 seconds).
Fri Nov 09 20:43:50 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.43 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.78 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16921 (total: 16922)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.82% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.45% 1.03 minutes elapsed
Search progress: 2 / 12 tasks, 35.36% 1.27 minutes elapsed
Search progress: 3 / 12 tasks, 36.10% 1.31 minutes elapsed
Search progress: 4 / 12 tasks, 38.06% 1.32 minutes elapsed
Search progress: 4 / 12 tasks, 61.85% 2.00 minutes elapsed
Search progress: 4 / 12 tasks, 54.50% 2.09 minutes elapsed
Search progress: 6 / 12 tasks, 70.13% 2.50 minutes elapsed
Search progress: 7 / 12 tasks, 75.89% 2.71 minutes elapsed
Search progress: 8 / 12 tasks, 76.56% 2.75 minutes elapsed
Search progress: 8 / 12 tasks, 86.68% 3.00 minutes elapsed
Search progress: 8 / 12 tasks, 88.16% 3.58 minutes elapsed
Search progress: 9 / 12 tasks, 98.15% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.78% 4.05 minutes elapsed
Search progress: 11 / 12 tasks, 99.44% 4.13 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.19 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.19 minutes elapsed
Writing results...
Writing results finished (elapsed time: 31.12 sec)
MS-GF+ complete (total elapsed time: 295.66 sec)
Fri Nov 09 20:48:47 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf (4 minutes 56.0 seconds).
Fri Nov 09 20:48:47 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 08:48:47 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf
- Load spectra: 16406
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 08:51:53 PM, 3m:6s
Fri Nov 09 20:51:53 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf (3 minutes 6.0 seconds).
Fri Nov 09 20:51:54 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf for Andromeda.
Fri Nov 09 20:52:17 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 20:54:57 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction17.apl (2 minutes 40.0 seconds).
Fri Nov 09 20:54:57 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15825
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3335
Fri Nov 09 20:55:57 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf (59.9 seconds).
Fri Nov 09 20:55:57 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.77 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.28 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16377 (total: 16378)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.62% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.75% 1.09 minutes elapsed
Search progress: 2 / 12 tasks, 35.16% 1.27 minutes elapsed
Search progress: 3 / 12 tasks, 35.95% 1.31 minutes elapsed
Search progress: 4 / 12 tasks, 36.59% 1.33 minutes elapsed
Search progress: 4 / 12 tasks, 62.02% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.47% 2.17 minutes elapsed
Search progress: 5 / 12 tasks, 59.73% 2.41 minutes elapsed
Search progress: 7 / 12 tasks, 74.06% 2.60 minutes elapsed
Search progress: 7 / 12 tasks, 68.42% 2.69 minutes elapsed
Search progress: 8 / 12 tasks, 90.56% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.84% 3.58 minutes elapsed
Search progress: 10 / 12 tasks, 98.74% 3.96 minutes elapsed
Search progress: 10 / 12 tasks, 98.93% 4.00 minutes elapsed
Search progress: 11 / 12 tasks, 99.38% 4.01 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.09 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.09 minutes elapsed
Writing results...
Writing results finished (elapsed time: 30.21 sec)
MS-GF+ complete (total elapsed time: 288.07 sec)
Fri Nov 09 21:00:45 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf (4 minutes 49.0 seconds).
Fri Nov 09 21:00:46 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:00:46 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf
- Load spectra: 15824
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:03:39 PM, 2m:53s
Fri Nov 09 21:03:39 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf (2 minutes 53.0 seconds).
Fri Nov 09 21:03:40 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf for Andromeda.
Fri Nov 09 21:04:03 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:06:39 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction18.apl (2 minutes 35.0 seconds).
Fri Nov 09 21:06:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16108
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3664
Fri Nov 09 21:07:36 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf (57.1 seconds).
Fri Nov 09 21:07:36 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.43 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.01 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16617 (total: 16618)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 1 / 12 tasks, 30.86% 58.31 seconds elapsed
Search progress: 1 / 12 tasks, 31.13% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 25.45% 1.11 minutes elapsed
Search progress: 2 / 12 tasks, 27.54% 1.15 minutes elapsed
Search progress: 3 / 12 tasks, 28.04% 1.15 minutes elapsed
Search progress: 4 / 12 tasks, 62.78% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.73% 2.09 minutes elapsed
Search progress: 6 / 12 tasks, 66.31% 2.25 minutes elapsed
Search progress: 7 / 12 tasks, 73.98% 2.47 minutes elapsed
Search progress: 7 / 12 tasks, 70.27% 2.59 minutes elapsed
Search progress: 8 / 12 tasks, 92.91% 3.00 minutes elapsed
Search progress: 8 / 12 tasks, 88.47% 3.43 minutes elapsed
Search progress: 10 / 12 tasks, 98.31% 3.68 minutes elapsed
Search progress: 11 / 12 tasks, 99.45% 3.86 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.94 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.94 minutes elapsed
Writing results...
Writing results finished (elapsed time: 30.54 sec)
MS-GF+ complete (total elapsed time: 278.88 sec)
Fri Nov 09 21:12:15 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf (4 minutes 39.0 seconds).
Fri Nov 09 21:12:16 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:12:16 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf
- Load spectra: 16107
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:15:10 PM, 2m:54s
Fri Nov 09 21:15:11 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf (2 minutes 55.0 seconds).
Fri Nov 09 21:15:11 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf for Andromeda.
Fri Nov 09 21:15:35 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:18:03 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction19.apl (2 minutes 27.0 seconds).
Fri Nov 09 21:18:03 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)....... loaded.
Spectra matching criteria = 12082
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 2101
Fri Nov 09 21:18:30 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf (26.7 seconds).
Fri Nov 09 21:18:30 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.40 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 8.33 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-12178 (total: 12179)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 23.24% 49.10 seconds elapsed
Search progress: 2 / 12 tasks, 32.05% 49.43 seconds elapsed
Search progress: 3 / 12 tasks, 33.09% 51.70 seconds elapsed
Search progress: 4 / 12 tasks, 34.12% 53.95 seconds elapsed
Search progress: 4 / 12 tasks, 42.46% 1.00 minutes elapsed
Search progress: 5 / 12 tasks, 65.09% 1.60 minutes elapsed
Search progress: 6 / 12 tasks, 65.56% 1.61 minutes elapsed
Search progress: 6 / 12 tasks, 58.01% 1.63 minutes elapsed
Search progress: 7 / 12 tasks, 59.05% 1.66 minutes elapsed
Search progress: 8 / 12 tasks, 92.34% 2.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.54% 2.31 minutes elapsed
Search progress: 10 / 12 tasks, 98.28% 2.35 minutes elapsed
Search progress: 11 / 12 tasks, 98.76% 2.37 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 2.67 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 2.67 minutes elapsed
Writing results...
Writing results finished (elapsed time: 17.79 sec)
MS-GF+ complete (total elapsed time: 186.42 sec)
Fri Nov 09 21:21:36 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf (3 minutes 7.0 seconds).
Fri Nov 09 21:21:37 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:21:37 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf
- Load spectra: 12078
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:22:59 PM, 1m:22s
Fri Nov 09 21:22:59 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf (1 minute 22.0 seconds).
Fri Nov 09 21:22:59 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf for Andromeda.
Fri Nov 09 21:23:08 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:24:19 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction2.apl (1 minute 10.0 seconds).
Fri Nov 09 21:24:19 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16093
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4 done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3384
Fri Nov 09 21:25:19 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf (60.0 seconds).
Fri Nov 09 21:25:19 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.82 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.41 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16766 (total: 16767)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.38% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.79% 1.14 minutes elapsed
Search progress: 2 / 12 tasks, 35.13% 1.30 minutes elapsed
Search progress: 3 / 12 tasks, 35.90% 1.35 minutes elapsed
Search progress: 4 / 12 tasks, 36.38% 1.36 minutes elapsed
Search progress: 4 / 12 tasks, 61.64% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.42% 2.22 minutes elapsed
Search progress: 6 / 12 tasks, 68.12% 2.50 minutes elapsed
Search progress: 7 / 12 tasks, 72.21% 2.67 minutes elapsed
Search progress: 8 / 12 tasks, 77.54% 2.81 minutes elapsed
Search progress: 8 / 12 tasks, 88.11% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.78% 3.66 minutes elapsed
Search progress: 10 / 12 tasks, 98.45% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.45% 4.00 minutes elapsed
Search progress: 11 / 12 tasks, 99.48% 4.18 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.23 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.23 minutes elapsed
Writing results...
Writing results finished (elapsed time: 30.10 sec)
MS-GF+ complete (total elapsed time: 296.20 sec)
Fri Nov 09 21:30:15 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf (4 minutes 57.0 seconds).
Fri Nov 09 21:30:16 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:30:16 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf
- Load spectra: 16090
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:33:07 PM, 2m:51s
Fri Nov 09 21:33:07 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf (2 minutes 51.0 seconds).
Fri Nov 09 21:33:08 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf for Andromeda.
Fri Nov 09 21:33:28 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:35:58 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction20.apl (2 minutes 30.0 seconds).
Fri Nov 09 21:35:59 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15917
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3507
Fri Nov 09 21:36:56 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf (57.2 seconds).
Fri Nov 09 21:36:56 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.55 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.24 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16677 (total: 16678)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.56% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.48% 1.07 minutes elapsed
Search progress: 2 / 12 tasks, 35.50% 1.33 minutes elapsed
Search progress: 3 / 12 tasks, 35.94% 1.33 minutes elapsed
Search progress: 4 / 12 tasks, 36.49% 1.35 minutes elapsed
Search progress: 4 / 12 tasks, 61.87% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.03% 2.13 minutes elapsed
Search progress: 5 / 12 tasks, 61.96% 2.54 minutes elapsed
Search progress: 6 / 12 tasks, 62.86% 2.60 minutes elapsed
Search progress: 7 / 12 tasks, 71.15% 2.82 minutes elapsed
Search progress: 8 / 12 tasks, 86.87% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.66% 3.61 minutes elapsed
Search progress: 9 / 12 tasks, 98.17% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.77% 4.04 minutes elapsed
Search progress: 11 / 12 tasks, 99.47% 4.13 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Writing results...
Writing results finished (elapsed time: 30.04 sec)
MS-GF+ complete (total elapsed time: 292.37 sec)
Fri Nov 09 21:41:49 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf (4 minutes 53.0 seconds).
Fri Nov 09 21:41:49 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:41:49 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf
- Load spectra: 15913
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:44:56 PM, 3m:7s
Fri Nov 09 21:44:56 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf (3 minutes 7.0 seconds).
Fri Nov 09 21:44:57 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf for Andromeda.
Fri Nov 09 21:45:20 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:47:50 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction21.apl (2 minutes 29.0 seconds).
Fri Nov 09 21:47:50 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15468
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4 done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3333
Fri Nov 09 21:48:47 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf (56.8 seconds).
Fri Nov 09 21:48:47 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.89 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 11.82 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16356 (total: 16357)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.01 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 30.21% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 33.01% 1.04 minutes elapsed
Search progress: 2 / 12 tasks, 32.64% 1.16 minutes elapsed
Search progress: 3 / 12 tasks, 36.01% 1.22 minutes elapsed
Search progress: 3 / 12 tasks, 28.11% 1.22 minutes elapsed
Search progress: 4 / 12 tasks, 62.59% 2.00 minutes elapsed
Search progress: 4 / 12 tasks, 55.33% 2.11 minutes elapsed
Search progress: 6 / 12 tasks, 67.86% 2.31 minutes elapsed
Search progress: 7 / 12 tasks, 74.01% 2.52 minutes elapsed
Search progress: 8 / 12 tasks, 78.63% 2.63 minutes elapsed
Search progress: 8 / 12 tasks, 92.62% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.77% 3.45 minutes elapsed
Search progress: 10 / 12 tasks, 98.58% 3.79 minutes elapsed
Search progress: 11 / 12 tasks, 99.50% 3.92 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.95 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.95 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.81 sec)
MS-GF+ complete (total elapsed time: 278.67 sec)
Fri Nov 09 21:53:26 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf (4 minutes 39.0 seconds).
Fri Nov 09 21:53:26 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 09:53:27 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf
- Load spectra: 15464
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 09:56:16 PM, 2m:49s
Fri Nov 09 21:56:16 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf (2 minutes 50.0 seconds).
Fri Nov 09 21:56:17 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf for Andromeda.
Fri Nov 09 21:56:40 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 21:59:11 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction22.apl (2 minutes 31.0 seconds).
Fri Nov 09 21:59:11 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15428
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3337
Fri Nov 09 22:00:08 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf (57.1 seconds).
Fri Nov 09 22:00:08 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.76 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 13.21 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16299 (total: 16300)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.01 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 28.81% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.96% 1.24 minutes elapsed
Search progress: 2 / 12 tasks, 34.36% 1.40 minutes elapsed
Search progress: 3 / 12 tasks, 35.91% 1.45 minutes elapsed
Search progress: 3 / 12 tasks, 28.08% 1.46 minutes elapsed
Search progress: 4 / 12 tasks, 61.02% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.53% 2.36 minutes elapsed
Search progress: 6 / 12 tasks, 68.96% 2.68 minutes elapsed
Search progress: 7 / 12 tasks, 71.24% 2.76 minutes elapsed
Search progress: 8 / 12 tasks, 77.65% 2.93 minutes elapsed
Search progress: 8 / 12 tasks, 80.59% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.11% 3.86 minutes elapsed
Search progress: 9 / 12 tasks, 97.52% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.85% 4.25 minutes elapsed
Search progress: 11 / 12 tasks, 99.36% 4.27 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.35 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.35 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.58 sec)
MS-GF+ complete (total elapsed time: 304.19 sec)
Fri Nov 09 22:05:13 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf (5 minutes 5.0 seconds).
Fri Nov 09 22:05:14 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 10:05:14 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf
- Load spectra: 15430
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 10:07:58 PM, 2m:44s
Fri Nov 09 22:07:58 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf (2 minutes 45.0 seconds).
Fri Nov 09 22:07:59 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf for Andromeda.
Fri Nov 09 22:08:22 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 22:10:53 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction23.apl (2 minutes 31.0 seconds).
Fri Nov 09 22:10:53 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15181
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3329
Fri Nov 09 22:11:49 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf (56.0 seconds).
Fri Nov 09 22:11:49 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.08 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 11.82 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16231 (total: 16232)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.09% 1.00 minutes elapsed
Search progress: 0 / 12 tasks, 22.22% 1.15 minutes elapsed
Search progress: 2 / 12 tasks, 35.40% 1.41 minutes elapsed
Search progress: 2 / 12 tasks, 27.54% 1.42 minutes elapsed
Search progress: 3 / 12 tasks, 28.82% 1.47 minutes elapsed
Search progress: 4 / 12 tasks, 61.38% 2.00 minutes elapsed
Search progress: 5 / 11 tasks, 66.88% 2.22 minutes elapsed
Search progress: 6 / 12 tasks, 70.48% 2.64 minutes elapsed
Search progress: 7 / 12 tasks, 73.21% 2.75 minutes elapsed
Search progress: 8 / 12 tasks, 74.88% 2.81 minutes elapsed
Search progress: 8 / 12 tasks, 84.61% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.42% 3.58 minutes elapsed
Search progress: 9 / 12 tasks, 98.14% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.89% 4.06 minutes elapsed
Search progress: 11 / 12 tasks, 99.57% 4.12 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.13 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.13 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.12 sec)
MS-GF+ complete (total elapsed time: 288.83 sec)
Fri Nov 09 22:16:39 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf (4 minutes 49.0 seconds).
Fri Nov 09 22:16:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 10:16:40 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf
- Load spectra: 15183
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 10:19:12 PM, 2m:32s
Fri Nov 09 22:19:12 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf (2 minutes 33.0 seconds).
Fri Nov 09 22:19:13 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf for Andromeda.
Fri Nov 09 22:19:34 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 22:22:10 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction24.apl (2 minutes 35.0 seconds).
Fri Nov 09 22:22:10 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)........ loaded.
Spectra matching criteria = 14858
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|34| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3111
Fri Nov 09 22:23:03 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf (53.6 seconds).
Fri Nov 09 22:23:03 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.41 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 11.61 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-15972 (total: 15973)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.01 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 30.14% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.72% 1.02 minutes elapsed
Search progress: 2 / 12 tasks, 34.91% 1.17 minutes elapsed
Search progress: 3 / 12 tasks, 36.34% 1.27 minutes elapsed
Search progress: 3 / 12 tasks, 28.99% 1.28 minutes elapsed
Search progress: 4 / 12 tasks, 62.31% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 62.92% 2.03 minutes elapsed
Search progress: 6 / 12 tasks, 70.06% 2.42 minutes elapsed
Search progress: 7 / 12 tasks, 73.27% 2.57 minutes elapsed
Search progress: 8 / 12 tasks, 76.88% 2.68 minutes elapsed
Search progress: 8 / 12 tasks, 90.92% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.46% 3.40 minutes elapsed
Search progress: 10 / 12 tasks, 98.85% 3.89 minutes elapsed
Search progress: 11 / 12 tasks, 99.49% 3.95 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.00 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.00 minutes elapsed
Writing results...
Writing results finished (elapsed time: 28.48 sec)
MS-GF+ complete (total elapsed time: 280.16 sec)
Fri Nov 09 22:27:44 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf (4 minutes 41.0 seconds).
Fri Nov 09 22:27:44 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 10:27:45 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf
- Load spectra: 14857
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 10:30:12 PM, 2m:27s
Fri Nov 09 22:30:12 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf (2 minutes 28.0 seconds).
Fri Nov 09 22:30:13 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf for Andromeda.
Fri Nov 09 22:30:30 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 22:33:00 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction25.apl (2 minutes 29.0 seconds).
Fri Nov 09 22:33:00 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)........ loaded.
Spectra matching criteria = 14745
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3010
Fri Nov 09 22:33:53 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf (53.7 seconds).
Fri Nov 09 22:33:53 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 5.12 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 13.67 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-15964 (total: 15965)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.25% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 32.30% 1.09 minutes elapsed
Search progress: 2 / 12 tasks, 37.07% 1.39 minutes elapsed
Search progress: 3 / 12 tasks, 38.30% 1.46 minutes elapsed
Search progress: 3 / 12 tasks, 30.39% 1.47 minutes elapsed
Search progress: 4 / 12 tasks, 61.77% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 64.15% 2.02 minutes elapsed
Search progress: 6 / 12 tasks, 70.93% 2.49 minutes elapsed
Search progress: 7 / 12 tasks, 76.06% 2.74 minutes elapsed
Search progress: 8 / 12 tasks, 79.11% 2.85 minutes elapsed
Search progress: 8 / 12 tasks, 84.30% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 95.80% 3.37 minutes elapsed
Search progress: 10 / 12 tasks, 98.33% 3.92 minutes elapsed
Search progress: 10 / 12 tasks, 98.59% 4.00 minutes elapsed
Search progress: 11 / 12 tasks, 99.51% 4.14 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.16 minutes elapsed
Writing results...
Writing results finished (elapsed time: 28.75 sec)
MS-GF+ complete (total elapsed time: 291.98 sec)
Fri Nov 09 22:38:46 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf (4 minutes 52.0 seconds).
Fri Nov 09 22:38:46 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 10:38:46 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf
- Load spectra: 14741
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 10:41:17 PM, 2m:31s
Fri Nov 09 22:41:17 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf (2 minutes 31.0 seconds).
Fri Nov 09 22:41:18 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf for Andromeda.
Fri Nov 09 22:41:37 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 22:44:10 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction26.apl (2 minutes 33.0 seconds).
Fri Nov 09 22:44:10 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 14249
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 2820
Fri Nov 09 22:45:09 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf (58.8 seconds).
Fri Nov 09 22:45:09 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.20 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 15.46 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16214 (total: 16215)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.37% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.97% 1.16 minutes elapsed
Search progress: 2 / 12 tasks, 32.63% 1.29 minutes elapsed
Search progress: 3 / 12 tasks, 36.05% 1.38 minutes elapsed
Search progress: 3 / 12 tasks, 28.19% 1.39 minutes elapsed
Search progress: 4 / 12 tasks, 61.34% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.76% 2.34 minutes elapsed
Search progress: 6 / 12 tasks, 65.19% 2.48 minutes elapsed
Search progress: 7 / 12 tasks, 77.69% 2.84 minutes elapsed
Search progress: 7 / 12 tasks, 70.19% 2.90 minutes elapsed
Search progress: 8 / 12 tasks, 80.86% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.98% 3.88 minutes elapsed
Search progress: 9 / 12 tasks, 97.31% 4.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.17% 4.15 minutes elapsed
Search progress: 11 / 12 tasks, 99.51% 4.50 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.55 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.55 minutes elapsed
Writing results...
Writing results finished (elapsed time: 31.54 sec)
MS-GF+ complete (total elapsed time: 320.39 sec)
Fri Nov 09 22:50:30 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf (5 minutes 21.0 seconds).
Fri Nov 09 22:50:30 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 10:50:31 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf
- Load spectra: 14246
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 10:53:06 PM, 2m:35s
Fri Nov 09 22:53:06 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf (2 minutes 35.0 seconds).
Fri Nov 09 22:53:06 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf for Andromeda.
Fri Nov 09 22:53:30 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 22:56:21 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction27.apl (2 minutes 51.0 seconds).
Fri Nov 09 22:56:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 15120
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3436
Fri Nov 09 22:57:21 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf (1 minute 314.0 milliseconds).
Fri Nov 09 22:57:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.95 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 16.26 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17596 (total: 17597)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 28.85% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 31.58% 1.39 minutes elapsed
Search progress: 2 / 12 tasks, 32.45% 1.45 minutes elapsed
Search progress: 3 / 12 tasks, 33.98% 1.50 minutes elapsed
Search progress: 4 / 12 tasks, 33.78% 1.53 minutes elapsed
Search progress: 4 / 12 tasks, 56.87% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 64.34% 2.74 minutes elapsed
Search progress: 6 / 12 tasks, 65.35% 2.84 minutes elapsed
Search progress: 6 / 12 tasks, 68.85% 3.00 minutes elapsed
Search progress: 7 / 12 tasks, 69.54% 3.03 minutes elapsed
Search progress: 8 / 12 tasks, 74.63% 3.12 minutes elapsed
Search progress: 8 / 12 tasks, 95.68% 4.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.49% 4.32 minutes elapsed
Search progress: 10 / 12 tasks, 98.50% 4.48 minutes elapsed
Search progress: 11 / 12 tasks, 99.51% 4.67 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.70 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 4.70 minutes elapsed
Writing results...
Writing results finished (elapsed time: 36.72 sec)
MS-GF+ complete (total elapsed time: 335.04 sec)
Fri Nov 09 23:02:57 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf (5 minutes 36.0 seconds).
Fri Nov 09 23:02:57 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:02:58 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf
- Load spectra: 15122
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:06:21 PM, 3m:23s
Fri Nov 09 23:06:21 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf (3 minutes 23.0 seconds).
Fri Nov 09 23:06:22 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf for Andromeda.
Fri Nov 09 23:06:48 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:09:39 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction28.apl (2 minutes 51.0 seconds).
Fri Nov 09 23:09:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)........ loaded.
Spectra matching criteria = 15371
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|34| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2...3...4...
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 2845
Fri Nov 09 23:10:22 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf (42.7 seconds).
Fri Nov 09 23:10:22 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.92 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 10.64 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-15488 (total: 15489)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 1 / 12 tasks, 31.07% 56.82 seconds elapsed
Search progress: 2 / 12 tasks, 31.87% 59.04 seconds elapsed
Search progress: 2 / 12 tasks, 32.04% 1.00 minutes elapsed
Search progress: 3 / 12 tasks, 33.50% 1.08 minutes elapsed
Search progress: 3 / 12 tasks, 28.41% 1.13 minutes elapsed
Search progress: 5 / 12 tasks, 64.35% 1.99 minutes elapsed
Search progress: 5 / 12 tasks, 64.45% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 57.34% 2.08 minutes elapsed
Search progress: 7 / 12 tasks, 68.52% 2.15 minutes elapsed
Search progress: 7 / 12 tasks, 64.32% 2.24 minutes elapsed
Search progress: 9 / 12 tasks, 97.56% 2.96 minutes elapsed
Search progress: 9 / 12 tasks, 97.85% 3.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.49% 3.03 minutes elapsed
Search progress: 11 / 12 tasks, 99.13% 3.08 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.27 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.27 minutes elapsed
Writing results...
Writing results finished (elapsed time: 23.58 sec)
MS-GF+ complete (total elapsed time: 230.32 sec)
Fri Nov 09 23:14:13 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf (3 minutes 51.0 seconds).
Fri Nov 09 23:14:13 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:14:13 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf
- Load spectra: 15370
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:16:24 PM, 2m:11s
Fri Nov 09 23:16:24 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf (2 minutes 11.0 seconds).
Fri Nov 09 23:16:25 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf for Andromeda.
Fri Nov 09 23:16:38 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:18:12 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction3.apl (1 minute 34.0 seconds).
Fri Nov 09 23:18:12 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf).......... loaded.
Spectra matching criteria = 18859
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3288
Fri Nov 09 23:19:03 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf (50.9 seconds).
Fri Nov 09 23:19:03 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.36 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.99 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-18931 (total: 18932)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.75% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 31.68% 1.16 minutes elapsed
Search progress: 2 / 12 tasks, 32.40% 1.20 minutes elapsed
Search progress: 3 / 12 tasks, 32.96% 1.22 minutes elapsed
Search progress: 3 / 12 tasks, 25.27% 1.25 minutes elapsed
Search progress: 4 / 12 tasks, 62.41% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 64.65% 2.25 minutes elapsed
Search progress: 6 / 12 tasks, 65.91% 2.34 minutes elapsed
Search progress: 7 / 12 tasks, 66.46% 2.36 minutes elapsed
Search progress: 8 / 13 tasks, 62.04% 2.39 minutes elapsed
Search progress: 8 / 12 tasks, 95.09% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.34% 3.29 minutes elapsed
Search progress: 10 / 12 tasks, 98.67% 3.48 minutes elapsed
Search progress: 11 / 12 tasks, 99.58% 3.59 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.59 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.59 minutes elapsed
Writing results...
Writing results finished (elapsed time: 29.66 sec)
MS-GF+ complete (total elapsed time: 258.36 sec)
Fri Nov 09 23:23:22 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf (4 minutes 19.0 seconds).
Fri Nov 09 23:23:23 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:23:23 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf
- Load spectra: 18854
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:26:47 PM, 3m:24s
Fri Nov 09 23:26:47 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf (3 minutes 24.0 seconds).
Fri Nov 09 23:26:48 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf for Andromeda.
Fri Nov 09 23:27:08 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:29:10 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction4.apl (2 minutes 1.0 seconds).
Fri Nov 09 23:29:10 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16675
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 2734
Fri Nov 09 23:29:56 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf (46.3 seconds).
Fri Nov 09 23:29:56 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.95 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 11.27 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-16810 (total: 16811)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 22.34% 59.74 seconds elapsed
Search progress: 1 / 12 tasks, 30.70% 1.00 minutes elapsed
Search progress: 2 / 12 tasks, 32.43% 1.12 minutes elapsed
Search progress: 3 / 12 tasks, 36.20% 1.21 minutes elapsed
Search progress: 4 / 12 tasks, 36.86% 1.24 minutes elapsed
Search progress: 4 / 12 tasks, 63.40% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.95% 2.02 minutes elapsed
Search progress: 6 / 12 tasks, 68.13% 2.18 minutes elapsed
Search progress: 7 / 12 tasks, 71.69% 2.30 minutes elapsed
Search progress: 7 / 12 tasks, 64.75% 2.31 minutes elapsed
Search progress: 8 / 12 tasks, 88.53% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.87% 3.00 minutes elapsed
Search progress: 10 / 12 tasks, 98.50% 3.24 minutes elapsed
Search progress: 11 / 12 tasks, 99.41% 3.36 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.40 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.40 minutes elapsed
Writing results...
Writing results finished (elapsed time: 26.25 sec)
MS-GF+ complete (total elapsed time: 241.76 sec)
Fri Nov 09 23:33:58 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf (4 minutes 2.0 seconds).
Fri Nov 09 23:33:59 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:33:59 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf
- Load spectra: 16674
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:36:26 PM, 2m:27s
Fri Nov 09 23:36:26 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf (2 minutes 27.0 seconds).
Fri Nov 09 23:36:27 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf for Andromeda.
Fri Nov 09 23:36:41 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:38:32 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction5.apl (1 minute 50.0 seconds).
Fri Nov 09 23:38:32 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 16916
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 2|3|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 2870
Fri Nov 09 23:39:21 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf (49.2 seconds).
Fri Nov 09 23:39:21 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.32 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 10.78 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17064 (total: 17065)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.96% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 32.96% 1.07 minutes elapsed
Search progress: 2 / 12 tasks, 32.33% 1.16 minutes elapsed
Search progress: 3 / 12 tasks, 36.11% 1.27 minutes elapsed
Search progress: 4 / 12 tasks, 36.53% 1.27 minutes elapsed
Search progress: 4 / 12 tasks, 62.57% 2.00 minutes elapsed
Search progress: 4 / 12 tasks, 55.67% 2.16 minutes elapsed
Search progress: 6 / 12 tasks, 65.80% 2.30 minutes elapsed
Search progress: 7 / 12 tasks, 70.45% 2.43 minutes elapsed
Search progress: 7 / 12 tasks, 66.41% 2.48 minutes elapsed
Search progress: 8 / 12 tasks, 95.15% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.43% 3.30 minutes elapsed
Search progress: 10 / 12 tasks, 98.49% 3.44 minutes elapsed
Search progress: 11 / 12 tasks, 99.30% 3.53 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.66 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.66 minutes elapsed
Writing results...
Writing results finished (elapsed time: 27.35 sec)
MS-GF+ complete (total elapsed time: 257.62 sec)
Fri Nov 09 23:43:39 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf (4 minutes 18.0 seconds).
Fri Nov 09 23:43:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:43:40 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf
- Load spectra: 16914
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:46:36 PM, 2m:56s
Fri Nov 09 23:46:36 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf (2 minutes 57.0 seconds).
Fri Nov 09 23:46:37 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf for Andromeda.
Fri Nov 09 23:46:56 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:48:50 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction6.apl (1 minute 54.0 seconds).
Fri Nov 09 23:48:50 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17139
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3016
Fri Nov 09 23:49:41 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf (51.6 seconds).
Fri Nov 09 23:49:42 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.40 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 10.74 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17290 (total: 17291)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.63% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.63% 1.08 minutes elapsed
Search progress: 2 / 12 tasks, 32.34% 1.21 minutes elapsed
Search progress: 3 / 12 tasks, 36.08% 1.31 minutes elapsed
Search progress: 3 / 12 tasks, 29.05% 1.37 minutes elapsed
Search progress: 4 / 12 tasks, 62.17% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.71% 2.18 minutes elapsed
Search progress: 6 / 12 tasks, 68.25% 2.40 minutes elapsed
Search progress: 7 / 12 tasks, 72.71% 2.54 minutes elapsed
Search progress: 8 / 12 tasks, 73.41% 2.54 minutes elapsed
Search progress: 8 / 12 tasks, 94.70% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 97.20% 3.34 minutes elapsed
Search progress: 10 / 12 tasks, 98.41% 3.49 minutes elapsed
Search progress: 11 / 12 tasks, 99.47% 3.64 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.67 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.67 minutes elapsed
Writing results...
Writing results finished (elapsed time: 28.20 sec)
MS-GF+ complete (total elapsed time: 259.23 sec)
Fri Nov 09 23:54:01 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf (4 minutes 20.0 seconds).
Fri Nov 09 23:54:02 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/09/2018, 11:54:02 PM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf
- Load spectra: 17135
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/09/2018, 11:56:45 PM, 2m:43s
Fri Nov 09 23:56:45 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf (2 minutes 44.0 seconds).
Fri Nov 09 23:56:46 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf for Andromeda.
Fri Nov 09 23:57:03 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.mgf with Andromeda.
Start Search.
Done.
Fri Nov 09 23:59:07 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction7.apl (2 minutes 3.0 seconds).
Fri Nov 09 23:59:07 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17416
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3242
Sat Nov 10 00:00:02 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf (55.2 seconds).
Sat Nov 10 00:00:02 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 4.49 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 11.83 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17567 (total: 17568)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 29.76% 1.00 minutes elapsed
Search progress: 0 / 12 tasks, 22.56% 1.09 minutes elapsed
Search progress: 2 / 12 tasks, 32.47% 1.20 minutes elapsed
Search progress: 3 / 12 tasks, 35.82% 1.26 minutes elapsed
Search progress: 4 / 12 tasks, 36.71% 1.31 minutes elapsed
Search progress: 4 / 12 tasks, 62.22% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.77% 2.19 minutes elapsed
Search progress: 6 / 12 tasks, 68.43% 2.43 minutes elapsed
Search progress: 6 / 12 tasks, 63.07% 2.53 minutes elapsed
Search progress: 7 / 12 tasks, 63.92% 2.57 minutes elapsed
Search progress: 8 / 12 tasks, 94.41% 3.00 minutes elapsed
Search progress: 9 / 12 tasks, 96.97% 3.40 minutes elapsed
Search progress: 10 / 12 tasks, 98.96% 3.76 minutes elapsed
Search progress: 11 / 12 tasks, 99.56% 3.81 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.82 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.82 minutes elapsed
Writing results...
Writing results finished (elapsed time: 28.33 sec)
MS-GF+ complete (total elapsed time: 269.70 sec)
Sat Nov 10 00:04:32 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf (4 minutes 30.0 seconds).
Sat Nov 10 00:04:33 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/10/2018, 12:04:33 AM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf
- Load spectra: 17416
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/10/2018, 12:07:32 AM, 2m:59s
Sat Nov 10 00:07:32 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf (2 minutes 59.0 seconds).
Sat Nov 10 00:07:32 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf for Andromeda.
Sat Nov 10 00:07:50 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.mgf with Andromeda.
Start Search.
Done.
Sat Nov 10 00:10:05 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction8.apl (2 minutes 15.0 seconds).
Sat Nov 10 00:10:05 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf with X!Tandem.
X! TANDEM Vengeance (2015.12.15.2)
Loading spectra| (mgf)......... loaded.
Spectra matching criteria = 17367
Starting threads .|.|.|. started.
Computing models:
Spectrum-to-sequence matching process in progres
waiting for 23|4| done.
sequences modelled = 48 ks
Model refinement:
partial cleavage ..... done.
unanticipated cleavage ..... done.
finishing refinement ... done.
waiting for 2|3|4| done.
Merging results:
from 2....3....4....
Creating report:
initial calculations ..... done.
sorting ..... done.
finding repeats ..... done.
evaluating results ..... done.
calculating expectations ..... done.
writing results ..... done.
Valid models = 3313
Sat Nov 10 00:11:04 CET 2018 X!Tandem finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf (58.4 seconds).
Sat Nov 10 00:11:04 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf with MS-GF+.
MS-GF+ Release (v2018.04.09) (9 April 2018)
Loading database files...
Warning: Sequence database contains 39116 counts of letter 'X', which does not correspond to an amino acid.
Loading database finished (elapsed time: 3.74 sec)
Reading spectra...
Spectrum index=0 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=1 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=2 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=3 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=4 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=5 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=6 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=7 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=8 activationMethod is unknown; Using HCD as specified in parameters.
Spectrum index=9 activationMethod is unknown; Using HCD as specified in parameters.
...
Ignoring 0 profile spectra.
Ignoring 0 spectra having less than 10 peaks.
Reading spectra finished (elapsed time: 12.03 sec)
Using 4 threads.
Search Parameters:
PrecursorMassTolerance: 10.0ppm
IsotopeError: 0,1
TargetDecoyAnalysis: false
FragmentationMethod: HCD
Instrument: QExactive
Enzyme: Tryp
Protocol: TMT
NumTolerableTermini: 2
MinPeptideLength: 8
MaxPeptideLength: 30
NumMatchesPerSpec: 10
ChargeCarrierMass: 1.00727649 (proton)
Spectrum 0-17628 (total: 17629)
Splitting work into 12 tasks.
Search progress: 0 / 12 tasks, 0.00% 0.00 seconds elapsed
Loading built-in param file: HCD_QExactive_Tryp_TMT.param
Search progress: 0 / 12 tasks, 30.16% 1.00 minutes elapsed
Search progress: 1 / 12 tasks, 30.70% 1.01 minutes elapsed
Search progress: 2 / 12 tasks, 32.40% 1.13 minutes elapsed
Search progress: 3 / 12 tasks, 36.11% 1.23 minutes elapsed
Search progress: 4 / 12 tasks, 37.05% 1.26 minutes elapsed
Search progress: 4 / 12 tasks, 62.39% 2.00 minutes elapsed
Search progress: 5 / 12 tasks, 63.60% 2.13 minutes elapsed
Search progress: 6 / 12 tasks, 68.22% 2.39 minutes elapsed
Search progress: 7 / 12 tasks, 75.70% 2.56 minutes elapsed
Search progress: 8 / 12 tasks, 76.21% 2.58 minutes elapsed
Search progress: 8 / 12 tasks, 94.36% 3.00 minutes elapsed
Search progress: 8 / 12 tasks, 88.34% 3.40 minutes elapsed
Search progress: 10 / 12 tasks, 98.98% 3.84 minutes elapsed
Search progress: 11 / 12 tasks, 99.57% 3.88 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.89 minutes elapsed
Search progress: 12 / 12 tasks, 100.00% 3.89 minutes elapsed
Writing results...
Writing results finished (elapsed time: 28.70 sec)
MS-GF+ complete (total elapsed time: 274.14 sec)
Sat Nov 10 00:15:38 CET 2018 MS-GF+ finished for C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf (4 minutes 35.0 seconds).
Sat Nov 10 00:15:39 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf with Comet.
Comet version "2018.01 rev. 2"
Search start: 11/10/2018, 12:15:39 AM
- Input file: C:\proteomic analysis test\Raw data mgf\TMT1\20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf
- Load spectra: 17364
- Search progress: 0% 1% 2% 3% 4% 5% 6% 7% 8% 9% 10% 11% 12% 13% 14% 15% 16% 17% 18% 19% 20% 21% 22% 23% 24% 25% 26% 27% 28% 29% 30% 31% 32% 33% 34% 35% 36% 37% 38% 39% 40% 41% 42% 43% 44% 45% 46% 47% 48% 49% 50% 51% 52% 53% 54% 55% 56% 57% 58% 59% 60% 61% 62% 63% 64% 65% 66% 67% 68% 69% 70% 71% 72% 73% 74% 75% 76% 77% 78% 79% 80% 81% 82% 83% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99% 99%100%100%
- Post analysis: done
Search end: 11/10/2018, 12:18:47 AM, 3m:8s
Sat Nov 10 00:18:47 CET 2018 Comet finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf (3 minutes 8.0 seconds).
Sat Nov 10 00:18:48 CET 2018 Converting spectrum file 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf for Andromeda.
Sat Nov 10 00:19:06 CET 2018 Processing 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.mgf with Andromeda.
Start Search.
Done.
Sat Nov 10 00:21:16 CET 2018 Andromeda finished for 20180801_MB_ES_EVO_Valentine_TMT1_44min_96ms_fraction9.apl (2 minutes 10.0 seconds).
Sat Nov 10 00:21:16 CET 2018 Zipping output files.
Sat Nov 10 00:25:43 CET 2018 Search Completed (5 hours 14 minutes 17.0 seconds).
# ------------------------------------------------------------------
# General Search Parameters
# ------------------------------------------------------------------
DATABASE_FILE=C:\proteomic analysis test\fasta\Cgriseus_uniprot_Crap_concatenated_target_decoy.fasta
ENZYME0=Trypsin, Specific, 2 missed cleavages
FIXED_MODIFICATIONS=Carbamidomethylation of C//TMT 10-plex of K//TMT 10-plex of peptide N-term
VARIABLE_MODIFICATIONS=Acetylation of protein N-term//Oxidation of M
REFINEMENT_FIXED_MODIFICATIONS=Carbamidomethylation of C//TMT 10-plex of K//TMT 10-plex of peptide N-term
REFINEMENT_VARIABLE_MODIFICATIONS=
PRECURSOR_MASS_TOLERANCE=10.0
PRECURSOR_MASS_TOLERANCE_UNIT=ppm
FRAGMENT_MASS_TOLERANCE=0.02
FRAGMENT_MASS_TOLERANCE_UNIT=Da
PPM_TO_DA_CONVERSION_REF_MASS=2000.0
FORWARD_FRAGMENT_ION_TYPE=b
FRAGMENT_ION_TYPE_2=y
PRECURSOR_CHARGE_LOWER_BOUND=2+
PRECURSOR_CHARGE_UPPER_BOUND=4+
ISOTOPIC_CORRECTION_LOWER_BOUND=0
ISOTOPIC_CORRECTION_UPPER_BOUND=1
# ------------------------------------------------------------------
# OMSSA Specific Parameters
# ------------------------------------------------------------------
EVALUE_CUTOFF=100.0
MAXIMUM_HITLIST_LENGTH=10
PRECURSOR_ELIMINATION=false
PRECURSOR_SCALING=true
MINIMAL_PEPTIDE_SIZE=8
MAXIMAL_PEPTIDE_SIZE=30
PRECURSOR_CHARGE_TO_CONSIDER_MULTIPLY_CHARGED_FRAGMENTS=3+
CHARGE_ESTIMATION=true
OUTPUT_TYPE=OMX
MEMORY_MAPPED_SEQUENCES=false
NUMBER_OF_ISOTOPES=0
MASS_TO_CONSIDER_EXACT_NEUTRON_MASS=1446.94
LOW_INTENSITY_CUTOFF=0.0
HIGH_INTENSITY_CUTOFF=0.2
INTENSITY_INCREMENT=5.0E-4
SINGLE_CHARGE_WINDOW_WIDTH=27
DOUBLE_CHARGE_WINDOW_WIDTH=14
SINGLE_CHARGE_WINDOW_NPEAKS=2
DOUBLE_CHARGE_WINDOW_NPEAKS=2
MAX_HITS_PER_SPECTRUM_PER_CHARGE=30
MIN_ANNOTATED_INTENSE_PEAKS=6
MIN_ANNOTATED_PEAKS=2
MIN_PEAKS=4
CLEAVE_TERMINAL_METHIONINE=true
MAX_MZ_LADDERS=128
MAX_FRAGMENT_CHARGE=2
FRACTION_PEAKS_FOR_CHARGE_1_ESTIMATION=0.95
AUTO_DETERMINE_CHARGE_ONE=true
SEARCH_POSITIVE_IONS=true
MIN_PERCURSORS_PER_SPECTRUM=1
FORWARD_FRAGMENTS_FIRST=false
REWIND_FRAGMENTS=true
FRAGMENTS_PER_SERIES=100
CORRELATION_CORRECTION_SCORE=true
CONSECUTIVE_ION_PROBABILITY=0.5
ITERATIVE_SEARCH_SEQUENCE_EVALUE=0.0
ITERATIVE_SEARCH_SPECTRUM_EVALUE=0.01
ITERATIVE_SEARCH_REPLACEMENT_EVALUE=0.0
# ------------------------------------------------------------------
# X!Tandem Specific Parameters
# ------------------------------------------------------------------
DYNAMIC_RANGE=100.0
NUMBER_OF_PEAKS=50
MIN_FRAG_MASS=200.0
MIN_NUMBER_OF_PEAKS=5
NOISE_SUPPRESSION=NO
MIN_PREC_MASS=500.0
PROTEIN_QUICK_ACETYL=YES
QUICK_PYROLIDONE=YES
PROTEIN_PTM_COMPLEXITY=6.0
STP_BIAS=NO
REFINE=YES
REFINE_SEMI=NO
REFINE_POINT_MUTATIONS=NO
REFINE_SPECTRUM_SYNTHESIS=YES
REFINE_UNANTICIPATED_CLEABAGES=YES
REFINE_SNAPS=YES
REFINE_MAX_EVALUE=0.01
POTENTIAL_MODIFICATIONS_FOR_FULL_REFINEMENT=NO
EVALUE_CUTOFF=0.01
SKYLINE_PATH=
OUTPUT_RESULTS=all
OUTPUT_PROTEINS=YES
OUTPUT_SEQUENCES=NO
OUTPUT_SPECTRA=YES
OUTPUT_HISTOGRAMS=NO
# ------------------------------------------------------------------
# PepNovo+ Specific Parameters
# ------------------------------------------------------------------
HIT_LIST_LENGTH=10
CORRECT_PRECURSOR_MASS=false
DISCARD_LOW_QUALITY_SPECTRA=true
FRAGMENTATION_MODEL=CID_IT_TRYP
GENERATE_QUERY=false
# ------------------------------------------------------------------
# Andromeda Specific Parameters
# ------------------------------------------------------------------
MIN_PEPTIDE_LENGHT_NO_ENZYME=8
MAX_PEPTIDE_LENGHT_NO_ENZYME=25
MAX_PEPTIDE_MASS=4600.0
NUMBER_SPECTRUM_MATCHES=10
MAX_PTMS=5
FRAGMENTATION_METHOD=CID
WATER_LOSS=true
AMMONIA_LOSS=true
SEQUENCE_DEPENDENT_NEUTRAL_LOSS=true
EQUAL_IL=false
FRAGMENT_ALL=false
EMPERICAL_CORRECTION=true
HIGHER_CHARGE=true
MAX_COMBINATIONS=250
TOP_PEAKS=8
TOP_PEAKS_WINDOW=100
DECOY_MODE=none
# ------------------------------------------------------------------
# MS Amanda Specific Parameters
# ------------------------------------------------------------------
SEARCH_DECOY=false
INSTRUMENT_ID=b, y
MONOISOTOPIC=true
MAX_RANK=10
LOW_MEMORY_MODE=true
# ------------------------------------------------------------------
# MS-GF+ Specific Parameters
# ------------------------------------------------------------------
SEARCH_DECOY=false
INSTRUMENT_ID=3
FRAGMENTATION_ID=3
PROTOCOL_ID=0
MIN_PEP_LENGTH=8
MAX_PEP_LENGTH=30
NUMBER_SPECTRUM_MATCHES=10
ADDITIONAL_OUTPUT=false
NUMBER_OF_TOLERABLE_TERMINI=2
MAX_NUMBER_PTMS=2
NUMBER_TASKS=null
# ------------------------------------------------------------------
# DirecTag Specific Parameters
# ------------------------------------------------------------------
TIC_CUTOFF_PERCENTAGE=100.0
MAX_PEAK_COUNT=100
NUM_INTENSITY_CLASSES=3
ADJUST_PRECURSOR_MASS=false
MIN_PRECUSOR_ADJUSTMENT=-0.5
MAX_PRECUSOR_ADJUSTMENT=1.5
PRECUSOR_ADJUSTMENT_STEP=0.1
NUM_CHARGE_STATES=3
OUTPUT_SUFFIX=
USE_CHARGE_STATE_FROM_MS=true
DUPLICATE_SPECTRA=true
DEISOTOPING_MODE=0
ISOTOPE_MZ_TOLERANCE=0.25
COMPLEMENT_MZ_TOLERANCE=0.1
TAG_LENGTH=4
MAX_DYNAMIC_MODS=2
MAX_TAG_COUNT=10
INTENSITY_SCORE_WEIGHT=1.0
MZ_FIDELITY_SCORE_WEIGHT=1.0
COMPLEMENT_SCORE_WEIGHT=1.0
# ------------------------------------------------------------------
# Comet Specific Parameters
# ------------------------------------------------------------------
NUMBER_SPECTRUM_MATCHES=10
MAX_VARIABLE_MODS=10
REQUIRE_VARIABLE_MODS=false
MIN_PEAKS=10
MIN_PEAKS_INTENSITY=0.0
REMOVE_PRECURSOR=0
REMOVE_PRECURSOR_TOLERANCE=1.5
LOWER_CLEAR_MZ_RANGE=0.0
UPPER_CLEAR_MZ_RANGE=0.0
ENZYME_TYPE=2
ISOTOPE_CORRECTION=1
MIN_PRECURSOR_MASS=600.0
MAX_PRECURSOR_MASS=5000.0
MAX_FRAGMENT_CHARGE=3
REMOVE_METHIONINE=false
BATCH_SIZE=0
THEORETICAL_FRAGMENT_IONS_SUM_ONLY=false
FRAGMENT_BIN_OFFSET=0.01
USE_SPARSE_MATRIX=true
OUTPUT_FORAMT=PepXML
PRINT_EXPECT_SCORE=true
# ------------------------------------------------------------------
# pNovo+ Specific Parameters
# ------------------------------------------------------------------
NUMBER_PEPTIDES=10
LOWER_PRECURSOR_MASS=300
UPPER_PRECURSOR_MASS=5000
ACTIVATION_TYPE=HCD
# ------------------------------------------------------------------
# Tide Specific Parameters
# ------------------------------------------------------------------
MIN_PEP_LENGTH=6
MAX_PEP_LENGTH=30
MIN_PRECURSOR_MASS=200.0
MAX_PRECURSOR_MASS=7200.0
MAX_VARIABLE_PTMS_PER_TYPE_PER_PEPTIDE=2
MAX_VARIABLE_PTMS_PER_PEPTID=null
DECOY_FORMAT=none
KEEP_TERMINAL_AMINO_ACIDS=NC
DECOY_SEED=1
OUTPUT_FOLDER_NAME=crux-output
PRINT_PEPTIDES=false
VERBOSITY=30
MONOISOTOPIC_PRECURSOR=true
CLIP_NTERM_METHIONINE=false
DIGESTION_TYPE=full-digest
COMPUTE_SP_SCORE=false
NUMBER_SPECTRUM_MATCHES=10
COMPUTE_EXACT_P_VALUES=false
MIN_SPECTRUM_MZ=0.0
MAX_SPECTRUM_MZ=null
MIN_SPECTRUM_PEAKS=20
SPECTRUM_CHARGES=all
REMOVE_PRECURSOR=false
REMOVE_PRECURSOR_TOLERANCE=1.5
PRINT_PROGRESS_INDICATOR_SIZE=1000
USE_FLANKING_PEAKS=false
USE_NEUTRAL_LOSS_PEAKS=false
MZ_BIN_WIDTH=0.02
MZ_BIN_OFFSET=0.0
CONCATENATE_TARGET_DECOY=false
STORE_SPECTRA_FILE_NAME=null
TEXT_OUTPUT=true
SQT_OUTPUT=false
PEPXML_OUTPUT=false
MZID_OUTPUT=false
PERCOLATOR_OUTPUT=false
# ------------------------------------------------------------------
# MyriMatch Specific Parameters
# ------------------------------------------------------------------
MIN_PEP_LENGTH=8
MAX_PEP_LENGTH=30
NUMBER_SPECTRUM_MATCHES=10
TIC_CUTOFF_PERCENTAGE=0.98
MAX_DYNMIC_MODS=2
MIN_TERMINI_CLEAVAGES=2
MIN_PRECURSOR_MASS=600.0
MAX_PRECURSOR_MASS=5000.0
USE_SMART_PLUS_THREE_MODEL=true
COMPUTE_XCORR=false
NUM_INTENSITY_CLASSES=3
CLASS_SIZE_MULTIPLIER=2
NUM_BATCHES=50
FRAGMENTATION_RULE=CID
MAX_PEAK_COUNT=300
OUTPUT_FORMAT=mzIdentML
# ------------------------------------------------------------------
# Novor Specific Parameters
# ------------------------------------------------------------------
FRAGMENTATION=HCD
MASS_ANALYZER=FT