Having obtained converted .mzXML files, we can now start trying to get Comet, TPP, and PECAN to work. First we’re going to run comet, making sure that our params file and the reference proteome is in the same directory as the mzXML files.
setwd("~/Documents/mzMXL_files/")
system("/home/shared/comet/comet.2016012.linux.exe -Pcomet.params.high-low -Dgigas-proteome.fasta *.mzXML") Comet version "2016.01 rev. 2"
Search start: 12/16/2016, 02:20:27 PM
- Input file: 20161205_Sample_1.mzXML
- Load spectra: 89352
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:22:31 PM
Search start: 12/16/2016, 02:22:31 PM
- Input file: 20161205_Sample_11.mzXML
- Load spectra: 94172
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:24:43 PM
Search start: 12/16/2016, 02:24:43 PM
- Input file: 20161205_Sample_11A.mzXML
- Load spectra: 94326
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:26:54 PM
Search start: 12/16/2016, 02:26:54 PM
- Input file: 20161205_Sample_12.mzXML
- Load spectra: 97734
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:29:11 PM
Search start: 12/16/2016, 02:29:11 PM
- Input file: 20161205_Sample_12A.mzXML
- Load spectra: 97212
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:31:26 PM
Search start: 12/16/2016, 02:31:26 PM
- Input file: 20161205_Sample_16.mzXML
- Load spectra: 98031
- Search progress: 0% 1% 3% 4% 5% 6% 7% 7% 8% 9% 10% 11% 11% 12% 13% 14% 14% 15% 16% 17% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 25% 25% 26% 27% 27% 28% 29% 30% 30% 31% 32% 32% 33% 34% 34% 35% 36% 37% 37% 38% 39% 40% 40% 41% 42% 43% 43% 44% 45% 45% 46% 47% 48% 48% 49% 50% 50% 51% 52% 53% 53% 54% 55% 56% 56% 57% 58% 58% 59% 60% 61% 61% 62% 63% 63% 64% 65% 66% 66% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 78% 78% 79% 80% 80% 81% 82% 82% 83% 84% 85% 85% 86% 87% 87% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%100%
- Post analysis: done
Search end: 12/16/2016, 02:33:41 PM
Search start: 12/16/2016, 02:33:41 PM
- Input file: 20161205_Sample_16A.mzXML
- Load spectra: 97251
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:35:56 PM
Search start: 12/16/2016, 02:35:56 PM
- Input file: 20161205_Sample_19.mzXML
- Load spectra: 96696
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:38:10 PM
Search start: 12/16/2016, 02:38:10 PM
- Input file: 20161205_Sample_19A.mzXML
- Load spectra: 96676
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:40:22 PM
Search start: 12/16/2016, 02:40:22 PM
- Input file: 20161205_Sample_1A.mzXML
- Load spectra: 88832
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:42:23 PM
Search start: 12/16/2016, 02:42:23 PM
- Input file: 20161205_Sample_20.mzXML
- Load spectra: 96024
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:44:36 PM
Search start: 12/16/2016, 02:44:36 PM
- Input file: 20161205_Sample_20A.mzXML
- Load spectra: 95228
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:46:47 PM
Search start: 12/16/2016, 02:46:47 PM
- Input file: 20161205_Sample_24.mzXML
- Load spectra: 97662
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:49:00 PM
Search start: 12/16/2016, 02:49:00 PM
- Input file: 20161205_Sample_24A.mzXML
- Load spectra: 98362
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:51:14 PM
Search start: 12/16/2016, 02:51:14 PM
- Input file: 20161205_Sample_27.mzXML
- Load spectra: 97234
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:53:27 PM
Search start: 12/16/2016, 02:53:27 PM
- Input file: 20161205_Sample_27A.mzXML
- Load spectra: 96837
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 02:55:38 PM
Search start: 12/16/2016, 02:55:38 PM
- Input file: 20161205_Sample_28.mzXML
- Load spectra: 96538
- Search progress: 0% 1% 3% 4% 5% 6% 7% 7% 8% 9% 10% 11% 11% 12% 13% 14% 14% 15% 16% 17% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 25% 25% 26% 27% 27% 28% 29% 30% 30% 31% 32% 32% 33% 34% 34% 35% 36% 37% 37% 38% 39% 40% 40% 41% 42% 43% 43% 44% 45% 45% 46% 47% 48% 48% 49% 50% 50% 51% 52% 53% 53% 54% 55% 56% 56% 57% 58% 58% 59% 60% 61% 61% 62% 63% 63% 64% 65% 66% 66% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 78% 78% 79% 80% 80% 81% 82% 82% 83% 84% 85% 85% 86% 87% 87% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%100%
- Post analysis: done
Search end: 12/16/2016, 02:57:51 PM
Search start: 12/16/2016, 02:57:51 PM
- Input file: 20161205_Sample_28A.mzXML
- Load spectra: 97504
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:00:05 PM
Search start: 12/16/2016, 03:00:05 PM
- Input file: 20161205_Sample_28_161205200228.mzXML
- Load spectra: 89036
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:02:06 PM
Search start: 12/16/2016, 03:02:06 PM
- Input file: 20161205_Sample_32.mzXML
- Load spectra: 96374
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:04:21 PM
Search start: 12/16/2016, 03:04:21 PM
- Input file: 20161205_Sample_32A.mzXML
- Load spectra: 96330
- Search progress: 0% 1% 3% 4% 5% 6% 7% 7% 8% 9% 10% 11% 11% 12% 13% 14% 14% 15% 16% 17% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 25% 25% 26% 27% 27% 28% 29% 30% 30% 31% 32% 32% 33% 34% 34% 35% 36% 37% 37% 38% 39% 40% 40% 41% 42% 43% 43% 44% 45% 45% 46% 47% 48% 48% 49% 50% 50% 51% 52% 53% 53% 54% 55% 56% 56% 57% 58% 58% 59% 60% 61% 61% 62% 63% 63% 64% 65% 66% 66% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 78% 78% 79% 80% 80% 81% 82% 82% 83% 84% 85% 85% 86% 87% 87% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%100%
- Post analysis: done
Search end: 12/16/2016, 03:06:36 PM
Search start: 12/16/2016, 03:06:36 PM
- Input file: 20161205_Sample_35.mzXML
- Load spectra: 86040
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:08:28 PM
Search start: 12/16/2016, 03:08:28 PM
- Input file: 20161205_Sample_35A.mzXML
- Load spectra: 84905
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:10:17 PM
Search start: 12/16/2016, 03:10:17 PM
- Input file: 20161205_Sample_36.mzXML
- Load spectra:No index list offset found. File will not be read.
ERROR: Failure reading input file 20161205_Sample_36.mzXML Warning - no spectra searched.
Search end: 12/16/2016, 03:10:17 PM
Search start: 12/16/2016, 03:10:17 PM
- Input file: 20161205_Sample_36A.mzXML
- Load spectra: 95308
- Search progress: 0% 1% 2% 3% 5% 6% 7% 7% 8% 9% 10% 10% 11% 12% 13% 13% 14% 15% 16% 16% 17% 18% 19% 20% 20% 21% 22% 22% 23% 24% 24% 25% 26% 27% 27% 28% 29% 29% 30% 31% 31% 32% 33% 33% 34% 35% 35% 36% 37% 38% 39% 39% 40% 41% 41% 42% 43% 43% 44% 45% 46% 46% 47% 48% 48% 49% 50% 51% 51% 52% 53% 54% 54% 55% 56% 57% 57% 58% 59% 59% 60% 61% 62% 62% 63% 63% 64% 65% 66% 67% 67% 68% 69% 70% 70% 71% 72% 72% 73% 74% 75% 75% 76% 77% 77% 78% 79% 80% 80% 81% 82% 82% 83% 84% 84% 85% 86% 87% 88% 89% 90% 91% 92% 93% 94% 95% 96% 97% 98% 99%
- Post analysis: done
Search end: 12/16/2016, 03:12:31 PMfilelist <- list.files(path = "~/Documents/mzMXL_files", pattern = "*.pep.xml")
for(i in 1:length(filelist)) {
print(paste("/usr/tpp_install/tpp/bin/xinteract", gsub(".pep.xml", "", filelist[i]), " -N", filelist[i], " -p0.9 -OAp -dDECOY_"))
}[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_sample_11A -N 20161205_sample_11A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_11A -N 20161205_Sample_11A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_sample_11A.tmp.hXNSTZ -N 20161205_sample_11A.pep.xml.tmp.hXNSTZ -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_11 -N 20161205_Sample_11.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_12A -N 20161205_Sample_12A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_12 -N 20161205_Sample_12.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_16A -N 20161205_Sample_16A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_16 -N 20161205_Sample_16.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_19A -N 20161205_Sample_19A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_19 -N 20161205_Sample_19.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_1A -N 20161205_Sample_1A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_1 -N 20161205_Sample_1.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_20A -N 20161205_Sample_20A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_20 -N 20161205_Sample_20.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_24A -N 20161205_Sample_24A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_24 -N 20161205_Sample_24.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_27A -N 20161205_Sample_27A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_27 -N 20161205_Sample_27.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_28_161205200228 -N 20161205_Sample_28_161205200228.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_28A -N 20161205_Sample_28A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_28 -N 20161205_Sample_28.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_32A -N 20161205_Sample_32A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_32 -N 20161205_Sample_32.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_35A -N 20161205_Sample_35A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_35 -N 20161205_Sample_35.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_36A -N 20161205_Sample_36A.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract 20161205_Sample_36 -N 20161205_Sample_36.pep.xml -p0.9 -OAp -dDECOY_"
[1] "/usr/tpp_install/tpp/bin/xinteract data -N data.pep.xml -p0.9 -OAp -dDECOY_"