Example program for retrieving input spectrum data.
/* ############################################################################## # file: resfile_input.cpp # # 'msparser' toolkit example code # ############################################################################## # COPYRIGHT NOTICE # # Copyright 1998-2005 Matrix Science Limited All Rights Reserved. # # # ############################################################################## # $Source: parser/examples/test_cxx/resfile_input.cpp $ # # $Author: villek@matrixscience.com $ # # $Date: 2018-07-30 16:23:53 +0100 $ # # $Revision: 1b450440f9c97e1e41d0fc6016a27d68951d4532 | MSPARSER_REL_2_8_1-0-gea32989045 $ # # $NoKeywords:: $ # ############################################################################## */ #include "msparser.hpp" #include <iostream> #include <vector> // All the classes are part of the matrix_science namespace using namespace matrix_science; /*****************************************************************************/ /* Local functions */ /* (This test harness is 'C' and not C++) */ /*****************************************************************************/ static void inputData(ms_mascotresfile & file); /*****************************************************************************/ /* main */ /* Call this program with a single argument - the name of the .dat file */ /*****************************************************************************/ int main(int argc, char * argv[]) { if (argc == 2) { ms_mascotresfile file(argv[1]); if (file.isValid()) { inputData(file); } else std::cout << "Error: " << file.getLastErrorString() << std::endl; } else std::cout << "Must supply the name of a .dat file as a command line argument" << std::endl; return 0; } /*****************************************************************************/ /* inputData */ /* Display input data */ /*****************************************************************************/ static void inputData(ms_mascotresfile & file) { //display input data via inputquery get functions for (int i = 1; i <= 1 /* file.getNumQueries()*/; i++) { std::cout << "Input data for query number " << i << std::endl; std::cout << "=========================================" << std::endl; ms_inputquery q(file, i); std::cout << " title : " << q.getStringTitle(1).c_str()<< std::endl; std::cout << " mass_min : " << q.getMassMin() << std::endl; std::cout << " mass_max : " << q.getMassMax() << std::endl; std::cout << " int_min : " << q.getIntMin() << std::endl; std::cout << " int_max : " << q.getIntMax() << std::endl; std::cout << " num_vals : " << q.getNumVals() << std::endl; std::cout << " num_used1 : " << q.getNumUsed() << std::endl; std::cout << " ions1 : " << q.getStringIons1().c_str() << std::endl; std::cout << " ions2 : " << q.getStringIons2().c_str() << std::endl; std::cout << " ions3 : " << q.getStringIons3().c_str() << std::endl; std::cout << " peptol : " << q.getPepTol() << std::endl; std::cout << " peptol units: " << q.getPepTolUnits().c_str() << std::endl; std::cout << " peptol str : " << q.getPepTolString().c_str()<< std::endl; std::cout << " INSTRUMENT : " << q.getINSTRUMENT().c_str() << std::endl; std::cout << " RULES : " << q.getRULES().c_str() << std::endl; std::cout << " IT_MODS : " << q.getIT_MODS().c_str() << std::endl; std::cout << " repeat srch : " << file.getRepeatSearchString(i).c_str() << std::endl; std::vector< std::pair< double, double > > tmp = q.getPeakList(1); for (unsigned int j=0; j < tmp.size(); j++) { std::cout << tmp[j].first << ", " << tmp[j].second << std::endl; } } std::cout << std::endl; } /* will give the output: Input data for query number 1 ========================================= title : dp210198c 21 Jan 98 DERIVED SPECTRUM P9 mass_min : 214.8 mass_max : 1228.7 int_min : 7 int_max : 114465 num_vals : 443 num_used1 : 0 ions1 : 288.200000:2137,371.127841:1663,472.096295:2.939e+04,567.000000:5.469e+04,663.100000:1.145e+05,758 .200000:7.356e+04,871.200000:2.539e+04,956.100000:2241,1055.000000:1.227e+04,1167.994665:1.725e+04,1215.400000:257,314.2 00000:1308,377.992647:1088,501.400000:1.043e+04,584.997427:3.906e+04,654.180103:3.006e+04,759.300000:1.557e+04,841.90000 0:1.917e+04,972.292156:1874,1056.300000:3799,1169.100000:1.123e+04,1225.200000:58,242.800000:417,377.000000:828,454.1000 00:5162,586.200000:5258,662.700000:1.83e+04,728.800000:1397,842.900000:4893,956.800000:443,1029.300000:1846,1170.200000: 1280,1216.200000:51,313.900000:187,387.200000:656,473.200000:1342,568.100000:5122,663.600000:9782,729.200000:626,872.300 000:4300,973.515686:255,1100.300000:1290,1198.200000:117,1217.500000:45,243.200000:159,379.100000:231,502.400000:556,599 .100000:1504,655.000000:1672,814.100000:277,841.200000:215,958.138974:195,1056.000000:492,1196.900000:96,1226.400000:38, 286.100000:83,408.200000:187,428.200000:283,614.400000:1403,710.900000:1144,730.000000:214,843.600000:194,1011.400000:78 ,1057.200000:416,1198.900000:80,1227.000000:20,289.000000:60,353.300000:136,500.700000:143,551.300000:800,665.994513:565 ,757.300000:182,873.300000:166,955.000000:51,1101.262914:302,1197.600000:53,1228.700000:19,253.900000:44,394.000000:115, 426.400000:75,566.263208:424,665.300000:563,801.800000:171,827.400000:165,1002.100000:46,1030.500000:193,1168.500000:42, 290.200000:25,388.100000:63,444.100000:75,542.000000:399,664.600000:388,760.000000:160,825.200000:76,937.900000:38,1082. 400000:126,1170.500000:40,287.100000:23,342.800000:48,454.900000:64,614.100000:373,644.000000:290,769.300000:111,902.100 000:67,917.300000:37,1029.800000:125,1149.800000:38,214.800000:18,242.100000:19,252.100000:20,315.200000:44,325.800000:1 7,333.100000:21,347.500000:19,348.700000:13,349.500000:23,352.600000:47,359.100000:28,366.000000:36,367.900000:7,376.100 000:14,380.100000:46,407.300000:11,410.900000:22,412.400000:31,418.000000:17,429.900000:57,431.000000:15,436.400000:11,4 44.900000:27,447.200000:18,453.200000:11,455.500000:33,456.100000:14,459.900000:15,461.600000:19,463.300000:7,465.600000 :22,470.400000:12,470.900000:51,474.200000:44,477.100000:15,477.900000:32,483.900000:37,486.200000:20,496.900000:11,497. 600000:14,499.100000:41,503.800000:24,505.400000:22,508.300000:12,508.900000:17,511.800000:19,513.000000:20,515.000000:1 8,517.000000:16,522.100000:58,523.900000:15,524.600000:78,525.300000:19,525.900000:370,526.700000:36,532.900000:11,533.5 00000:14,536.900000:19,538.200000:44,539.261607:224,540.200000:39,541.100000:133,543.043902:41,545.100000:9,545.600000:3 0,547.300000:23,547.900000:13,548.700000:340,549.600000:81,550.200000:41,551.700000:16,552.300000:69,555.500000:29,557.0 68975:361,558.300000:54,560.100000:7,561.100000:24,563.400000:39,564.100000:101,567.600000:35,568.900000:37,569.500000:1 4,570.000000:49,571.100000:45,572.300000:76,574.000000:99,574.600000:22,576.300000:18,580.800000:34,582.300000:41,587.10 0000:131,587.900000:53,590.300000:12,591.800000:17,592.500000:18,594.800000:9,595.300000:56,596.100000:97,596.600000:62, 597.100000:27,597.700000:63,600.000000:57,602.100000:28,603.900000:16,605.200000:69,606.800000:24,607.500000:13,608.5000 00:57,608.800000:12,610.200000:50,610.500000:12,611.200000:96,612.200000:24,613.200000:13,615.000000:194,615.600000:19,6 16.200000:23,618.400000:15,619.100000:31,621.100000:120,621.700000:36,622.600000:11,623.200000:43,624.100000:147,624.800 000:32,626.000000:22,627.000000:53,627.900000:21,628.900000:16,629.500000:29,630.500000:14,631.400000:45,633.200000:61,6 35.000000:58,635.736413:184,636.600000:29,637.500000:78,638.600000:14,639.800000:72,640.500000:51,641.100000:33,641.7000 00:40,642.400000:121,642.800000:170,643.300000:57,644.600000:48,645.700000:36,646.500000:39,647.400000:28,648.500000:30, 649.500000:108,650.000000:13,650.600000:43,651.800000:107,652.300000:33,652.900000:33,656.300000:178,657.100000:78,658.2 00000:19,658.800000:76,660.590741:108,661.900000:216,667.000000:193,677.300000:8,680.500000:13,683.500000:38,684.500000: 28,685.500000:24,686.200000:13,687.275862:87,688.200000:28,688.900000:28,689.400000:50,691.500000:28,692.700000:25,693.2 00000:15,694.000000:31,697.100000:8,698.300000:42,700.300000:17,700.900000:21,703.500000:39,704.200000:20,704.900000:14, 708.300000:15,709.000000:42,711.500000:90,711.800000:119,713.100000:35,715.200000:29,718.500000:57,719.900000:52,721.500 000:78,722.400000:29,725.400000:30,731.100000:13,731.800000:13,734.500000:36,735.300000:46,735.700000:28,738.600000:23,7 39.900000:20,740.500000:81,741.800000:64,744.700000:23,745.500000:18,747.400000:23,751.100000:21,751.900000:34,755.20000 0:13,756.200000:28,760.900000:21,762.800000:19,764.100000:19,767.600000:41,768.200000:75,771.200000:9,771.800000:10,773. 800000:10,776.100000:21,777.500000:39,783.400000:39,785.100000:26,786.800000:15,788.200000:23,789.300000:14,791.700000:2 1,792.600000:29,795.700000:53,796.200000:25,798.900000:13,799.400000:14,800.200000:12,800.700000:32,802.300000:25,802.80 0000:103,804.000000:26,805.200000:83,807.900000:15,808.700000:25,809.800000:36,810.900000:50,811.500000:85,812.100000:36 ,813.400000:22,814.600000:78,815.100000:52,815.900000:25,817.300000:21,821.300000:30,822.000000:9,827.800000:33,828.9000 00:20,832.100000:13,834.800000:18,835.700000:25,836.600000:20,846.700000:8,851.100000:25,852.054545:66,853.200000:20,854 .400000:28,857.000000:21,857.800000:21,859.500000:14,861.100000:17,864.500000:20,867.800000:49,868.800000:47,869.100000: 19,869.700000:22,872.900000:22,877.100000:16,880.800000:20,885.000000:21,885.800000:12,886.300000:16,888.800000:11,890.5 00000:10,899.339024:41,907.800000:39,909.400000:8,911.200000:27,911.900000:9,925.900000:10,928.800000:30,930.700000:26,9 33.700000:9,935.700000:13,945.100000:20,948.900000:10,953.600000:14,960.500000:14,974.100000:36,994.000000:37,1003.30000 0:18,1010.200000:18,1010.800000:27,1012.100000:21,1014.000000:14,1020.100000:20,1021.000000:31,1028.900000:118,1031.0000 00:18,1031.600000:40,1033.100000:14,1037.900000:55,1041.100000:17,1045.300000:13,1054.000000:92,1057.700000:19,1061.9000 00:20,1069.100000:16,1083.600000:41,1093.400000:49,1098.500000:32,1099.800000:46,1102.500000:52,1103.200000:18,1104.5000 00:9,1125.400000:16,1131.800000:24,1132.400000:21,1139.800000:12,1150.800000:22,1152.900000:15,1157.600000:8,1165.300000 :14,1166.700000:11,1178.700000:25,1179.500000:23,1180.400000:25,1185.800000:12,1192.800000:18,1194.800000:12,1214.700000 :35 ions2 : ions3 : ions2 : ions3 : peptol : 0 peptol units: peptol str : repeat srch : 1341.784350 from(671.900000,2+) title(dp210198c%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20%20 %20%20%20%2021%2dJan%2d98%20DERIVED%20SPECTRUM%20%20%20%20%239) query(1) 371.128, 1663 472.096, 29390 567, 54690 663.1, 114500 758.2, 73560 871.2, 25390 956.1, 2241 1055, 12270 1167.99, 17250 1215.4, 257 314.2, 1308 377.993, 1088 501.4, 10430 584.997, 39060 654.18, 30060 759.3, 15570 841.9, 19170 972.292, 1874 1056.3, 3799 1169.1, 11230 1225.2, 58 242.8, 417 377, 828 454.1, 5162 586.2, 5258 662.7, 18300 728.8, 1397 842.9, 4893 956.8, 443 1029.3, 1846 1170.2, 1280 1216.2, 51 313.9, 187 387.2, 656 473.2, 1342 568.1, 5122 663.6, 9782 729.2, 626 872.3, 4300 973.516, 255 1100.3, 1290 1198.2, 117 1217.5, 45 243.2, 159 379.1, 231 502.4, 556 599.1, 1504 655, 1672 814.1, 277 841.2, 215 958.139, 195 1056, 492 1196.9, 96 1226.4, 38 286.1, 83 408.2, 187 428.2, 283 614.4, 1403 710.9, 1144 730, 214 843.6, 194 1011.4, 78 1057.2, 416 1198.9, 80 1227, 20 289, 60 353.3, 136 500.7, 143 551.3, 800 665.995, 565 757.3, 182 873.3, 166 955, 51 1101.26, 302 1197.6, 53 1228.7, 19 253.9, 44 394, 115 426.4, 75 566.263, 424 665.3, 563 801.8, 171 827.4, 165 1002.1, 46 1030.5, 193 1168.5, 42 290.2, 25 388.1, 63 444.1, 75 542, 399 664.6, 388 760, 160 825.2, 76 937.9, 38 1082.4, 126 1170.5, 40 287.1, 23 342.8, 48 454.9, 64 614.1, 373 644, 290 769.3, 111 902.1, 67 917.3, 37 1029.8, 125 1149.8, 38 214.8, 18 242.1, 19 252.1, 20 315.2, 44 325.8, 17 333.1, 21 347.5, 19 348.7, 13 349.5, 23 352.6, 47 359.1, 28 366, 36 367.9, 7 376.1, 14 380.1, 46 407.3, 11 410.9, 22 412.4, 31 418, 17 429.9, 57 431, 15 436.4, 11 444.9, 27 447.2, 18 453.2, 11 455.5, 33 456.1, 14 459.9, 15 461.6, 19 463.3, 7 465.6, 22 470.4, 12 470.9, 51 474.2, 44 477.1, 15 477.9, 32 483.9, 37 486.2, 20 496.9, 11 497.6, 14 499.1, 41 503.8, 24 505.4, 22 508.3, 12 508.9, 17 511.8, 19 513, 20 515, 18 517, 16 522.1, 58 523.9, 15 524.6, 78 525.3, 19 525.9, 370 526.7, 36 532.9, 11 533.5, 14 536.9, 19 538.2, 44 539.262, 224 540.2, 39 541.1, 133 543.044, 41 545.1, 9 545.6, 30 547.3, 23 547.9, 13 548.7, 340 549.6, 81 550.2, 41 551.7, 16 552.3, 69 555.5, 29 557.069, 361 558.3, 54 560.1, 7 561.1, 24 563.4, 39 564.1, 101 567.6, 35 568.9, 37 569.5, 14 570, 49 571.1, 45 572.3, 76 574, 99 574.6, 22 576.3, 18 580.8, 34 582.3, 41 587.1, 131 587.9, 53 590.3, 12 591.8, 17 592.5, 18 594.8, 9 595.3, 56 596.1, 97 596.6, 62 597.1, 27 597.7, 63 600, 57 602.1, 28 603.9, 16 605.2, 69 606.8, 24 607.5, 13 608.5, 57 608.8, 12 610.2, 50 610.5, 12 611.2, 96 612.2, 24 613.2, 13 615, 194 615.6, 19 616.2, 23 618.4, 15 619.1, 31 621.1, 120 621.7, 36 622.6, 11 623.2, 43 624.1, 147 624.8, 32 626, 22 627, 53 627.9, 21 628.9, 16 629.5, 29 630.5, 14 631.4, 45 633.2, 61 635, 58 635.736, 184 636.6, 29 637.5, 78 638.6, 14 639.8, 72 640.5, 51 641.1, 33 641.7, 40 642.4, 121 642.8, 170 643.3, 57 644.6, 48 645.7, 36 646.5, 39 647.4, 28 648.5, 30 649.5, 108 650, 13 650.6, 43 651.8, 107 652.3, 33 652.9, 33 656.3, 178 657.1, 78 658.2, 19 658.8, 76 660.591, 108 661.9, 216 667, 193 677.3, 8 680.5, 13 683.5, 38 684.5, 28 685.5, 24 686.2, 13 687.276, 87 688.2, 28 688.9, 28 689.4, 50 691.5, 28 692.7, 25 693.2, 15 694, 31 697.1, 8 698.3, 42 700.3, 17 700.9, 21 703.5, 39 704.2, 20 704.9, 14 708.3, 15 709, 42 711.5, 90 711.8, 119 713.1, 35 715.2, 29 718.5, 57 719.9, 52 721.5, 78 722.4, 29 725.4, 30 731.1, 13 731.8, 13 734.5, 36 735.3, 46 735.7, 28 738.6, 23 739.9, 20 740.5, 81 741.8, 64 744.7, 23 745.5, 18 747.4, 23 751.1, 21 751.9, 34 755.2, 13 756.2, 28 760.9, 21 762.8, 19 764.1, 19 767.6, 41 768.2, 75 771.2, 9 771.8, 10 773.8, 10 776.1, 21 777.5, 39 783.4, 39 785.1, 26 786.8, 15 788.2, 23 789.3, 14 791.7, 21 792.6, 29 795.7, 53 796.2, 25 798.9, 13 799.4, 14 800.2, 12 800.7, 32 802.3, 25 802.8, 103 804, 26 805.2, 83 807.9, 15 808.7, 25 809.8, 36 810.9, 50 811.5, 85 812.1, 36 813.4, 22 814.6, 78 815.1, 52 815.9, 25 817.3, 21 821.3, 30 822, 9 827.8, 33 828.9, 20 832.1, 13 834.8, 18 835.7, 25 836.6, 20 846.7, 8 851.1, 25 852.055, 66 853.2, 20 854.4, 28 857, 21 857.8, 21 859.5, 14 861.1, 17 864.5, 20 867.8, 49 868.8, 47 869.1, 19 869.7, 22 872.9, 22 877.1, 16 880.8, 20 885, 21 885.8, 12 886.3, 16 888.8, 11 890.5, 10 899.339, 41 907.8, 39 909.4, 8 911.2, 27 911.9, 9 925.9, 10 928.8, 30 930.7, 26 933.7, 9 935.7, 13 945.1, 20 948.9, 10 953.6, 14 960.5, 14 974.1, 36 994, 37 1003.3, 18 1010.2, 18 1010.8, 27 1012.1, 21 1014, 14 1020.1, 20 1021, 31 1028.9, 118 1031, 18 1031.6, 40 1033.1, 14 1037.9, 55 1041.1, 17 1045.3, 13 1054, 92 1057.7, 19 1061.9, 20 1069.1, 16 1083.6, 41 1093.4, 49 1098.5, 32 1099.8, 46 1102.5, 52 1103.2, 18 1104.5, 9 1125.4, 16 1131.8, 24 1132.4, 21 1139.8, 12 1150.8, 22 1152.9, 15 1157.6, 8 1165.3, 14 1166.7, 11 1178.7, 25 1179.5, 23 1180.4, 25 1185.8, 12 1192.8, 18 1194.8, 12 1214.7, 35 */
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