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1 :	agomez	1	This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012) (format=pdflatex 2012.6.28) 15 AUG 2012 10:12
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5 :			**userguide.tex
6 :			(./userguide.tex
7 :			LaTeX2e <2011/06/27>
8 :			Babel <v3.8m> and hyphenation patterns for english, dumylang, nohyphenation, lo
9 :			aded.
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146 :			[1
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151 :			Chapter 1.
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171 :			[]\T1/ppl/m/n/10 the di-rec-tory spec-i-fied by the Linux en-vi-ron-ment vari-a
172 :			ble called ''GAD-GET_WORKING_DIR'',
173 :			[]
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175 :			[3]
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203 :			Chapter 2.
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208 :			[]\T1/ppl/m/n/10 where the $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 numerical part$\O
209 :			ML/cmm/m/it/10 >$ \T1/ppl/m/n/10 con-sists of the (op-tional) ini-tial value fo
210 :			r the switch, and the $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 name$\OML/cmm/m/it/10
211 :			>$
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221 :			Chapter 3.
222 :
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224 :			\T1/ppl/m/n/10 The main Gad-get in-put file is usu-ally called ''main'', un-les
225 :			s it is spec-i-fied with the ''-main $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 filenam
226 :			e$\OML/cmm/m/it/10 >$\T1/ppl/m/n/10 ''
227 :			[]
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233 :			[]\T1/ppl/m/n/10 This ex-am-ple shows that the the pa-ram-e-ter ''grow1995'' is
234 :			to be used for growth in 1995, ''grow1996''
235 :			[]
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237 :			[13] [14
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240 :			Chapter 4.
241 :			[15]
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293 :			1.
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387 :			4.
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460 :			28.
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475 :			608.
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479 :			14.
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484 :			6.
485 :
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488 :			]
489 :			Chapter 5.
490 :
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492 :			89.
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497 :			[39] [40]
498 :			Chapter 6.
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504 :			Chapter 7.
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553 :			Chapter 8.
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572 :			[]
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577 :			5.
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582 :			6.
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621 :
622 :			LaTeX Warning: Reference `eq:catchdist6b' on page 54 undefined on input line 22
623 :			87.
624 :
625 :			[54] [55]
626 :
627 :			LaTeX Warning: Reference `eq:catchstat1' on page 56 undefined on input line 234
628 :			9.
629 :
630 :
631 :			Overfull \hbox (2.72078pt too wide) in paragraph at lines 2368--2369
632 :			[]\T1/ppl/m/n/10 where $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 number$\OML/cmm/m/it/
633 :			10 >$ \T1/ppl/m/n/10 is the num-ber of sam-ples for the timestep/area/age com-b
634 :			i-na-tion, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 mean$\OML/cmm/m/it/10 >$
635 :			[]
636 :
637 :
638 :			LaTeX Warning: Reference `eq:catchstat2' on page 56 undefined on input line 237
639 :			1.
640 :
641 :
642 :			LaTeX Warning: Reference `eq:catchstat3' on page 56 undefined on input line 239
643 :			3.
644 :
645 :			[56]
646 :
647 :			LaTeX Warning: Reference `eq:catchstat4' on page 57 undefined on input line 241
648 :			5.
649 :
650 :
651 :			Overfull \hbox (2.72078pt too wide) in paragraph at lines 2433--2434
652 :			[]\T1/ppl/m/n/10 where $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 number$\OML/cmm/m/it/
653 :			10 >$ \T1/ppl/m/n/10 is the num-ber of sam-ples for the timestep/area/age com-b
654 :			i-na-tion, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 mean$\OML/cmm/m/it/10 >$
655 :			[]
656 :
657 :
658 :			LaTeX Warning: Reference `eq:catchstat5' on page 57 undefined on input line 243
659 :			6.
660 :
661 :			[57]
662 :			Overfull \hbox (2.72078pt too wide) in paragraph at lines 2454--2455
663 :			[]\T1/ppl/m/n/10 where $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 number$\OML/cmm/m/it/
664 :			10 >$ \T1/ppl/m/n/10 is the num-ber of sam-ples for the timestep/area/age com-b
665 :			i-na-tion, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 mean$\OML/cmm/m/it/10 >$
666 :			[]
667 :
668 :			[58]
669 :
670 :			LaTeX Warning: Reference `eq:stockdist2' on page 59 undefined on input line 250
671 :			3.
672 :
673 :
674 :			LaTeX Warning: Reference `eq:stockdist1' on page 59 undefined on input line 251
675 :			4.
676 :
677 :
678 :			LaTeX Warning: Reference `eq:surveyindex' on page 59 undefined on input line 25
679 :			25.
680 :
681 :			[59] [60] [61]
682 :
683 :			LaTeX Warning: Reference `subsec:sibylength' on page 62 undefined on input line
684 :			2702.
685 :
686 :			[62]
687 :
688 :			LaTeX Warning: Reference `subsec:sibylength' on page 63 undefined on input line
689 :			2732.
690 :
691 :
692 :			LaTeX Warning: Reference `subsec:sibylength' on page 63 undefined on input line
693 :			2761.
694 :
695 :			[63]
696 :
697 :			LaTeX Warning: Reference `subsec:sibylength' on page 64 undefined on input line
698 :			2790.
699 :
700 :
701 :			LaTeX Warning: Reference `sec:suitability' on page 64 undefined on input line 2
702 :			815.
703 :
704 :			[64]
705 :
706 :			LaTeX Warning: Reference `eq:surveydistfit1' on page 65 undefined on input line
707 :			2846.
708 :
709 :
710 :			LaTeX Warning: Reference `eq:surveydistfit1' on page 65 undefined on input line
711 :			2857.
712 :
713 :
714 :			LaTeX Warning: Reference `eq:surveydist1' on page 65 undefined on input line 28
715 :			68.
716 :
717 :			[65]
718 :
719 :			LaTeX Warning: Reference `eq:surveydist2' on page 66 undefined on input line 28
720 :			79.
721 :
722 :
723 :			LaTeX Warning: Reference `eq:surveydist3' on page 66 undefined on input line 28
724 :			90.
725 :
726 :
727 :			LaTeX Warning: Reference `eq:surveydist4' on page 66 undefined on input line 29
728 :			01.
729 :
730 :			[66]
731 :			Overfull \hbox (5.62071pt too wide) in paragraph at lines 2963--2964
732 :			\T1/ppl/m/n/10 timestep/area com-bi-na-tion, where $\OML/cmm/m/it/10 <$\T1/ppl/
733 :			m/n/10 prey$\OML/cmm/m/it/10 >$ \T1/ppl/m/n/10 is de-fined in the prey ag-gre-g
734 :			a-tion file, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 predator$\OML/cmm/m/it/10 >
735 :			$
736 :			[]
737 :
738 :
739 :			LaTeX Warning: Reference `eq:stomach1' on page 67 undefined on input line 2966.
740 :
741 :
742 :			[67]
743 :
744 :			LaTeX Warning: Reference `eq:recap1' on page 68 undefined on input line 3024.
745 :
746 :
747 :			LaTeX Warning: Reference `sec:catchstat' on page 68 undefined on input line 303
748 :			5.
749 :
750 :			[68]
751 :
752 :			LaTeX Warning: Reference `eq:recstat1' on page 69 undefined on input line 3062.
753 :
754 :
755 :
756 :			Overfull \hbox (1.19075pt too wide) in paragraph at lines 3081--3082
757 :			[]\T1/ppl/m/n/10 where $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 number$\OML/cmm/m/it/
758 :			10 >$ \T1/ppl/m/n/10 is the num-ber of sam-ples for the tag/timestep/area com-b
759 :			i-na-tion, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 mean$\OML/cmm/m/it/10 >$
760 :			[]
761 :
762 :
763 :			LaTeX Warning: Reference `eq:recstat2' on page 69 undefined on input line 3084.
764 :
765 :
766 :			[69]
767 :
768 :			LaTeX Warning: Reference `eq:recstat3' on page 70 undefined on input line 3106.
769 :
770 :
771 :
772 :			Overfull \hbox (1.19075pt too wide) in paragraph at lines 3124--3125
773 :			[]\T1/ppl/m/n/10 where $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 number$\OML/cmm/m/it/
774 :			10 >$ \T1/ppl/m/n/10 is the num-ber of sam-ples for the tag/timestep/area com-b
775 :			i-na-tion, and $\OML/cmm/m/it/10 <$\T1/ppl/m/n/10 mean$\OML/cmm/m/it/10 >$
776 :			[]
777 :
778 :			[70]
779 :
780 :			LaTeX Warning: Reference `chap:fleet' on page 71 undefined on input line 3151.
781 :
782 :			[71]
783 :
784 :			LaTeX Warning: Reference `eq:catchtons' on page 72 undefined on input line 3198
785 :			.
786 :
787 :			[72]
788 :			Chapter 9.
789 :			[73
790 :
791 :			]
792 :
793 :			LaTeX Warning: Reference `chap:order' on page 74 undefined on input line 3262.
794 :
795 :			[74]
796 :
797 :			LaTeX Warning: Reference `chap:order' on page 75 undefined on input line 3295.
798 :
799 :
800 :			LaTeX Warning: Reference `chap:order' on page 75 undefined on input line 3330.
801 :
802 :			[75] [76]
803 :			Overfull \hbox (17.93793pt too wide) in paragraph at lines 3404--3405
804 :			[]\T1/ppl/m/n/10 The out-put that is gen-er-ated from this printer type is a fi
805 :			le con-tain-ing the fol-low-ing over-consumption
806 :			[]
807 :
808 :
809 :			Overfull \hbox (17.93793pt too wide) in paragraph at lines 3435--3436
810 :			[]\T1/ppl/m/n/10 The out-put that is gen-er-ated from this printer type is a fi
811 :			le con-tain-ing the fol-low-ing over-consumption
812 :			[]
813 :
814 :			[77] [78] [79]
815 :
816 :			LaTeX Warning: Reference `sec:catchdist' on page 80 undefined on input line 355
817 :			3.
818 :
819 :
820 :			LaTeX Warning: Reference `sec:catchstat' on page 80 undefined on input line 355
821 :			7.
822 :
823 :
824 :			LaTeX Warning: Reference `sec:surveyindices' on page 80 undefined on input line
825 :			3561.
826 :
827 :			[80]
828 :			Chapter 10.
829 :
830 :			LaTeX Warning: Reference `sec:whatdoeshash' on page 81 undefined on input line
831 :			3588.
832 :
833 :			[81
834 :
835 :			] [82
836 :
837 :			]
838 :			Chapter 11.
839 :			[83] [84]
840 :
841 :			LaTeX Warning: Reference `eq:metropolis' on page 85 undefined on input line 366
842 :			9.
843 :
844 :			[85] [86]
845 :
846 :			LaTeX Warning: Reference `eq:metropolis' on page 87 undefined on input line 372
847 :			3.
848 :
849 :			[87]
850 :
851 :			LaTeX Warning: Reference `eq:vm' on page 88 undefined on input line 3744.
852 :
853 :			[88]
854 :
855 :			LaTeX Warning: Reference `eq:armijo' on page 89 undefined on input line 3775.
856 :
857 :			[89]
858 :
859 :			LaTeX Warning: Reference `eq:armijo' on page 90 undefined on input line 3813.
860 :
861 :
862 :			LaTeX Warning: Reference `eq:grad' on page 90 undefined on input line 3821.
863 :
864 :			[90]
865 :
866 :			LaTeX Warning: Reference `subsec:hookepar' on page 91 undefined on input line 3
867 :			874.
868 :
869 :
870 :			LaTeX Warning: Reference `subsec:simannpar' on page 91 undefined on input line
871 :			3874.
872 :
873 :
874 :			LaTeX Warning: Reference `subsec:bfgspar' on page 91 undefined on input line 38
875 :			74.
876 :
877 :			[91] [92]
878 :			Chapter 12.
879 :
880 :			LaTeX Warning: Reference `chap:print' on page 93 undefined on input line 3889.
881 :
882 :			[93
883 :
884 :			] [94]
885 :			Chapter 13.
886 :			[95
887 :
888 :			]
889 :
890 :			LaTeX Warning: Reference `chap:param' on page 96 undefined on input line 4012.
891 :
892 :
893 :			LaTeX Warning: Reference `chap:param' on page 96 undefined on input line 4018.
894 :
895 :
896 :			Underfull \hbox (badness 10000) in paragraph at lines 4010--4026
897 :
898 :			[]
899 :
900 :
901 :			Underfull \hbox (badness 10000) in paragraph at lines 4010--4026
902 :
903 :			[]
904 :
905 :
906 :			Underfull \hbox (badness 10000) in paragraph at lines 4034--4043
907 :
908 :			[]
909 :
910 :
911 :			Underfull \hbox (badness 10000) in paragraph at lines 4044--4060
912 :
913 :			[]
914 :
915 :
916 :			Underfull \hbox (badness 10000) in paragraph at lines 4044--4060
917 :
918 :			[]
919 :
920 :			[96] [97] [98
921 :
922 :			]
923 :			Chapter 14.
924 :
925 :			Underfull \hbox (badness 10000) in paragraph at lines 4089--4090
926 :
927 :			[]
928 :
929 :
930 :			Underfull \hbox (badness 10000) in paragraph at lines 4091--4092
931 :
932 :			[]
933 :
934 :
935 :			Underfull \hbox (badness 10000) in paragraph at lines 4093--4094
936 :
937 :			[]
938 :
939 :
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941 :
942 :			[]
943 :
944 :
945 :			Underfull \hbox (badness 10000) in paragraph at lines 4097--4098
946 :
947 :			[]
948 :
949 :
950 :			Underfull \hbox (badness 10000) in paragraph at lines 4099--4100
951 :
952 :			[]
953 :
954 :
955 :			Underfull \hbox (badness 10000) in paragraph at lines 4101--4102
956 :
957 :			[]
958 :
959 :
960 :			Underfull \hbox (badness 10000) in paragraph at lines 4103--4104
961 :
962 :			[]
963 :
964 :
965 :			Underfull \hbox (badness 10000) in paragraph at lines 4105--4106
966 :
967 :			[]
968 :
969 :
970 :			Underfull \hbox (badness 10000) in paragraph at lines 4107--4108
971 :
972 :			[]
973 :
974 :
975 :			Underfull \hbox (badness 10000) in paragraph at lines 4109--4110
976 :
977 :			[]
978 :
979 :
980 :			Underfull \hbox (badness 10000) in paragraph at lines 4111--4112
981 :
982 :			[]
983 :
984 :			[99]
985 :			Underfull \hbox (badness 10000) in paragraph at lines 4113--4114
986 :
987 :			[]
988 :
989 :
990 :			Underfull \hbox (badness 10000) in paragraph at lines 4115--4116
991 :
992 :			[]
993 :
994 :			[100]
995 :			Appendix A.
996 :
997 :			LaTeX Warning: Reference `sec:stockmigrate' on page 101 undefined on input line
998 :			4123.
999 :
1000 :
1001 :			LaTeX Warning: Reference `sec:stockmature' on page 101 undefined on input line
1002 :			4133.
1003 :
1004 :
1005 :			LaTeX Warning: Reference `sec:stockstray' on page 101 undefined on input line 4
1006 :			137.
1007 :
1008 :			[101
1009 :
1010 :			]
1011 :
1012 :			LaTeX Warning: Reference `sec:stockmove' on page 102 undefined on input line 41
1013 :			40.
1014 :
1015 :			[102]
1016 :			Appendix B.
1017 :
1018 :			LaTeX Warning: Reference `chap:fleet' on page 103 undefined on input line 4148.
1019 :
1020 :
1021 :
1022 :			LaTeX Warning: Reference `sec:suitability' on page 103 undefined on input line
1023 :			4149.
1024 :
1025 :
1026 :			LaTeX Warning: Reference `sec:numberfleet' on page 103 undefined on input line
1027 :			4150.
1028 :
1029 :
1030 :			LaTeX Warning: Reference `sec:stockprey' on page 103 undefined on input line 41
1031 :			51.
1032 :
1033 :
1034 :			LaTeX Warning: Reference `chap:other' on page 103 undefined on input line 4151.
1035 :
1036 :
1037 :
1038 :			LaTeX Warning: Reference `sec:stockmigrate' on page 103 undefined on input line
1039 :			4156.
1040 :
1041 :
1042 :			LaTeX Warning: Reference `sec:consumption' on page 103 undefined on input line
1043 :			4157.
1044 :
1045 :
1046 :			LaTeX Warning: Reference `sec:foodamounts' on page 103 undefined on input line
1047 :			4162.
1048 :
1049 :
1050 :			LaTeX Warning: Reference `sec:effortfleet' on page 103 undefined on input line
1051 :			4163.
1052 :
1053 :
1054 :			LaTeX Warning: Reference `sec:stockpreyprinter' on page 103 undefined on input
1055 :			line 4164.
1056 :
1057 :
1058 :			LaTeX Warning: Reference `sec:predatorpreyprinter' on page 103 undefined on inp
1059 :			ut line 4165.
1060 :
1061 :
1062 :			LaTeX Warning: Reference `sec:understocking' on page 103 undefined on input lin
1063 :			e 4170.
1064 :
1065 :			[103
1066 :
1067 :			]
1068 :
1069 :			LaTeX Warning: Reference `sec:quotafleet' on page 104 undefined on input line 4
1070 :			175.
1071 :
1072 :
1073 :			LaTeX Warning: Reference `subsec:sibyacoustic' on page 104 undefined on input l
1074 :			ine 4176.
1075 :
1076 :
1077 :			LaTeX Warning: Reference `subsec:sibyeffort' on page 104 undefined on input lin
1078 :			e 4177.
1079 :
1080 :
1081 :			LaTeX Warning: Reference `sec:likelihoodprinter' on page 104 undefined on input
1082 :			line 4178.
1083 :
1084 :
1085 :			LaTeX Warning: Reference `sec:consumption' on page 104 undefined on input line
1086 :			4179.
1087 :
1088 :			[104] (./userguide.aux)
1089 :
1090 :			LaTeX Warning: There were undefined references.
1091 :
1092 :
1093 :			LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right.
1094 :
1095 :			)
1096 :			Here is how much of TeX's memory you used:
1097 :			1530 strings out of 495063
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1100 :			4725 multiletter control sequences out of 15000+200000
1101 :			29755 words of font info for 60 fonts, out of 3000000 for 9000
1102 :			14 hyphenation exceptions out of 8191
1103 :			32i,17n,48p,1415b,420s stack positions out of 5000i,500n,10000p,200000b,50000s
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1119 :			Output written on userguide.pdf (108 pages, 407312 bytes).
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