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1 # Makefile.in generated by automake 1.10.1 from Makefile.am.
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2 # @configure_input@
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3
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4 # Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
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5 # 2003, 2004, 2005, 2006, 2007, 2008 Free Software Foundation, Inc.
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6 # This Makefile.in is free software; the Free Software Foundation
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7 # gives unlimited permission to copy and/or distribute it,
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8 # with or without modifications, as long as this notice is preserved.
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9
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10 # This program is distributed in the hope that it will be useful,
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11 # but WITHOUT ANY WARRANTY, to the extent permitted by law; without
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12 # even the implied warranty of MERCHANTABILITY or FITNESS FOR A
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13 # PARTICULAR PURPOSE.
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14
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15 @SET_MAKE@
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16
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17 # Copyright (C) 2008 Assaf Gordon <gordon@cshl.edu>
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18 #
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19 # This file is free software; as a special exception the author gives
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20 # unlimited permission to copy and/or distribute it, with or without
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21 # modifications, as long as this notice is preserved.
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22 #
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23 # This program is distributed in the hope that it will be useful, but
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24 # WITHOUT ANY WARRANTY, to the extent permitted by law; without even the
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25 # implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
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26 VPATH = @srcdir@
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27 pkgdatadir = $(datadir)/@PACKAGE@
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28 pkglibdir = $(libdir)/@PACKAGE@
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29 pkgincludedir = $(includedir)/@PACKAGE@
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30 am__cd = CDPATH="$${ZSH_VERSION+.}$(PATH_SEPARATOR)" && cd
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31 install_sh_DATA = $(install_sh) -c -m 644
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32 install_sh_PROGRAM = $(install_sh) -c
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33 install_sh_SCRIPT = $(install_sh) -c
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34 INSTALL_HEADER = $(INSTALL_DATA)
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35 transform = $(program_transform_name)
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36 NORMAL_INSTALL = :
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37 PRE_INSTALL = :
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38 POST_INSTALL = :
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39 NORMAL_UNINSTALL = :
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40 PRE_UNINSTALL = :
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41 POST_UNINSTALL = :
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42 build_triplet = @build@
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43 host_triplet = @host@
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44 subdir = src
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45 DIST_COMMON = $(srcdir)/Makefile.am $(srcdir)/Makefile.in
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46 ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
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47 am__aclocal_m4_deps = $(top_srcdir)/configure.ac
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48 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
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49 $(ACLOCAL_M4)
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50 mkinstalldirs = $(install_sh) -d
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51 CONFIG_HEADER = $(top_builddir)/config.h
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52 CONFIG_CLEAN_FILES =
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53 SOURCES =
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54 DIST_SOURCES =
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55 RECURSIVE_TARGETS = all-recursive check-recursive dvi-recursive \
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56 html-recursive info-recursive install-data-recursive \
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57 install-dvi-recursive install-exec-recursive \
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58 install-html-recursive install-info-recursive \
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59 install-pdf-recursive install-ps-recursive install-recursive \
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60 installcheck-recursive installdirs-recursive pdf-recursive \
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61 ps-recursive uninstall-recursive
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62 RECURSIVE_CLEAN_TARGETS = mostlyclean-recursive clean-recursive \
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63 distclean-recursive maintainer-clean-recursive
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64 ETAGS = etags
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65 CTAGS = ctags
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66 DIST_SUBDIRS = $(SUBDIRS)
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67 DISTFILES = $(DIST_COMMON) $(DIST_SOURCES) $(TEXINFOS) $(EXTRA_DIST)
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68 ACLOCAL = @ACLOCAL@
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69 AMTAR = @AMTAR@
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70 AUTOCONF = @AUTOCONF@
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71 AUTOHEADER = @AUTOHEADER@
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72 AUTOMAKE = @AUTOMAKE@
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73 AWK = @AWK@
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74 CC = @CC@
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75 CCDEPMODE = @CCDEPMODE@
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76 CFLAGS = @CFLAGS@
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77 CPP = @CPP@
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78 CPPFLAGS = @CPPFLAGS@
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79 CXX = @CXX@
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80 CXXCPP = @CXXCPP@
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81 CXXDEPMODE = @CXXDEPMODE@
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82 CXXFLAGS = @CXXFLAGS@
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83 CYGPATH_W = @CYGPATH_W@
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84 DEFS = @DEFS@
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85 DEPDIR = @DEPDIR@
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86 ECHO_C = @ECHO_C@
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87 ECHO_N = @ECHO_N@
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88 ECHO_T = @ECHO_T@
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89 EGREP = @EGREP@
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90 EXEEXT = @EXEEXT@
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91 GREP = @GREP@
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92 INSTALL = @INSTALL@
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93 INSTALL_DATA = @INSTALL_DATA@
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94 INSTALL_PROGRAM = @INSTALL_PROGRAM@
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95 INSTALL_SCRIPT = @INSTALL_SCRIPT@
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96 INSTALL_STRIP_PROGRAM = @INSTALL_STRIP_PROGRAM@
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97 LDFLAGS = @LDFLAGS@
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98 LIBOBJS = @LIBOBJS@
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99 LIBS = @LIBS@
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100 LTLIBOBJS = @LTLIBOBJS@
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101 MAKEINFO = @MAKEINFO@
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102 MKDIR_P = @MKDIR_P@
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103 OBJEXT = @OBJEXT@
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104 PACKAGE = @PACKAGE@
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105 PACKAGE_BUGREPORT = @PACKAGE_BUGREPORT@
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106 PACKAGE_NAME = @PACKAGE_NAME@
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107 PACKAGE_STRING = @PACKAGE_STRING@
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108 PACKAGE_TARNAME = @PACKAGE_TARNAME@
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109 PACKAGE_VERSION = @PACKAGE_VERSION@
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110 PATH_SEPARATOR = @PATH_SEPARATOR@
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111 RANLIB = @RANLIB@
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112 SET_MAKE = @SET_MAKE@
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113 SHELL = @SHELL@
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114 STRIP = @STRIP@
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115 VERSION = @VERSION@
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116 abs_builddir = @abs_builddir@
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117 abs_srcdir = @abs_srcdir@
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118 abs_top_builddir = @abs_top_builddir@
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119 abs_top_srcdir = @abs_top_srcdir@
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120 ac_ct_CC = @ac_ct_CC@
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121 ac_ct_CXX = @ac_ct_CXX@
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122 am__include = @am__include@
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123 am__leading_dot = @am__leading_dot@
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124 am__quote = @am__quote@
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125 am__tar = @am__tar@
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126 am__untar = @am__untar@
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127 bindir = @bindir@
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128 build = @build@
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129 build_alias = @build_alias@
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130 build_cpu = @build_cpu@
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131 build_os = @build_os@
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132 build_vendor = @build_vendor@
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133 builddir = @builddir@
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134 canonical_host_type = @canonical_host_type@
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135 datadir = @datadir@
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136 datarootdir = @datarootdir@
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137 docdir = @docdir@
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138 dvidir = @dvidir@
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139 exec_prefix = @exec_prefix@
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140 host = @host@
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141 host_alias = @host_alias@
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142 host_cpu = @host_cpu@
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143 host_os = @host_os@
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144 host_vendor = @host_vendor@
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145 htmldir = @htmldir@
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146 includedir = @includedir@
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147 infodir = @infodir@
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148 install_sh = @install_sh@
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149 libdir = @libdir@
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150 libexecdir = @libexecdir@
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151 localedir = @localedir@
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152 localstatedir = @localstatedir@
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153 mandir = @mandir@
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154 mkdir_p = @mkdir_p@
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155 oldincludedir = @oldincludedir@
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156 pdfdir = @pdfdir@
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157 prefix = @prefix@
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158 program_transform_name = @program_transform_name@
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159 psdir = @psdir@
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160 sbindir = @sbindir@
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161 sharedstatedir = @sharedstatedir@
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162 srcdir = @srcdir@
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163 sysconfdir = @sysconfdir@
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164 target_alias = @target_alias@
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165 top_builddir = @top_builddir@
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166 top_srcdir = @top_srcdir@
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167 SUBDIRS = libfastx \
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168 fastx_clipper \
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169 fastx_trimmer \
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170 fastx_quality_stats \
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171 fastq_quality_converter \
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172 fastq_to_fasta \
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173 fastq_quality_filter \
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174 fastx_artifacts_filter \
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175 fastx_reverse_complement \
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176 fastx_collapser \
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177 seqalign_test
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178
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179 all: all-recursive
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180
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181 .SUFFIXES:
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182 $(srcdir)/Makefile.in: $(srcdir)/Makefile.am $(am__configure_deps)
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183 @for dep in $?; do \
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184 case '$(am__configure_deps)' in \
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185 *$$dep*) \
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186 cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh \
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187 && exit 0; \
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188 exit 1;; \
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189 esac; \
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190 done; \
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191 echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu src/Makefile'; \
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192 cd $(top_srcdir) && \
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193 $(AUTOMAKE) --gnu src/Makefile
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194 .PRECIOUS: Makefile
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195 Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
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196 @case '$?' in \
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197 *config.status*) \
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198 cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
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199 *) \
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200 echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
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201 cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
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202 esac;
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203
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204 $(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
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205 cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
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206
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207 $(top_srcdir)/configure: $(am__configure_deps)
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208 cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
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209 $(ACLOCAL_M4): $(am__aclocal_m4_deps)
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210 cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
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211
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212 # This directory's subdirectories are mostly independent; you can cd
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213 # into them and run `make' without going through this Makefile.
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214 # To change the values of `make' variables: instead of editing Makefiles,
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215 # (1) if the variable is set in `config.status', edit `config.status'
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216 # (which will cause the Makefiles to be regenerated when you run `make');
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217 # (2) otherwise, pass the desired values on the `make' command line.
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218 $(RECURSIVE_TARGETS):
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219 @failcom='exit 1'; \
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220 for f in x $$MAKEFLAGS; do \
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221 case $$f in \
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222 *=* | --[!k]*);; \
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223 *k*) failcom='fail=yes';; \
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224 esac; \
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225 done; \
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226 dot_seen=no; \
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227 target=`echo $@ | sed s/-recursive//`; \
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228 list='$(SUBDIRS)'; for subdir in $$list; do \
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229 echo "Making $$target in $$subdir"; \
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230 if test "$$subdir" = "."; then \
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231 dot_seen=yes; \
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232 local_target="$$target-am"; \
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233 else \
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234 local_target="$$target"; \
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235 fi; \
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236 (cd $$subdir && $(MAKE) $(AM_MAKEFLAGS) $$local_target) \
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237 || eval $$failcom; \
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238 done; \
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239 if test "$$dot_seen" = "no"; then \
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240 $(MAKE) $(AM_MAKEFLAGS) "$$target-am" || exit 1; \
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241 fi; test -z "$$fail"
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242
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243 $(RECURSIVE_CLEAN_TARGETS):
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244 @failcom='exit 1'; \
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245 for f in x $$MAKEFLAGS; do \
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246 case $$f in \
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247 *=* | --[!k]*);; \
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248 *k*) failcom='fail=yes';; \
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249 esac; \
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250 done; \
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251 dot_seen=no; \
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252 case "$@" in \
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253 distclean-* | maintainer-clean-*) list='$(DIST_SUBDIRS)' ;; \
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254 *) list='$(SUBDIRS)' ;; \
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255 esac; \
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256 rev=''; for subdir in $$list; do \
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257 if test "$$subdir" = "."; then :; else \
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258 rev="$$subdir $$rev"; \
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259 fi; \
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260 done; \
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261 rev="$$rev ."; \
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262 target=`echo $@ | sed s/-recursive//`; \
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263 for subdir in $$rev; do \
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264 echo "Making $$target in $$subdir"; \
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265 if test "$$subdir" = "."; then \
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266 local_target="$$target-am"; \
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267 else \
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268 local_target="$$target"; \
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269 fi; \
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270 (cd $$subdir && $(MAKE) $(AM_MAKEFLAGS) $$local_target) \
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271 || eval $$failcom; \
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272 done && test -z "$$fail"
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273 tags-recursive:
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274 list='$(SUBDIRS)'; for subdir in $$list; do \
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275 test "$$subdir" = . || (cd $$subdir && $(MAKE) $(AM_MAKEFLAGS) tags); \
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276 done
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277 ctags-recursive:
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278 list='$(SUBDIRS)'; for subdir in $$list; do \
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279 test "$$subdir" = . || (cd $$subdir && $(MAKE) $(AM_MAKEFLAGS) ctags); \
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280 done
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281
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282 ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
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283 list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
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284 unique=`for i in $$list; do \
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285 if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
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286 done | \
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287 $(AWK) '{ files[$$0] = 1; nonemtpy = 1; } \
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288 END { if (nonempty) { for (i in files) print i; }; }'`; \
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289 mkid -fID $$unique
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290 tags: TAGS
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291
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292 TAGS: tags-recursive $(HEADERS) $(SOURCES) $(TAGS_DEPENDENCIES) \
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293 $(TAGS_FILES) $(LISP)
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294 tags=; \
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295 here=`pwd`; \
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296 if ($(ETAGS) --etags-include --version) >/dev/null 2>&1; then \
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297 include_option=--etags-include; \
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298 empty_fix=.; \
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299 else \
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300 include_option=--include; \
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301 empty_fix=; \
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302 fi; \
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303 list='$(SUBDIRS)'; for subdir in $$list; do \
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304 if test "$$subdir" = .; then :; else \
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305 test ! -f $$subdir/TAGS || \
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306 tags="$$tags $$include_option=$$here/$$subdir/TAGS"; \
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307 fi; \
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308 done; \
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309 list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
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310 unique=`for i in $$list; do \
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311 if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
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312 done | \
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313 $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
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314 END { if (nonempty) { for (i in files) print i; }; }'`; \
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315 if test -z "$(ETAGS_ARGS)$$tags$$unique"; then :; else \
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316 test -n "$$unique" || unique=$$empty_fix; \
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317 $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
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318 $$tags $$unique; \
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319 fi
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320 ctags: CTAGS
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321 CTAGS: ctags-recursive $(HEADERS) $(SOURCES) $(TAGS_DEPENDENCIES) \
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322 $(TAGS_FILES) $(LISP)
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323 tags=; \
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324 list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
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325 unique=`for i in $$list; do \
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326 if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
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327 done | \
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328 $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
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329 END { if (nonempty) { for (i in files) print i; }; }'`; \
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330 test -z "$(CTAGS_ARGS)$$tags$$unique" \
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331 || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
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332 $$tags $$unique
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333
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334 GTAGS:
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335 here=`$(am__cd) $(top_builddir) && pwd` \
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336 && cd $(top_srcdir) \
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337 && gtags -i $(GTAGS_ARGS) $$here
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338
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339 distclean-tags:
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340 -rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
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341
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342 distdir: $(DISTFILES)
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343 @srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
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344 topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
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345 list='$(DISTFILES)'; \
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346 dist_files=`for file in $$list; do echo $$file; done | \
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347 sed -e "s|^$$srcdirstrip/||;t" \
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348 -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
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349 case $$dist_files in \
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350 */*) $(MKDIR_P) `echo "$$dist_files" | \
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351 sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
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352 sort -u` ;; \
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353 esac; \
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354 for file in $$dist_files; do \
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355 if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
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356 if test -d $$d/$$file; then \
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357 dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
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358 if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
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359 cp -pR $(srcdir)/$$file $(distdir)$$dir || exit 1; \
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360 fi; \
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361 cp -pR $$d/$$file $(distdir)$$dir || exit 1; \
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362 else \
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363 test -f $(distdir)/$$file \
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364 || cp -p $$d/$$file $(distdir)/$$file \
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365 || exit 1; \
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366 fi; \
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367 done
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368 list='$(DIST_SUBDIRS)'; for subdir in $$list; do \
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369 if test "$$subdir" = .; then :; else \
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370 test -d "$(distdir)/$$subdir" \
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371 || $(MKDIR_P) "$(distdir)/$$subdir" \
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372 || exit 1; \
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373 distdir=`$(am__cd) $(distdir) && pwd`; \
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374 top_distdir=`$(am__cd) $(top_distdir) && pwd`; \
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375 (cd $$subdir && \
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376 $(MAKE) $(AM_MAKEFLAGS) \
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377 top_distdir="$$top_distdir" \
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378 distdir="$$distdir/$$subdir" \
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379 am__remove_distdir=: \
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380 am__skip_length_check=: \
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381 distdir) \
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382 || exit 1; \
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383 fi; \
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384 done
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385 check-am: all-am
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386 check: check-recursive
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387 all-am: Makefile
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388 installdirs: installdirs-recursive
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389 installdirs-am:
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390 install: install-recursive
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391 install-exec: install-exec-recursive
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392 install-data: install-data-recursive
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393 uninstall: uninstall-recursive
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394
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395 install-am: all-am
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396 @$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
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397
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398 installcheck: installcheck-recursive
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399 install-strip:
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400 $(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
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401 install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
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402 `test -z '$(STRIP)' || \
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403 echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
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404 mostlyclean-generic:
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405
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406 clean-generic:
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407
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408 distclean-generic:
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409 -test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
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410
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411 maintainer-clean-generic:
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412 @echo "This command is intended for maintainers to use"
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413 @echo "it deletes files that may require special tools to rebuild."
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414 clean: clean-recursive
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415
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416 clean-am: clean-generic mostlyclean-am
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417
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418 distclean: distclean-recursive
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419 -rm -f Makefile
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420 distclean-am: clean-am distclean-generic distclean-tags
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421
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422 dvi: dvi-recursive
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423
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424 dvi-am:
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425
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426 html: html-recursive
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427
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428 info: info-recursive
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429
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430 info-am:
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431
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432 install-data-am:
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433
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434 install-dvi: install-dvi-recursive
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435
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436 install-exec-am:
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437
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438 install-html: install-html-recursive
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439
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440 install-info: install-info-recursive
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441
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442 install-man:
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443
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444 install-pdf: install-pdf-recursive
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445
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446 install-ps: install-ps-recursive
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447
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448 installcheck-am:
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449
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450 maintainer-clean: maintainer-clean-recursive
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451 -rm -f Makefile
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452 maintainer-clean-am: distclean-am maintainer-clean-generic
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453
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454 mostlyclean: mostlyclean-recursive
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455
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456 mostlyclean-am: mostlyclean-generic
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457
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458 pdf: pdf-recursive
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459
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460 pdf-am:
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461
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462 ps: ps-recursive
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463
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464 ps-am:
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465
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466 uninstall-am:
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467
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468 .MAKE: $(RECURSIVE_CLEAN_TARGETS) $(RECURSIVE_TARGETS) install-am \
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469 install-strip
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470
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471 .PHONY: $(RECURSIVE_CLEAN_TARGETS) $(RECURSIVE_TARGETS) CTAGS GTAGS \
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472 all all-am check check-am clean clean-generic ctags \
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473 ctags-recursive distclean distclean-generic distclean-tags \
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474 distdir dvi dvi-am html html-am info info-am install \
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475 install-am install-data install-data-am install-dvi \
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476 install-dvi-am install-exec install-exec-am install-html \
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477 install-html-am install-info install-info-am install-man \
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478 install-pdf install-pdf-am install-ps install-ps-am \
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479 install-strip installcheck installcheck-am installdirs \
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480 installdirs-am maintainer-clean maintainer-clean-generic \
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481 mostlyclean mostlyclean-generic pdf pdf-am ps ps-am tags \
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482 tags-recursive uninstall uninstall-am
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483
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484 # Tell versions [3.59,3.63) of GNU make to not export all variables.
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485 # Otherwise a system limit (for SysV at least) may be exceeded.
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486 .NOEXPORT:
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