<?xml version='1.0' encoding='UTF-8' standalone='no'?>
<book xmlns="http://docbook.org/ns/docbook" version="5.0" xmlns:xlink="http://www.w3.org/1999/xlink" xml:id="_index">
    <info>
    <title>Bsoft</title>
    </info>
<chapter>
    <title>Namespace Documentation</title>
<xi:include href="namespacetk.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
<xi:include href="namespacetk_1_1mac.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
</chapter>
<chapter>
    <title>Class Documentation</title>
    <xi:include href="struct_alpha_template.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bangle.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bangletype.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_batom.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_batomtype.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_baxis.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bbadarea.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bbond.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bbondtype.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bcolumn.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bcomponent.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bcomptype.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bfield.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bfilament.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bfilnode.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bframe.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bimage.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_b_i_o_r_a_dhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_blayerline.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_blink.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmarker.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmd.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmicrograph.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmodel.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmodparam.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmolecule.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmolgroup.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bmontage.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bnode.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_boption.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bpage.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bparticle.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bplot.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bpolygon.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bproject.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_breconstruction.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bresidue.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bresidue__matrix.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bresidue__type.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bsecondary.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bsimplex.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bstar.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bstar__block.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bstar__item.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bstring.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bstrucfac.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bsub__image.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_bsuperpixel.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bsymmetry.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_bsymop.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_c_c_p4head.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_c_m_y_k.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_complex.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_c_o_n_t.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_c_t_fparam.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_d_m3head.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_d_m4head.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_d_mhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_d_m_machead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_d_s_n6head.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_e_mhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_euler.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_f_s_i___kernel.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_g_fslice__head.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_g_o_o_d_f_o_r_dhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_g_r_dhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_g_sedge.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_g_sregion.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_hand___stats.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_i_m_a_g_i_chead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_i_m_a_g_i_chead__old.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_i_m_o_d.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="structint__float.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_j_sparser.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_j_svalue.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="structkernel.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_latom.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_l_u_table.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_mass_c_o_m.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_matrix.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_matrix3.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_m_d_o_cparser.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_m_f_fhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_m_r_chead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_m_r_chead2000.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_m_r_cheadold.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_o_b_j_t.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_p_i_fcolor.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_p_i_fhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_p_i_fimagehead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_p_i_fimagehead__new.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_quaternion.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="union_r_e_g.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_res_info.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="structresprop.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_r_g_b.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_r_g_b_a.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_matrix_1_1_row.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_s_e_r_ihead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_s_p_ehead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_sphere.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_s_p_i_d_e_rhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_s_u_p_r_i_mhead.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="struct_tag_value.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_transform.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="union_type_pointer.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_unit_cell.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_vector3.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="class_view.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
</chapter>
<chapter>
    <title>File Documentation</title>
    <xi:include href="bsoft_8js.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_bimage_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="binomial_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_bplot_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_bstring_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_bsuperpixel_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="cluster_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_color_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_complex_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="ctf_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="dynamic__programming_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_euler_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="fft_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="file__util_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_f_s_i___kernel_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="img__combine_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="json_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="linked__list_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="marker_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="math__util_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_matrix_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_matrix3_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="matrix__linear_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="matrix__util_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mdoc_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__align_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__class_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__ctf_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__ctf__fit_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__extract_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__hand_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__helix_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__img__proc_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__marker_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__merge_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__multiple_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__multislice_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__orient_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__particle__select_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__particles_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__pick_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__processing_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__random_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__reconstruct_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__refine_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__subtomo_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__tags_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__tomo__rec_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__tomo__resol_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__tomo__track_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__tomography_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mg__xtal_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__color_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__compare_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__create_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__extract__build_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__links_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__map_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__mask_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__mechanics_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__multifit_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__neighbors_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__occupancy_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__path_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__plane_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__poly_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__poly__delta_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__poly__spiral_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__select_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__shell_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__symmetry_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__tags_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__transform_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__util_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="model__views_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__alpha_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__bonds_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__compare_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__edit_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__map__energy_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__md_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__monte_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__param_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__select_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__symmetry_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__tags_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="mol__transform_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
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    <xi:include href="mol__water_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="molecule__to__map_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="moving__average_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
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    <xi:include href="ps__ctf__plot_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="ps__marker_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
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    <xi:include href="ps__sequence_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
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    <xi:include href="ps__views_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="qsort__functions_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_quaternion_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="random__numbers_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="rw_a_s_c_i_i_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="rwatomprop_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="rw_b_c_r_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="rw_b_i_o_r_a_d_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
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    <xi:include href="dynamic__programming_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="fft_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="file__util_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="json_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="linked__list_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="marker_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="math__util_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="matrix_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_matrix3_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="matrix__linear_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="matrix__util_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="moving__average_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="options_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="qsort__functions_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_quaternion_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="random__numbers_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="simplex_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="spline_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="string__util_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="symmetry_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="timer_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_transform_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_unit_cell_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="utilities_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="_view_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="brun__panel_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__boxes_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__ctf_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__diffraction_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__filament_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__file_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__getinfo_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__graph_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__helix_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__histogram_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__image_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__magnify_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__misc_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__model_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__param_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__scales_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__select_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__tomo_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__tools_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__voxels_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bshow__xtal_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="bsoft__tcl_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="btext_8tcl.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bbox_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bbox_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bfil_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bfil_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bhelix_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bhelix_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bimage_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bimage_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmarker_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmarker_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmg_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmg_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmodel_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bmodel_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bxtal_8cpp.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
    <xi:include href="tcltk__bxtal_8h.xml" xmlns:xi="http://www.w3.org/2001/XInclude"/>
</chapter>
<index/>
</book>
