diff options
author | Thomas White <taw@physics.org> | 2017-07-06 17:22:11 +0200 |
---|---|---|
committer | Thomas White <taw@physics.org> | 2017-07-06 17:24:59 +0200 |
commit | 5292f57d4434c7267e8d945871513d742ff42427 (patch) | |
tree | d460aa5cef5a501516876850ef243cfc27313d5a /doc/reference | |
parent | 48d4a6b8e82cce81222ec58fdfb488ed79ce0bcf (diff) | |
parent | dc3395900fc3ce0d3961757628ff83ad6456be19 (diff) |
Merge branch 'master' into taketwo
Diffstat (limited to 'doc/reference')
-rw-r--r-- | doc/reference/libcrystfel/CrystFEL-sections.txt | 65 |
1 files changed, 44 insertions, 21 deletions
diff --git a/doc/reference/libcrystfel/CrystFEL-sections.txt b/doc/reference/libcrystfel/CrystFEL-sections.txt index 4cd922d2..072f8b38 100644 --- a/doc/reference/libcrystfel/CrystFEL-sections.txt +++ b/doc/reference/libcrystfel/CrystFEL-sections.txt @@ -8,6 +8,8 @@ reflist_new reflist_free reflection_new reflection_free +reflist_add_notes +reflist_get_notes <SUBSECTION> add_refl add_refl_to_list @@ -18,7 +20,6 @@ next_refl find_refl next_found_refl <SUBSECTION> -get_excitation_error get_detector_pos get_panel get_partiality @@ -77,6 +78,7 @@ copy_reflist find_equiv_in_list resolution_limits max_intensity +reflist_add_command_and_version </SECTION> <SECTION> @@ -151,32 +153,32 @@ solve_svd AssplodeFlag C_VACUO ELECTRON_CHARGE -ERROR -J_to_eV PLANCK -STATUS THOMSON_LENGTH assplode -biggest -check_prefix chomp -deg2rad -eV_to_J gaussian_noise -safe_basename progress_bar -rad2deg -is_odd poisson_noise notrail +random_flat +flat_noise +show_matrix +STATUS +ERROR +J_to_eV +eV_to_J +biggest smallest +check_prefix +safe_basename +deg2rad +rad2deg +is_odd ph_en_to_lambda ph_lambda_to_en ph_eV_to_lambda ph_lambda_to_eV -random_flat -flat_noise -show_matrix likely unlikely UNUSED @@ -218,6 +220,20 @@ ImageFeatureList SpectrumType sample <SUBSECTION> +imagefile +imagefile_close +imagefile_copy_fields +imagefile_field_list +imagefile_get_hdfile +imagefile_get_type +imagefile_open +imagefile_read +imagefile_read_simple +<SUBSECTION> +new_imagefile_field_list +add_imagefile_field +free_imagefile_field_list +<SUBSECTION> image_add_feature image_feature_closest image_reflection_closest @@ -268,10 +284,11 @@ INDEXING_DEFAULTS_ASDF INDEXING_DEFAULTS_FELIX INDEXING_METHOD_MASK INDEXING_CONTROL_FLAGS -build_indexer_list +setup_indexing cleanup_indexing -prepare_indexing +get_indm_from_string index_pattern +index_pattern_2 indexer_str dirax_prepare run_dirax @@ -314,6 +331,7 @@ describe_symmetry symmetry_name set_symmetry_name get_matrix_name +pointgroup_warning is_centrosymmetric is_centric </SECTION> @@ -351,19 +369,17 @@ rigid_group rg_collection <SUBSECTION> copy_geom -fill_in_values +fill_in_adu free_detector_geometry get_detector_geometry get_detector_geometry_2 write_detector_geometry write_detector_geometry_2 -find_panel +panel_number find_panel_by_name -find_panel_number simple_geometry record_image get_pixel_extents -get_q get_q_for_panel get_tt smallest_q @@ -378,6 +394,7 @@ rigid_group_is_in_collection single_panel_data_source find_rigid_group_collection_by_name detector_has_clen_references +adjust_centering_for_rail </SECTION> <SECTION> @@ -398,7 +415,6 @@ find_event get_event_string get_event_from_event_string event_path_placeholder_subst -partial_event_substitution retrieve_full_path initialize_filename_plus_event free_filename_plus_event @@ -439,7 +455,9 @@ add_copy_hdf5_field new_copy_hdf5_field_list free_copy_hdf5_field_list get_peaks +get_peaks_2 get_peaks_cxi +get_peaks_cxi_2 hdfile_is_scalar check_path_existence fill_event_list @@ -464,6 +482,7 @@ crystal_get_resolution_limit crystal_get_user_flag crystal_get_num_implausible_reflections crystal_get_notes +crystal_get_det_shift crystal_set_cell crystal_set_image crystal_set_mosaicity @@ -477,6 +496,7 @@ crystal_set_user_flag crystal_set_num_implausible_reflections crystal_set_notes crystal_add_notes +crystal_set_det_shift </SECTION> <SECTION> @@ -498,7 +518,9 @@ y_gradient <FILE>peaks</FILE> peak_sanity_check search_peaks +search_peaks_peakfinder8 make_BgMask +peakfinder8 validate_peaks sort_peaks </SECTION> @@ -555,6 +577,7 @@ close_stream read_chunk read_chunk_2 write_chunk +write_chunk_2 rewind_stream is_stream write_command |