Revert some legacy EM related attributes

wwpdb-dictionaries · Jan 31, 2024 · ca1513c · ca1513c
1 parent 5377ce8
commit ca1513c
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diff --git a/archive/mmcif_pdbx_v50-v5.386.dic b/archive/mmcif_pdbx_v50-v5.386.dic
@@ -3121,9 +3121,6 @@ Changes (ep):
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
 
 #
@@ -3874,9 +3871,6 @@ mmcif_pdbx-base.dic                     0.24   2023-01-30
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
 
 mmcif_xfel_extensions-v3.dic            0.0.1  2023-05-31  
@@ -116359,49 +116353,6 @@ save__em_entity_assembly.chimera
    #
 save_
 #
-save__em_entity_assembly.oligomeric_state
-   _item_description.description  "   A description of the oligomeric state of the assembly"
-   #
-   _item.name            "_em_entity_assembly.oligomeric_state"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  line
-   #
-   _pdbx_item_context.item_name  "_em_entity_assembly.oligomeric_state"
-   #
-save_
-#
-save__em_entity_assembly.recombinant_exp_flag
-   _item_description.description  "   A flag to indicate if there is an expressed component"
-   #
-   _item.name            "_em_entity_assembly.recombinant_exp_flag"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  code
-   #
-   _pdbx_item_context.item_name  "_em_entity_assembly.recombinant_exp_flag"
-   #
-save_
-#
-save__em_entity_assembly.number_unique_components
-   _item_description.description  "   Number of unique components in the sample"
-   #
-   _item.name            "_em_entity_assembly.number_unique_components"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  int
-   #
-   _item_range.maximum  .
-   _item_range.minimum  0
-   #
-   _pdbx_item_context.type       WWPDB_LOCAL,EMDB_PUBLIC
-   _pdbx_item_context.item_name  "_em_entity_assembly.number_of_copies"
-   #
-save_
-#
 save_em_virus_entity
    _category.description     
 ;   Data items in the EM_VIRUS_ENTITY category record details
@@ -121347,17 +121298,6 @@ save__em_entity_assembly_naturalsource.details
    #
 save_
 #
-save__em_entity_assembly_naturalsource.synonym_organism
-   _item_description.description  "   A scientific name synonym of the source organism for the component"
-   #
-   _item.name            "_em_entity_assembly_naturalsource.synonym_organism"
-   _item.category_id     em_entity_assembly_naturalsource
-   _item.mandatory_code  no
-   #
-   _item_type.code  line
-   #
-save_
-#
 save_em_entity_assembly_synthetic
    _category.description     
 ;   Data items in this category record taxonomic details about the synthetic source for EM
@@ -124548,17 +124488,6 @@ save__em_image_recording.num_real_images
    #
 save_
 #
-save__em_image_recording.bits_per_pixel
-   _item_description.description  "    The number of bits in a pixel of the images being collected. Bits per pixel value of the detector used for recording images."
-   #
-   _item.name            "_em_image_recording.bits_per_pixel"
-   _item.category_id     em_image_recording
-   _item.mandatory_code  no
-   #
-   _item_type.code  int
-   #
-save_
-#
 save_em_imaging_optics
    _category.description     "   Description of a few specialist optics apparatus"
    _category.id              em_imaging_optics

diff --git a/archive/mmcif_pdbx_v5_next-v5.394.dic b/archive/mmcif_pdbx_v5_next-v5.394.dic
@@ -3265,9 +3265,6 @@ Changes (ep):
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
 
 #
@@ -4018,9 +4015,6 @@ mmcif_pdbx-base.dic                     0.24   2023-01-30
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
 
 mmcif_xfel_extensions-v3.dic            0.0.1  2023-05-31  
@@ -116609,49 +116603,6 @@ save__em_entity_assembly.chimera
    #
 save_
 #
-save__em_entity_assembly.oligomeric_state
-   _item_description.description  "   A description of the oligomeric state of the assembly"
-   #
-   _item.name            "_em_entity_assembly.oligomeric_state"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  line
-   #
-   _pdbx_item_context.item_name  "_em_entity_assembly.oligomeric_state"
-   #
-save_
-#
-save__em_entity_assembly.recombinant_exp_flag
-   _item_description.description  "   A flag to indicate if there is an expressed component"
-   #
-   _item.name            "_em_entity_assembly.recombinant_exp_flag"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  code
-   #
-   _pdbx_item_context.item_name  "_em_entity_assembly.recombinant_exp_flag"
-   #
-save_
-#
-save__em_entity_assembly.number_unique_components
-   _item_description.description  "   Number of unique components in the sample"
-   #
-   _item.name            "_em_entity_assembly.number_unique_components"
-   _item.category_id     em_entity_assembly
-   _item.mandatory_code  no
-   #
-   _item_type.code  int
-   #
-   _item_range.maximum  .
-   _item_range.minimum  0
-   #
-   _pdbx_item_context.type       WWPDB_LOCAL,EMDB_PUBLIC
-   _pdbx_item_context.item_name  "_em_entity_assembly.number_of_copies"
-   #
-save_
-#
 save_em_virus_entity
    _category.description     
 ;   Data items in the EM_VIRUS_ENTITY category record details
@@ -121597,17 +121548,6 @@ save__em_entity_assembly_naturalsource.details
    #
 save_
 #
-save__em_entity_assembly_naturalsource.synonym_organism
-   _item_description.description  "   A scientific name synonym of the source organism for the component"
-   #
-   _item.name            "_em_entity_assembly_naturalsource.synonym_organism"
-   _item.category_id     em_entity_assembly_naturalsource
-   _item.mandatory_code  no
-   #
-   _item_type.code  line
-   #
-save_
-#
 save_em_entity_assembly_synthetic
    _category.description     
 ;   Data items in this category record taxonomic details about the synthetic source for EM
@@ -124798,17 +124738,6 @@ save__em_image_recording.num_real_images
    #
 save_
 #
-save__em_image_recording.bits_per_pixel
-   _item_description.description  "    The number of bits in a pixel of the images being collected. Bits per pixel value of the detector used for recording images."
-   #
-   _item.name            "_em_image_recording.bits_per_pixel"
-   _item.category_id     em_image_recording
-   _item.mandatory_code  no
-   #
-   _item_type.code  int
-   #
-save_
-#
 save_em_imaging_optics
    _category.description     "   Description of a few specialist optics apparatus"
    _category.id              em_imaging_optics

diff --git a/base/mmcif_pdbx-base.dic b/base/mmcif_pdbx-base.dic
@@ -191,9 +191,6 @@ mmcif_pdbx-base.dic  0.24  2023-01-30
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
 ###############
 ## ATOM_SITE ##
@@ -95540,49 +95537,6 @@ save__em_entity_assembly.chimera
     _pdbx_item_context.item_name '_em_entity_assembly.chimera'
      save_
 
-save__em_entity_assembly.oligomeric_state
-    _item_description.description
-;   A description of the oligomeric state of the assembly
-;
-    _item.name                  '_em_entity_assembly.oligomeric_state'
-    _item.category_id             em_entity_assembly
-    _item.mandatory_code          no
-    _item_type.code               line
-     loop_
-    _pdbx_item_context.type       WWPDB_LOCAL,EMDB_PUBLIC
-    _pdbx_item_context.item_name '_em_entity_assembly.oligomeric_state'
-     save_
-
-save__em_entity_assembly.recombinant_exp_flag
-    _item_description.description
-;   A flag to indicate if there is an expressed component
-;
-    _item.name                  '_em_entity_assembly.recombinant_exp_flag'
-    _item.category_id             em_entity_assembly
-    _item.mandatory_code          no
-    _item_type.code               code
-     loop_
-    _pdbx_item_context.type       WWPDB_LOCAL,EMDB_PUBLIC
-    _pdbx_item_context.item_name '_em_entity_assembly.recombinant_exp_flag'
-     save_
-
-save__em_entity_assembly.number_unique_components
-        _item_description.description
-;   Number of unique components in the sample
-;
-    _item.name                  '_em_entity_assembly.number_unique_components'
-    _item.category_id           em_entity_assembly
-    _item.mandatory_code        no
-    _item_type.code             int
-
-    loop_
-    _item_range.maximum
-    _item_range.minimum            .    0
-
-    _pdbx_item_context.type       WWPDB_LOCAL,EMDB_PUBLIC             #V5
-    _pdbx_item_context.item_name '_em_entity_assembly.number_of_copies'    #V5
-
-     save_
 
 #####################
 ## EM_VIRUS_ENTITY ##
@@ -100212,15 +100166,6 @@ save__em_entity_assembly_naturalsource.details
     _item_type.code               text
      save_
 
-save__em_entity_assembly_naturalsource.synonym_organism
-    _item_description.description
-;   A scientific name synonym of the source organism for the component
-;
-    _item.name                  '_em_entity_assembly_naturalsource.synonym_organism'
-    _item.category_id             em_entity_assembly_naturalsource
-    _item.mandatory_code          no
-    _item_type.code               line
-     save_
 
 ##################################
 ## EM_ENTITY_ASSEMBLY_SYNTHETIC ##
@@ -103044,16 +102989,6 @@ save__em_image_recording.num_real_images
     _item_type.code                positive_int
      save_
 
-save__em_image_recording.bits_per_pixel
-    _item_description.description
-;    The number of bits in a pixel of the images being collected. Bits per pixel value of the detector used for recording images.
-;
-    _item.name                   '_em_image_recording.bits_per_pixel'
-    _item.category_id              em_image_recording
-    _item.mandatory_code           no
-    _item_type.code                int
-
-     save_
 
 #######################
 ## EM_IMAGING_OPTICS ##

diff --git a/base/mmcif_pdbx_v50-header.dic b/base/mmcif_pdbx_v50-header.dic
@@ -2868,7 +2868,4 @@ Changes (ep):
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;
diff --git a/base/mmcif_pdbx_v5_next-header.dic b/base/mmcif_pdbx_v5_next-header.dic
@@ -3006,7 +3006,4 @@ Changes (ep):
 Changes (ep):
   + Add enumeration for _pdbx_database_related.db_name
   + Add "NMRtist" to pdbx_nmr_software.name enumeration
-  + Add _em_entity_assembly.oligomeric_state, _em_entity_assembly.recombinant_exp_flag,
-    _em_entity_assembly.number_unique_components and _em_image_recording.bits_per_pixel
-    to legacy EM structures.
 ;