new release

imports/bfo_seed.owl

@@ -17,3 +17,4 @@ Class: <http://purl.obolibrary.org/obo/RO_0002577> # system
 
 
 
+

imports/ro_terms.txt

@@ -0,0 +1,52 @@
+http://purl.obolibrary.org/obo/RO_0002577 ## system
+http://purl.obolibrary.org/obo/BFO_0000016 ## disposition
+http://purl.obolibrary.org/obo/BFO_0000017 ## realizable entity
+http://purl.obolibrary.org/obo/BFO_0000034 ## function
+http://purl.obolibrary.org/obo/RO_0002503 ## towards
+http://purl.obolibrary.org/obo/RO_0002354 ## formed as a result of
+http://purl.obolibrary.org/obo/RO_0002473 ## composed primarily of
+http://purl.obolibrary.org/obo/RO_0000086 ## has quality
+http://purl.obolibrary.org/obo/BFO_0000051 ## has part
+http://purl.obolibrary.org/obo/RO_0000087 ## has role 
+http://purl.obolibrary.org/obo/RO_0002233 ## has input
+http://purl.obolibrary.org/obo/RO_0002234 ## has output
+http://purl.obolibrary.org/obo/RO_0002220 ## adjacent to
+http://purl.obolibrary.org/obo/RO_0000056 ## participates in
+http://purl.obolibrary.org/obo/RO_0002217 ## actively participates in
+http://purl.obolibrary.org/obo/RO_0002371 ## attached to
+http://purl.obolibrary.org/obo/RO_0002177 ## attached to part of
+http://purl.obolibrary.org/obo/RO_0000053 ## bearer of
+http://purl.obolibrary.org/obo/RO_0002215 ## capable of
+http://purl.obolibrary.org/obo/RO_0002216 ## capable of part of
+http://purl.obolibrary.org/obo/RO_0002008 ## coincident with
+http://purl.obolibrary.org/obo/RO_0002326 ## contributes_to
+http://purl.obolibrary.org/obo/RO_0002203 ## develops into
+http://purl.obolibrary.org/obo/RO_0000052 ## inheres in
+http://purl.obolibrary.org/obo/RO_0002314 ## inheres in part of
+http://purl.obolibrary.org/obo/RO_0002434 ## interacts with
+http://purl.obolibrary.org/obo/RO_0002331 ## involved in
+http://purl.obolibrary.org/obo/RO_0002131 ## overlaps
+http://purl.obolibrary.org/obo/RO_0002151 ## partially overlaps
+http://purl.obolibrary.org/obo/BFO_0000055 ## realizes
+http://purl.obolibrary.org/obo/RO_0002457 ## acquires nutrients from
+http://purl.obolibrary.org/obo/RO_0002469 ## provides nutrients for
+http://purl.obolibrary.org/obo/RO_0002150 ## continuous with
+http://purl.obolibrary.org/obo/RO_0002007 ## bounding layer of
+http://purl.obolibrary.org/obo/RO_0001018 ## contained in
+http://purl.obolibrary.org/obo/RO_0001019 ## contains
+http://purl.obolibrary.org/obo/BFO_0000067 ## contains process
+http://purl.obolibrary.org/obo/RO_0001000 ## derives from
+http://purl.obolibrary.org/obo/RO_0002377 ## distributary of
+http://purl.obolibrary.org/obo/RO_0002376 ## tributary of
+http://purl.obolibrary.org/obo/RO_0002179 ## drains
+http://purl.obolibrary.org/obo/RO_0002230 ## ends with
+http://purl.obolibrary.org/obo/RO_0002224 ## starts with
+http://purl.obolibrary.org/obo/RO_0002093 ## ends_during
+http://purl.obolibrary.org/obo/RO_0002092 ## happens_during
+http://purl.obolibrary.org/obo/RO_0002091 ## starts_during
+http://purl.obolibrary.org/obo/BFO_0000062 ## preceded by
+http://purl.obolibrary.org/obo/RO_0002087 ## immediately_preceded_by
+http://purl.obolibrary.org/obo/RO_0002479 ## has part that occurs in 
+http://purl.obolibrary.org/obo/RO_0002350 ## member of
+http://purl.obolibrary.org/obo/RO_0001025 ## located in
+http://purl.obolibrary.org/obo/RO_0001015 ## location of

mappings/Makefile

@@ -0,0 +1,14 @@
+SRC= ../envo.obo
+
+all: all_mapped all_unmapped
+all_mapped: spire-mapping.tsv spire-mapping-by-type.tsv geonames-mapping.tsv sweetrealm-mapping.tsv lter-mapping.tsv 
+all_unmapped: spire-unmapped.tsv spire-mapping-by-type.tsv geonames-unmapped.tsv sweetrealm-unmapped.tsv lter-unmapped.tsv 
+
+%-mapping.tsv: ../sources/%.obo $(SRC)
+ blip-findall -i $< -i $(SRC) "entity_xref(E,X),id_idspace(X,S),downcase_atom(S,'$*')" -select X-E -label -use_tabs -no_pred > $@.tmp && mv $@.tmp $@
+
+%-mapping-by-type.tsv: ../sources/%.obo $(SRC)
+ blip-findall -i $< -i $(SRC) "entity_xref(E,X),id_idspace(X,S),downcase_atom(S,'$*'),subclassT(E,T),\+subclass(T,_)" -select "x(T,X,E)" -label -use_tabs -no_pred > $@.tmp && mv $@.tmp $@
+
+%-unmapped.tsv: ../sources/%.obo $(SRC)
+ blip-findall -i $< -i $(SRC) "class(X),id_idspace(X,'LTER'),\+entity_xref(_,X),subclassT(X,Root),\+subclass(Root,_)" -select X-Root -label -no_pred | sort -k2 -t$$'\t' > $@.tmp && mv $@.tmp $@