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regen for v7.6.5
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@turbomam
turbomam committed Jun 12, 2023
1 parent df48517 commit 984e473
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Showing 20 changed files with 10,790 additions and 10,790 deletions.
4 changes: 2 additions & 2 deletions examples/output/Biosample-exhasutive.ttl
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Expand Up @@ -580,9 +580,9 @@ nmdc:bsm-99-dtTMNb a nmdc:Biosample ;
MIXS:0000650 [ a nmdc:QuantityValue ;
nmdc:has_raw_value "xxx" ] ;
MIXS:0000652 [ a nmdc:TextValue ;
nmdc:has_raw_value "mercury;0.09 micrograms per gram" ],
nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ],
[ a nmdc:TextValue ;
nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ] ;
nmdc:has_raw_value "mercury;0.09 micrograms per gram" ] ;
MIXS:0000653 [ a nmdc:QuantityValue ;
nmdc:has_raw_value "xxx" ] ;
MIXS:0000656 [ a nmdc:QuantityValue ;
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4 changes: 2 additions & 2 deletions examples/output/Biosample-exhaustive-issue-796-bye-yq-for-7-4-10.ttl
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Expand Up @@ -217,9 +217,9 @@ nmdc:bsm-99-dtTMNb a nmdc:Biosample ;
MIXS:0000647 [ a nmdc:QuantityValue ;
nmdc:has_raw_value "MIxS does not provide an example" ] ;
MIXS:0000652 [ a nmdc:TextValue ;
nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ],
nmdc:has_raw_value "mercury;0.09 micrograms per gram" ],
[ a nmdc:TextValue ;
nmdc:has_raw_value "mercury;0.09 micrograms per gram" ] ;
nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ] ;
MIXS:0000735 [ a nmdc:QuantityValue ;
nmdc:has_raw_value "0.2 micrometer" ] ;
MIXS:0000736 [ a nmdc:QuantityValue ;
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28 changes: 14 additions & 14 deletions examples/output/Database-functional-annotations.ttl
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Expand Up @@ -2,33 +2,33 @@

[] a nmdc:Database ;
nmdc:functional_annotation_set [ a nmdc:FunctionalAnnotation ;
nmdc:has_function "SUPFAM:SSF57615" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "RHEA:12345" ],
nmdc:has_function "MetaCyc:RXN-14904" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "TIGRFAM:TIGR00010" ],
nmdc:has_function "SEED:Biotin_biosynthesis" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "EC:1.1.1.1" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "PANTHER.FAMILY:PTHR12345" ],
nmdc:has_function "TIGRFAM:TIGR00010" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "MetaCyc:RXN-14904" ],
nmdc:has_function "SUPFAM:SSF57615" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "KEGG.REACTION:R00100" ],
nmdc:has_function "EGGNOG:veNOG12876" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "MetaNetX:MNXR101574" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "GO:0032571" ],
nmdc:has_function "PFAM:PF11779" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "KEGG.ORTHOLOGY:K00001" ],
nmdc:has_function "KEGG_PATHWAY:rsk00410" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "SEED:Biotin_biosynthesis" ],
nmdc:has_function "GO:0032571" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "RHEA:12345" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "CATH:1.10.10.200" ],
nmdc:has_function "KEGG.ORTHOLOGY:K00001" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "KEGG_PATHWAY:rsk00410" ],
nmdc:has_function "PANTHER.FAMILY:PTHR12345" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "EGGNOG:veNOG12876" ],
nmdc:has_function "KEGG.REACTION:R00100" ],
[ a nmdc:FunctionalAnnotation ;
nmdc:has_function "PFAM:PF11779" ] .
nmdc:has_function "CATH:1.10.10.200" ] .

44 changes: 22 additions & 22 deletions examples/output/Database-mags-activities.ttl
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Expand Up @@ -17,16 +17,16 @@ nmdc:wfmag-99-5MiDJM a nmdc:MagsAnalysisActivity ;
nmdc:input_contig_num 169782 ;
nmdc:low_depth_contig_num 0 ;
nmdc:mags_list [ a nmdc:MagBin ;
nmdc:bin_name "bins.3" ;
nmdc:bin_name "bins.1" ;
nmdc:bin_quality "LQ" ;
nmdc:completeness "2.0"^^xsd:float ;
nmdc:contamination "0.0"^^xsd:float ;
nmdc:gene_count 294 ;
nmdc:completeness "11.42"^^xsd:float ;
nmdc:contamination "0.21"^^xsd:float ;
nmdc:gene_count 250 ;
nmdc:num_16s 0 ;
nmdc:num_23s 0 ;
nmdc:num_5s 0 ;
nmdc:num_5s 1 ;
nmdc:num_t_rna 1 ;
nmdc:number_of_contig 11 ],
nmdc:number_of_contig 52 ],
[ a nmdc:MagBin ;
nmdc:bin_name "bins.2" ;
nmdc:bin_quality "LQ" ;
Expand All @@ -39,16 +39,16 @@ nmdc:wfmag-99-5MiDJM a nmdc:MagsAnalysisActivity ;
nmdc:num_t_rna 26 ;
nmdc:number_of_contig 426 ],
[ a nmdc:MagBin ;
nmdc:bin_name "bins.1" ;
nmdc:bin_name "bins.3" ;
nmdc:bin_quality "LQ" ;
nmdc:completeness "11.42"^^xsd:float ;
nmdc:contamination "0.21"^^xsd:float ;
nmdc:gene_count 250 ;
nmdc:completeness "2.0"^^xsd:float ;
nmdc:contamination "0.0"^^xsd:float ;
nmdc:gene_count 294 ;
nmdc:num_16s 0 ;
nmdc:num_23s 0 ;
nmdc:num_5s 1 ;
nmdc:num_5s 0 ;
nmdc:num_t_rna 1 ;
nmdc:number_of_contig 52 ] ;
nmdc:number_of_contig 11 ] ;
nmdc:name "MAGs activiity 1781_86101" ;
nmdc:started_at_time "2021-01-10T00:00:00+00:00"^^xsd:dateTime ;
nmdc:too_short_contig_num 159810 ;
Expand Down Expand Up @@ -82,27 +82,27 @@ nmdc:wfmag-99-VOgM5i a nmdc:MagsAnalysisActivity ;
nmdc:num_t_rna 5 ;
nmdc:number_of_contig 74 ],
[ a nmdc:MagBin ;
nmdc:bin_name "bins.1" ;
nmdc:bin_name "bins.3" ;
nmdc:bin_quality "LQ" ;
nmdc:completeness "25.86"^^xsd:float ;
nmdc:completeness "17.61"^^xsd:float ;
nmdc:contamination "0.0"^^xsd:float ;
nmdc:gene_count 401 ;
nmdc:gene_count 313 ;
nmdc:num_16s 0 ;
nmdc:num_23s 0 ;
nmdc:num_5s 0 ;
nmdc:num_t_rna 4 ;
nmdc:number_of_contig 74 ],
nmdc:num_t_rna 7 ;
nmdc:number_of_contig 58 ],
[ a nmdc:MagBin ;
nmdc:bin_name "bins.3" ;
nmdc:bin_name "bins.1" ;
nmdc:bin_quality "LQ" ;
nmdc:completeness "17.61"^^xsd:float ;
nmdc:completeness "25.86"^^xsd:float ;
nmdc:contamination "0.0"^^xsd:float ;
nmdc:gene_count 313 ;
nmdc:gene_count 401 ;
nmdc:num_16s 0 ;
nmdc:num_23s 0 ;
nmdc:num_5s 0 ;
nmdc:num_t_rna 7 ;
nmdc:number_of_contig 58 ] ;
nmdc:num_t_rna 4 ;
nmdc:number_of_contig 74 ] ;
nmdc:name "MAGs activiity 1781_86089" ;
nmdc:started_at_time "2021-01-10T00:00:00+00:00"^^xsd:dateTime ;
nmdc:too_short_contig_num 75364 ;
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8 changes: 4 additions & 4 deletions examples/output/Study-credit-1.ttl
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Expand Up @@ -3,11 +3,11 @@

nmdc:sty-99-WoeqAi a nmdc:Study ;
prov:qualifiedAssociation [ a prov:Association ;
nmdc:applied_roles "Data curation" ;
nmdc:applied_roles "Software" ;
nmdc:applies_to_person [ a nmdc:PersonValue ;
nmdc:orcid "orcid:0000-0002-1825-00" ] ],
nmdc:orcid "orcid:0000-0001-9076-6066" ] ],
[ a prov:Association ;
nmdc:applied_roles "Software" ;
nmdc:applied_roles "Data curation" ;
nmdc:applies_to_person [ a nmdc:PersonValue ;
nmdc:orcid "orcid:0000-0001-9076-6066" ] ] .
nmdc:orcid "orcid:0000-0002-1825-00" ] ] .

12 changes: 6 additions & 6 deletions examples/output/Study-exhaustive.ttl
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Expand Up @@ -64,16 +64,16 @@ nmdc:sty-11-ab a nmdc:Study ;
"any string 2" ;
nmdc:specific_ecosystem "unconstrained text" ;
nmdc:study_image [ a nmdc:ImageValue ;
dcterms:description "Photo of Craig Venter Institute, La Jolla, California" ;
nmdc:display_order "2" ;
nmdc:has_raw_value "https://today.ucsd.edu/news_uploads/140213ventor2.jpg" ;
nmdc:url "https://today.ucsd.edu/news_uploads/140213ventor2.jpg" ;
nmdc:was_generated_by nmdc:any_string_1 ],
[ a nmdc:ImageValue ;
dcterms:description "Photo of Craig Venter Institute, Rockville, Maryland" ;
nmdc:display_order "1" ;
nmdc:has_raw_value "https://upload.wikimedia.org/wikipedia/commons/8/86/J._Craig_Vernter_Institute_Rockville_Maryland.jpg" ;
nmdc:url "https://upload.wikimedia.org/wikipedia/commons/8/86/J._Craig_Vernter_Institute_Rockville_Maryland.jpg" ;
nmdc:was_generated_by nmdc:any_string_1 ],
[ a nmdc:ImageValue ;
dcterms:description "Photo of Craig Venter Institute, La Jolla, California" ;
nmdc:display_order "2" ;
nmdc:has_raw_value "https://today.ucsd.edu/news_uploads/140213ventor2.jpg" ;
nmdc:url "https://today.ucsd.edu/news_uploads/140213ventor2.jpg" ;
nmdc:was_generated_by nmdc:any_string_1 ] ;
nmdc:title "Sample Exhaustive Biosample instance. Although all of these values should pass validation, that does not mean that any Biosample of any type would necessarily have this particular combination of values." ;
nmdc:type "any string" ;
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