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Merge pull request #1081 from microbiomedata/forgot-commiting-generated
with regenerated files for elev comments in v7.7.5
2 parents 431d05c + fdbb376 commit 8b5d1d1

22 files changed

+15289
-15114
lines changed

‎examples/output/Biosample-exhasutive.ttl

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -580,9 +580,9 @@ nmdc:bsm-99-dtTMNb a nmdc:Biosample ;
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MIXS:0000650 [ a nmdc:QuantityValue ;
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nmdc:has_raw_value "xxx" ] ;
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MIXS:0000652 [ a nmdc:TextValue ;
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nmdc:has_raw_value "mercury;0.09 micrograms per gram" ],
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nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ],
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[ a nmdc:TextValue ;
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nmdc:has_raw_value "arsenic;0.09 micrograms per gram" ] ;
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nmdc:has_raw_value "mercury;0.09 micrograms per gram" ] ;
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MIXS:0000653 [ a nmdc:QuantityValue ;
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nmdc:has_raw_value "xxx" ] ;
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MIXS:0000656 [ a nmdc:QuantityValue ;

‎examples/output/Database-functional-annotations.ttl

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Original file line numberDiff line numberDiff line change
@@ -2,33 +2,33 @@
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[] a nmdc:Database ;
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nmdc:functional_annotation_set [ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "SEED:Biotin_biosynthesis" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "KEGG.ORTHOLOGY:K00001" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "GO:0032571" ],
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nmdc:has_function "KEGG.REACTION:R00100" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "MetaNetX:MNXR101574" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "KEGG.REACTION:R00100" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "PFAM:PF11779" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "MetaCyc:RXN-14904" ],
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nmdc:has_function "EC:1.1.1.1" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "TIGRFAM:TIGR00010" ],
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nmdc:has_function "KEGG.ORTHOLOGY:K00001" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "EGGNOG:veNOG12876" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "MetaCyc:RXN-14904" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "RHEA:12345" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "KEGG_PATHWAY:rsk00410" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "SUPFAM:SSF57615" ],
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nmdc:has_function "PANTHER.FAMILY:PTHR12345" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "EC:1.1.1.1" ],
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nmdc:has_function "TIGRFAM:TIGR00010" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "CATH:1.10.10.200" ],
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nmdc:has_function "GO:0032571" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "PANTHER.FAMILY:PTHR12345" ],
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nmdc:has_function "SUPFAM:SSF57615" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "SEED:Biotin_biosynthesis" ],
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[ a nmdc:FunctionalAnnotation ;
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nmdc:has_function "RHEA:12345" ] .
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nmdc:has_function "CATH:1.10.10.200" ] .
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‎examples/output/Database-mags-activities.ttl

Lines changed: 23 additions & 23 deletions
Original file line numberDiff line numberDiff line change
@@ -17,17 +17,6 @@ nmdc:wfmag-99-5MiDJM a nmdc:MagsAnalysisActivity ;
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nmdc:input_contig_num 169782 ;
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nmdc:low_depth_contig_num 0 ;
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nmdc:mags_list [ a nmdc:MagBin ;
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nmdc:bin_name "bins.3" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "2.0"^^xsd:float ;
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nmdc:contamination "0.0"^^xsd:float ;
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nmdc:gene_count 294 ;
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nmdc:num_16s 0 ;
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nmdc:num_23s 0 ;
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nmdc:num_5s 0 ;
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nmdc:num_t_rna 1 ;
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nmdc:number_of_contig 11 ],
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[ a nmdc:MagBin ;
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nmdc:bin_name "bins.2" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "51.25"^^xsd:float ;
@@ -38,6 +27,17 @@ nmdc:wfmag-99-5MiDJM a nmdc:MagsAnalysisActivity ;
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nmdc:num_5s 1 ;
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nmdc:num_t_rna 26 ;
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nmdc:number_of_contig 426 ],
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[ a nmdc:MagBin ;
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nmdc:bin_name "bins.3" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "2.0"^^xsd:float ;
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nmdc:contamination "0.0"^^xsd:float ;
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nmdc:gene_count 294 ;
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nmdc:num_16s 0 ;
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nmdc:num_23s 0 ;
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nmdc:num_5s 0 ;
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nmdc:num_t_rna 1 ;
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nmdc:number_of_contig 11 ],
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[ a nmdc:MagBin ;
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nmdc:bin_name "bins.1" ;
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nmdc:bin_quality "LQ" ;
@@ -71,17 +71,6 @@ nmdc:wfmag-99-VOgM5i a nmdc:MagsAnalysisActivity ;
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nmdc:input_contig_num 78376 ;
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nmdc:low_depth_contig_num 0 ;
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nmdc:mags_list [ a nmdc:MagBin ;
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nmdc:bin_name "bins.2" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "0.0"^^xsd:float ;
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nmdc:contamination "0.0"^^xsd:float ;
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nmdc:gene_count 383 ;
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nmdc:num_16s 0 ;
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nmdc:num_23s 0 ;
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nmdc:num_5s 0 ;
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nmdc:num_t_rna 5 ;
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nmdc:number_of_contig 74 ],
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[ a nmdc:MagBin ;
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nmdc:bin_name "bins.1" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "25.86"^^xsd:float ;
@@ -102,7 +91,18 @@ nmdc:wfmag-99-VOgM5i a nmdc:MagsAnalysisActivity ;
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nmdc:num_23s 0 ;
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nmdc:num_5s 0 ;
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nmdc:num_t_rna 7 ;
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nmdc:number_of_contig 58 ] ;
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nmdc:number_of_contig 58 ],
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[ a nmdc:MagBin ;
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nmdc:bin_name "bins.2" ;
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nmdc:bin_quality "LQ" ;
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nmdc:completeness "0.0"^^xsd:float ;
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nmdc:contamination "0.0"^^xsd:float ;
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nmdc:gene_count 383 ;
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nmdc:num_16s 0 ;
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nmdc:num_23s 0 ;
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nmdc:num_5s 0 ;
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nmdc:num_t_rna 5 ;
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nmdc:number_of_contig 74 ] ;
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nmdc:name "MAGs activiity 1781_86089" ;
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nmdc:started_at_time "2021-01-10T00:00:00+00:00" ;
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nmdc:too_short_contig_num 75364 ;

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