Dear Jena team,
I have a turtle file that fails validation with the following error.
riot --validate swisslipids.ttl
15:19:08 ERROR riot :: [line: 5794892, col: 6 ] Bad character
encoding
But I can't spot the error on that line so I did a hexdump.
sed -n '5794892p' swisslipids.ttl | hexdump -C
00000000 20 20 53 4c 4d 3a 72 61 6e 6b 20 53 4c 4d 3a 49 | SLM:rank
SLM:I|
00000010 73 6f 6d 65 72 69 63 5f 53 75 62 73 70 65 63 69
|someric_Subspeci|
00000020 65 73 20 3b 0a |es ;.|
00000025
Which is the same as a different earlier line which passed
sed -n '5794877p' swisslipids.ttl | hexdump -C
00000000 20 20 53 4c 4d 3a 72 61 6e 6b 20 53 4c 4d 3a 49 | SLM:rank
SLM:I|
00000010 73 6f 6d 65 72 69 63 5f 53 75 62 73 70 65 63 69
|someric_Subspeci|
00000020 65 73 20 3b 0a |es ;.|
00000025
The file is unfortunatly to large to attach at 29MB of xz compressed
data. I would be more than happy to share it or a subset.
Riot version is 4.0.0
Regards,
Jerven
PS nearby lines with their line numbers
5794876 SLM:000501095 a owl:Class ;
5794877 SLM:rank SLM:Isomeric_Subspecies ;
5794878 rdfs:label
"(12S)-hydroperoxy-(5Z,8Z,10E,14Z,17Z)-eicosapentaenoate" ;
5794879 skos:altLabel "(12S)-Hp-(5Z,8Z,10E,14Z,17Z)-EPE" ;
5794880 rdfs:subClassOf SLM:000501324 ;
5794881 chebislash:inchi
"InChI=1S/C20H30O4/c1-2-3-4-5-10-13-16-19(24-23)17-14-11-8-6-7-9-12-15-18-20(21)22/h3-4,7-11,13-14,17,19,23H,2,5-6,12,15-16,18H2,1H3,(H,21,22)/p-1/b4-3-,9-7-,11-8-,13-10-,17-14+/t19-/m0/s1"
;
5794882 chebislash:inchikey "HDMYXONNVAOHFR-UOLHMMFFSA-M" ;
5794883 owl:equivalentClass
5794884 CHEBI:90772
5794885 ;
5794886 rdfs:seeAlso lipidmaps:LMFA03070012 ;
5794887 chebislash:charge "-1" ;
5794888 chebislash:smiles
'''C(=C\\C\\C=C/C=C/[C@H](C/C=C\\C/C=C\\CC)OO)\\CCCC([O-])=O''' ;
5794889 SLM:citation citation:22984144 ;
5794890 chebislash:formula "C20H29O4" .
5794891 SLM:000501145 a owl:Class ;
5794892 SLM:rank SLM:Isomeric_Subspecies ;
--
*Jerven Tjalling Bolleman*
Principal Software Developer
*SIB | Swiss Institute of Bioinformatics*
1, rue Michel Servet - CH 1211 Geneva 4 - Switzerland
t +41 22 379 58 85
Jerven.Bolleman@sib.swiss - www.sib.swiss
