turn into serializable uri

Author: bulricht

logsheet_schema_extended.csv

@@ -36,7 +36,7 @@ Ready?,LogsheetColumnTitle,DataTypeIn,DataTypeOut,BaseURI,Format notes,Observabl
 ,nitrate_method,xsd:string,xsd:string,,,NA,NA,,water;soil,Measured,optional,"Method for the measurement of the concentration of nitrate in the sample. Provide as much information as possible. If there is a relevant reference or SOP, provide doi or link",pretreatment description. photometrically. photometer brand,,
 ,nitrite,xsd:float,xsd:float,,,http://vocab.nerc.ac.uk/collection/P01/current/NTRIZZXX/,umol/l,http://vocab.nerc.ac.uk/collection/P06/current/UPOX/,water;soil,Measured,optional,Concentration of nitrite in the sample,0.12,," "
 ,nitrite_method,xsd:string,xsd:string,,,NA,NA,,water;soil,Measured,optional,"Method for the measurement of the concentration of nitrite in the sample. Provide as much information as possible. If there is a relevant reference or SOP, provide doi or link",pretreatment description. photometrically. photometer brand,,
-,organism_count,xsd:list,xsd:list,,"string+"" ""+float+"";""",NA,will need to define ourselves,will need to define ourselves,water;soil,Measured,optional,"Total cell count of any organism (or group of organisms) per volume of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)",bacteria 551E-9;Synechococcus 136E-12,"yes - but the unit, not the measurement","will be hard to manage if allowing multiple entries - hard to standardise - and if allowing multiple units. cant find a term in BODC for general cell count, only counts of certain organisms. We may need to define this ourselves and the cells being counted will get an aphiaID. also, 2 possible units"
+,organism_count,xsd:list,xsd:list,,"string+"" ""+float+"";""",NA,will_need_to_define_ourselves,will_need_to_define_ourselves,water;soil,Measured,optional,"Total cell count of any organism (or group of organisms) per volume of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)",bacteria 551E-9;Synechococcus 136E-12,"yes - but the unit, not the measurement","will be hard to manage if allowing multiple entries - hard to standardise - and if allowing multiple units. cant find a term in BODC for general cell count, only counts of certain organisms. We may need to define this ourselves and the cells being counted will get an aphiaID. also, 2 possible units"
 ,organism_count_method,xsd:list,xsd:list,,"string+"";""",NA,NA,,water;soil,Measured,optional,"Method for the enumeration of total cell count of any organism (or group of organisms) per volume of sample, should include name of organism followed by the method (e.g. qPCR, atp, flow cytometry, microscopy, etc.). Provide as much information as possible. If there is a relevant reference or SOP, provide doi or link",bacteria Flow cytometry FACSAria II flow cytometer (Becton-Dickinson) and convertion factor described in Lee Fuhrman. 1987 ;Synechococcus Flow cytometry EPICS ALTRA. Beckman Coulter and convertion factor described in Kana Gliber. 2000,,
 " ",oxy_stat_samp,xsd:boolean,xsd:boolean,,Y and N rather than 1 and 0,https://www.ebi.ac.uk/ols/ontologies/envo/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FENVO_00002045,NA,,soil,Measured,optional,"Oxygenation status of sample. Indicate if the sample is anaerobic by adding ""Y"" if anaerobic and ""N"" if not",Y,yes,"http://purl.obolibrary.org/obo/PATO_0001455 (aerobic) and PATO:0001456 anearobic "
 ,part_org_carb,xd:float,xd:float,,,http://vocab.nerc.ac.uk/collection/P35/current/EPC00157/,ug/l,http://vocab.nerc.ac.uk/collection/P06/current/UGPL/,water;soil,Measured,optional,Concentration of particulate organic carbon,0.85,,