Extract ChEBI molecules from TSV file and upload them into a database

Created: 2008-11-06 16:11:54

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This worklfow load a TSV file from the ChEBI database. (normally structures.tsv) After the extraction of the molecules from the TSV file all non MDL mol files are removed before the valid molecules are inserted into a database.

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Processors (6)

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Source	Sink
Extract_Data_from_Chebi_Structure_TSV:COMPOUND_ID	Remove_all_non_MDL_Mol_entries_from_list:COMPOUND_ID
Extract_Data_from_Chebi_Structure_TSV:DIMENSION	Remove_all_non_MDL_Mol_entries_from_list:DIMENSION
Extract_Data_from_Chebi_Structure_TSV:ID	Remove_all_non_MDL_Mol_entries_from_list:ID
Extract_Data_from_Chebi_Structure_TSV:STRUCTURE	Remove_all_non_MDL_Mol_entries_from_list:STRUCTURE
Extract_Data_from_Chebi_Structure_TSV:TYPE	Remove_all_non_MDL_Mol_entries_from_list:TYPE
Insert_Molecule_into_database:comment	Write_CSV___TXT_Files:content
Origin:value	Insert_Molecule_into_database:Origon
Remove_all_non_MDL_Mol_entries_from_list:COMPOUND_ID	Insert_Molecule_into_database:Comment
Remove_all_non_MDL_Mol_entries_from_list:ID	Insert_Molecule_into_database:orginalIDs
Remove_all_non_MDL_Mol_entries_from_list:STRUCTURE	Insert_Molecule_into_database:inputStructures
Textfile_Reader:fileContent	Extract_Data_from_Chebi_Structure_TSV:inputContent

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Information Workflow Type

Taverna 1

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Thomasku

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Thomasku

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CDK-Taverna

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Information Statistics

1721 viewings

1702 downloads

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Extract ChEBI molecules from TSV file and upload them into a database

Created by Thomasku on Thursday 06 November 2008 16:11:54 (UTC)

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Name	Type	Description
Write_CSV___TXT_Files
Textfile_Reader
Extract_Data_from_Chebi_Structure_TSV
Origin	stringconstant
Insert_Molecule_into_database
Remove_all_non_MDL_Mol_entries_from_list