diff --git a/scripts/build_database.sh b/scripts/build_database.sh index 58f50c9..1277b5d 100755 --- a/scripts/build_database.sh +++ b/scripts/build_database.sh @@ -25,16 +25,16 @@ Build Unipept database from a specific collection of UniProt resources. Required parameters: * BUILD_TYPE: One of database, static-database, kmer-index, tryptic-index. - * DB_NAMES: List with all names of the different databases that should be parsed. Every name in this list + * DB_NAMES: List with all names of the different databases that should be parsed. Every name in this list corresponds with the respective database source given for the DB_SOURCES parameter. The items in this list should be delimited by comma's. - * DB_SOURCES: List of UniProt source URLs. The items in this list should be delimited by comma's. Commonly used + * DB_SOURCES: List of UniProt source URLs. The items in this list should be delimited by comma's. Commonly used databases and their corresponding sources are: - - swissprot: https://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.xml.gz - - trembl: https://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/uniprot_trembl.xml.gz + - swissprot: https://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.xml.gz + - trembl: https://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/uniprot_trembl.xml.gz - * OUTPUT_DIR: Directory in which the tsv.gz-files that are produced by this script will be stored. + * OUTPUT_DIR: Directory in which the tsv.gz-files that are produced by this script will be stored. Options: * -h