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Top Forums UNIX for Beginners Questions & Answers Creating script to read many files and load into database via single control file Post 303042120 by Chubler_XL on Sunday 15th of December 2019 07:20:54 PM
Old 12-15-2019
Rather than using sed to change your original template file and then change it back why not create a new file with the changes and remove once you are done. Here I use $$ which expands to shells processID to ensure unique filename in case script is run simultaneously.

Also assuming TEXT is supposed to be replaced with the table names:

Code:
for table in switch billing
do
   for file in /tmp/*.$table 
   do
       if [ -f "$file" ] 
       then
           sed -e "s|FILENAME|$i|g" -e "s|TEXT|$table|g" /tmp/data1.ctl  > /tmp/$$_data1.ctl
           sqlldr TNS control=/tmp/$$_data1.ctl
           rm /tmp/$$_data1.ctl
       fi
    done
done

 

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BP_GENBANK2GFF(1p)					User Contributed Perl Documentation					BP_GENBANK2GFF(1p)

NAME
bp_genbank2gff.pl - Load a Bio::DB::GFF database from GENBANK files. SYNOPSIS
% bp_genbank2gff.pl -d genbank -f localfile.gb % bp_genbank2gff.pl -d genbank --accession AP003256 % bp_genbank2gff.pl --accession AP003256 --stdout DESCRIPTION
This script loads a Bio::DB::GFF database with the features contained in a either a local genbank file or an accession that is fetched from genbank. Various command-line options allow you to control which database to load and whether to allow an existing database to be overwritten. The database must already have been created and the current user must have appropriate INSERT and UPDATE privileges. The --create option will initialize a new database with the appropriate schema, deleting any tables that were already there. COMMAND-LINE OPTIONS Command-line options can be abbreviated to single-letter options. e.g. -d instead of --database. --create Force creation and initialization of database --dsn <dsn> Data source (default dbi:mysql:test) --user <user> Username for mysql authentication --pass <password> Password for mysql authentication --proxy <proxy> Proxy server to use for remote access --stdout direct output to STDOUT --adaptor <adaptor> adaptor to use (eg dbi::mysql, dbi::pg, dbi::oracle) --viral the genome you are loading is viral (changes tag choices) --source <source> source field for features ['genbank'] EITHER --file Arguments that follow are Genbank/EMBL file names OR --gb_folder What follows is a folder full of gb files to process OR --accession Arguments that follow are genbank accession numbers (not gi!) OR --acc_file Accession numbers (not gi!) in a file (one per line, no punc.) OR --acc_pipe Accession numbers (not gi!) from a STDIN pipe (one per line) SEE ALSO
Bio::DB::GFF, bulk_load_gff.pl, load_gff.pl AUTHOR
Scott Cain, cain@cshl.org Copyright (c) 2003 Cold Spring Harbor Laboratory This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself. See DISCLAIMER.txt for disclaimers of warranty. perl v5.14.2 2012-03-02 BP_GENBANK2GFF(1p)
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