Welcome to nrseq-fasta-importer’s documentation!

To learn more about the innards and working of the associated databases and software, see the About nrseq-fasta-importer page. To learn about how to install the nrseq-fasta-importer application, see the Installing nrseq-fasta-importer page. And, to learn more about how to use the nrseq-fasta-importer web application, see the Using nrseq-fasta-importer page.

Table of Contents

• About nrseq-fasta-importer
  • The YRC_NRSEQ database
  • Why do we have to parse FASTA files?
  • How does parsing work?
  • How does the taxonomy lookup work?
  • What if the taxonomy ID cannot be found?
• Installing nrseq-fasta-importer
  • 1. Install MySQL, Java, and Apache Tomcat (if necessary)
  • 2. Set up the YRC_NRSEQ database
  • 3. Set up the nrseq_fasta_importer database
  • 4. Configure Apache Tomcat database connection
  • 5. Install WAR file into Apache Tomcat
  • 6. Configure security for Apache Tomcat (optional but recommended)
• Using nrseq-fasta-importer
  • Overview
  • Upload the FASTA file
  • User input of taxonomy IDs
  • Inspect taxonomy ID assignments
  • Import the FASTA file