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[[https://ci.systemreboot.net/jobs/dump-genenetwork-database-tests][https://ci.systemreboot.net/badge/dump-genenetwork-database-tests.svg]] [[https://ci.systemreboot.net/jobs/dump-genenetwork-database][https://ci.systemreboot.net/badge/dump-genenetwork-database.svg]]
The GeneNetwork database is being migrated from a relational database
to a plain text and RDF database. This repository contains code to
dump the relational database to plain text.
* Using
Drop into a development environment with
#+BEGIN_SRC shell
$ guix shell
#+END_SRC
Describe the database connection parameters in a file /conn.scm/ file
as shown below. Take care to replace the placeholders within angle
brackets with the appropriate values.
#+BEGIN_SRC scheme
((username . "<username-here>")
(password . "<password-here>")
(database . "<database-name-here>")
(host . "<hostname-here>")
(port . <port-here>))
#+END_SRC
Then, to dump the database to ~/data/dump, run
#+BEGIN_SRC shell
$ ./pre-inst-env ./dump.scm conn.scm ~/data/dump
#+END_SRC
Make sure there is enough free space! It's best to dump the database
on penguin2 where disk space and bandwidth are not significant
constraints.
* Contributing
See bugs and tasks in BUGS.org.
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