Cellosaurus - A knowledge resources on cell lines

From the CALIPHO group of the SIB Swiss Institute of Bioinformatics

The Cellosaurus is a knowledge resource on cell lines. It attempt to describe all cell lines used in biomedical research.

Cellosaurus syntax checker

This project is used to check the syntax of the cellosaurus.txt ASCII file and can also generate the OBO and XML format files.

For developers

Build the jar

sbt assembly

Play with some classes

• Select a mainClass in build.sbt
• Run the class with a simila rommand as

sbt "run arg1 arg2 ... argN"

For users

java -jar jar-file cellosaurus-file
java -jar jar-file cellosaurus-file -obo (Also generates the OBO format file, cellosaurus.obo)
java -jar jar-file cellosaurus-file -xml (Also generates the XML format file, cellosaurus.xml)
java -jar jar-file cellosaurus-file -stats (Also generates some stats, directly on stdout)
java -jar jar-file cellosaurus-file conflicts=conflicts_file (Also creates a file with the cell lines with identical names/synonyms)
java -jar jar-file cellosaurus-file DRmap=mapfile (Also creates a file with all cross-references (DR) and publications (RX))