Opened 12 years ago

Closed 12 years ago

#98 closed task (fixed)

Implement validator and metadata extractor plug-in for BGX files

Reported by: Nicklas Nordborg Owned by: Martin Svensson
Priority: major Milestone: Illumina package v1.0
Component: net.sf.basedb.illumina Keywords:
Cc:

Description

It should simply check the [Heading] section in the beginning of the file and extract the "Number of Probes" and "Number of Controls" values. It should of course support compressed (gzip) and non-compressed files.

NOTE! This can't currently be implemented since the BASE core doesn't have support for validators and meta data-extractors in external jar files. See http://base.thep.lu.se/ticket/911

Change History (6)

comment:1 Changed 12 years ago by Martin Svensson

Owner: changed from Johan Enell to Martin Svensson
Status: newassigned

comment:2 Changed 12 years ago by Martin Svensson

(In [567]) References #98 A start of a BGX validator/metadatareader.

comment:3 Changed 12 years ago by Martin Svensson

(In [569]) References #98 The validator and meta data reader is done. The installation routine needs to be updated before this ticket is finished.

comment:4 Changed 12 years ago by Martin Svensson

Resolution: fixed
Status: assignedclosed

(In [579]) Fixes #98 Implement validator and metadata extractor plug-in for BGX files

comment:5 Changed 12 years ago by Nicklas Nordborg

Resolution: fixed
Status: closedreopened

The metadata extractor only extracts the number of controls, not the number of probes.

comment:6 Changed 12 years ago by Nicklas Nordborg

Resolution: fixed
Status: reopenedclosed

(In [584]) Fixes #98: Implement validator and metadata extractor plug-in for BGX files

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