Ticket #668 (new)

Opened 5 months ago

Run msInspect feature finding from Proteios

Reported by: fredrik Owned by: fredrik
Milestone: Proteios SE Future Release Keywords:
Cc:

Description

It should be possible to run an external binary  msInspect on a mzML or mzXML file in Proteios: java -jar -Xmx512M viewerApp.jar --findpeptides file_name.mzML and the generated peptides.tsv file should be uploaded to Proteios. To accomplish this: 1) Generate a new temporary directory in the temp folder. 2) File copied to new temporary directory. 3) Command run in the temp directory. 4) Resulting .peptides file uploaded and saved in database. 5) Other files generated and the temp dir are deleted. - It should be possible to kill the job, and then the temp dir should be deleted. - A release or nightly build of msInspect newer than March 2010 should be used for full mzML functionality.

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