Opened 3 years ago

Closed 3 years ago

#985 closed task (fixed)

Re-design the gene report generator so that it can produce the report using data from the cufflinks file

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: critical Milestone: Reggie v4.11
Component: net.sf.basedb.reggie Keywords:
Cc:

Description (last modified by Nicklas Nordborg)

This is part of #982.

The pilot and gene report plug-in currently assumes that the data that is needed for the reports can be found in the database. This function need to be updated to take the data from the isoforms.fpkm_tracking file instead.

Change History (4)

comment:1 Changed 3 years ago by Nicklas Nordborg

Summary: Re-design the pilot report generator so that it can produce the report using data from the cufflinks fileRe-design the gene report generator so that it can produce the report using data from the cufflinks file

Turned out that the pilot report is already using only the cufflinks file. The gene report is using data from the database so it is only this that needs to be updated.

comment:2 Changed 3 years ago by Nicklas Nordborg

Description: modified (diff)

comment:3 Changed 3 years ago by Nicklas Nordborg

Status: newassigned

comment:4 Changed 3 years ago by Nicklas Nordborg

Resolution: fixed
Status: assignedclosed

(In [4538]) Fixes #985: Re-design the gene report generator so that it can produce the report using data from the cufflinks file

FPKM values are now automatically read from the Cufflinks file instead of from the database if there is no data in the database.

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