Opened 6 years ago

Closed 6 years ago

#654 closed enhancement (fixed)

Synchronize default options for pipeline analysis

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: minor Milestone: Reggie v2.16.1
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

The reggie-ogs-hosts.xml file contain a lot of options for the programs used in the analysis pipeline. The current version is based on an older setup and some parameters have been changed.

Change History (9)

comment:1 Changed 6 years ago by Nicklas Nordborg

(In [2763]) References #654: Synchronize default options for pipeline analysis

Updated parameters for trimmomatic in the demux step.

comment:2 Changed 6 years ago by Nicklas Nordborg

(In [2764]) References #654: Synchronize default options for pipeline analysis

Updated path to ribo_phix_repeats_filter.

comment:3 Changed 6 years ago by Nicklas Nordborg

(In [2765]) References #654: Synchronize default options for pipeline analysis

Updated path to reference folder.

comment:4 Changed 6 years ago by Nicklas Nordborg

(In [2766]) References #654: Synchronize default options for pipeline analysis

Updated path to Picard folder.

comment:5 Changed 6 years ago by Nicklas Nordborg

(In [2767]) References #654: Synchronize default options for pipeline analysis

Updated path to pipeline scripts folder.

comment:6 Changed 6 years ago by Nicklas Nordborg

(In [2768]) References #654: Synchronize default options for pipeline analysis

Updated paths data folders.

comment:7 Changed 6 years ago by Nicklas Nordborg

(In [2771]) References #654: Synchronize default options for pipeline analysis

Updated tophat options.

comment:8 Changed 6 years ago by Nicklas Nordborg

(In [2772]) References #654: Synchronize default options for pipeline analysis

Same changes applied to trunk version of configuration file. Since the file has moved changes would not have been merged back to the trunk automatically.

comment:9 Changed 6 years ago by Nicklas Nordborg

Resolution: fixed
Status: newclosed
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