FAQS

Solution:
  1. Download the bundle file.
  2. Open a terminal
  3. Execute the script providing the destination...
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Solution:

INSTALL PREREQUISITES

If you don't choose one-click liveCD installation, you can install RubioSeq+ manually downloading the source code (core and GUI) from...

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Solution:

CCAT needs a treatment sample and an input sample to generate broad peaks.

Make sure you have set this in experiment XML file.

Solution:

Chipseq normalization step error

If ChipSeq branch execution stops with this error:

view: invalid option -- 's'
open: No such file or directory
[main_samview] fail to...

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Solution:

If running RUbioSeq+ you have this error:

##### ERROR stack trace
java.lang.ExceptionInInitializerError
at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.<init>(...

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Solution:

If execution aborts with this error:

[bwa_aln] fail to locate the index

It is because bwa can't find the reference index files.
Make sure:

  1. You have properly...
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