Error of csCluster in CummeRbund

[washy]

Dear All

We had following error when we run CsCluster for human trasncriptome data.

=========================================
Using tracking_id, sample_name as id variables Error in pam(n, k, ...) :
NA-values in the dissimilarity matrix not allowed.
Calls: csCluster -> csCluster -> pam
=========================================

The version of software we used is as follows.

- Tophat: ver. 2.0.9
- bowtie2: ver. 2.1.0
- cuffdiff: ver. 2.1.1
- R: 2.15.2
- Bioconductor: 2.11
- CummeRbund: 2.0.0

This issue appears as following manner.has following pattern.

- There are two types of files (FASTQ) in which the error appears or doesn't appear.
- This error is reproducible if we used same error file.
- This error disappeared if we use reduced file, even if error appear with its full dataset.
- In some cases, this error was disappeared if we set "FALSE" for the "logMode" option in the CsCluster. But this is not observed in all cases.
- The result was same if we used another version of software.

- R: 3.0.1
- Bioconductor: 2.12
- CummeRbund: 2.2.0

- R: 3.0.1
- Bioconductor: 2.13
- CummeRbund: 2.3.0



Please help us if you know how to fix this issue.
Thank you for your cooperation.