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YeoLab / gscripts

General Use Scripts and Helper functions
MIT License
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not found: type MapRepetitiveRegions #70

Closed hjeanc closed 9 years ago

hjeanc commented 9 years ago

I'm unable to run analyze_rna_seq.scala because of a missing definition. Here's a link to a gist with the output logs, a bit of the manifest file, the sh script, and all the recent git logs. We have the most updated version of both GATK queue and gscript

gpratt commented 9 years ago

update gatk queue again please, Also do another pull on gscripts. MapRepetitiveRegions shouldn't actually be called anymore. I'm confused as to why it is.

Gabriel Pratt Bioinformatics Graduate Student, Yeo Lab University of California San Diego

On Tue, May 5, 2015 at 4:03 PM, hjeanc notifications@github.com wrote:

I'm unable to run analyze_rna_seq.scala because of a missing definition. Here's a link to a gist https://gist.github.com/hjeanc/eee5d2edfb79a4560555 with the output logs, a bit of the manifest file, the sh script, and all the recent git logs. We have the most updated version of both GATK queue and gscript

— Reply to this email directly or view it on GitHub https://github.com/YeoLab/gscripts/issues/70.

gpratt commented 9 years ago

did you re-build gatk queue?

Gabriel Pratt Bioinformatics Graduate Student, Yeo Lab University of California San Diego

On Tue, May 5, 2015 at 4:14 PM, Gabriel Pratt gpratt@ucsd.edu wrote:

update gatk queue again please, Also do another pull on gscripts. MapRepetitiveRegions shouldn't actually be called anymore. I'm confused as to why it is.

Gabriel Pratt Bioinformatics Graduate Student, Yeo Lab University of California San Diego

On Tue, May 5, 2015 at 4:03 PM, hjeanc notifications@github.com wrote:

I'm unable to run analyze_rna_seq.scala because of a missing definition. Here's a link to a gist https://gist.github.com/hjeanc/eee5d2edfb79a4560555 with the output logs, a bit of the manifest file, the sh script, and all the recent git logs. We have the most updated version of both GATK queue and gscript

— Reply to this email directly or view it on GitHub https://github.com/YeoLab/gscripts/issues/70.

hjeanc commented 9 years ago

yes with ant clean dist

hjeanc commented 9 years ago

no updates in gscripts, git pull origin master says up to date

gpratt commented 9 years ago

Update gscripts again. Should work.

Gabriel Pratt Bioinformatics Graduate Student, Yeo Lab University of California San Diego

On Tue, May 5, 2015 at 4:17 PM, hjeanc notifications@github.com wrote:

no updates in gscripts, git pull origin master says up to date

— Reply to this email directly or view it on GitHub https://github.com/YeoLab/gscripts/issues/70#issuecomment-99258004.

hjeanc commented 9 years ago

Thanks!!!