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MonashBioinformaticsPlatform / RNAsik-pipe

RNAsik - more than just a pipeline
https://monashbioinformaticsplatform.github.io/RNAsik-pipe/
Apache License 2.0
13 stars 5 forks source link

Missing dependency: samtools #1

Closed steveandroulakis closed 8 years ago

steveandroulakis commented 8 years ago

Your dependencies in the README are listed as:

BigDataScript STAR aligner Picard tools RNA-SeQC featureCounts

But samtools appears to be required: /root/data/run/RNAsik-pipe.20151028_011201_549/task.sikMakeIndices.Indexing_FASTA_file.line_45.id_2.sh: samtools: not found

Maybe update your docs to make sure all the dependencies are covered? Cheers

serine commented 8 years ago

Yes, I forgot to mention that in my docs, samtools are definitely needed. I just update the docs. Thanks for pointing this out.