GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.
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Current singularity image bug: `biomartr` missing #6
The latest singularity image (sha256.aa0c18cb743d243bec4b18c16ed147d9bc7f4493c98603b7a886c7601a7beaa5) for GraffiTE misses the R packages biomartr, which causes the RepeatMasker process to fail annotating the VCF. The next process tsd_prep does not produce an output and prematurely ends the pipeline.
The latest
singularityimage (sha256.aa0c18cb743d243bec4b18c16ed147d9bc7f4493c98603b7a886c7601a7beaa5) forGraffiTEmisses the R packagesbiomartr, which causes theRepeatMaskerprocess to fail annotating the VCF. The next processtsd_prepdoes not produce an output and prematurely ends the pipeline.Update as soon as it is fixed!