############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data fluentGenomics ### ############################################################################## ############################################################################## * checking for file ‘fluentGenomics/DESCRIPTION’ ... OK * preparing ‘fluentGenomics’: * checking DESCRIPTION meta-information ... OK * installing the package (it is needed to build vignettes) * creating vignettes ... ERROR --- re-building ‘fluentGenomics.Rmd’ using rmarkdown Quitting from fluentGenomics.Rmd:190-195 [tximeta-run] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `readRDS()`: ! embedded nul in string: 'E005-H3K4me2.imputed.pval.signal.bigwig\rBroadInstitute\rHomo sapiens\r9606\rhg19\rBigwig File containing -log10(p-value) signal tracks from EpigenomeRoadMap Project\r0\rBioconductor Maintainer \r2015-05-08\rEpigenomeRoadMapPreparer\rc("EpigenomeRoadMap", "signal", "consolidatedImputed", "H3K4me2", "E005", "ES-deriv", "ESDR.H1.BMP4.TAted.pval.signal.bigwig\rhttp://egg2.wustl.edu/roadmap/data/byFileType/signal/consolidatedImputed/H3K4me2/E004-H3K4me2.imputed.pval.signal.bigwig\rBigWig\0\004\0\t\0\0\002kE005-H3K4me2.imputed.pval.signal.bigwig\rBroadInstitute\rHomo sapiens\r9606\rhg19\rBigwig File containing -log1' --- Backtrace: ▆ 1. └─tximeta::tximeta(coldata, dropInfReps = TRUE) 2. └─tximeta:::getTxDb(txomeInfo, useHub = useHub, skipFtp = skipFtp) 3. ├─AnnotationHub::query(ah, c(srcName, txomeInfo$organism, txomeInfo$release)) 4. └─AnnotationHub::query(ah, c(srcName, txomeInfo$organism, txomeInfo$release)) 5. └─AnnotationHub (local) .local(x, pattern, ...) 6. └─AnnotationHub:::.db_index_load(x) 7. └─base::readRDS(.db_index_file(x)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'fluentGenomics.Rmd' failed with diagnostics: embedded nul in string: 'E005-H3K4me2.imputed.pval.signal.bigwig\rBroadInstitute\rHomo sapiens\r9606\rhg19\rBigwig File containing -log10(p-value) signal tracks from EpigenomeRoadMap Project\r0\rBioconductor Maintainer \r2015-05-08\rEpigenomeRoadMapPreparer\rc("EpigenomeRoadMap", "signal", "consolidatedImputed", "H3K4me2", "E005", "ES-deriv", "ESDR.H1.BMP4.TAted.pval.signal.bigwig\rhttp://egg2.wustl.edu/roadmap/data/byFileType/signal/consolidatedImputed/H3K4me2/E004-H3K4me2.imputed.pval.signal.bigwig\rBigWig\0\004\0\t\0\0\002kE005-H3K4me2.imputed.pval.signal.bigwig\rBroadInstitute\rHomo sapiens\r9606\rhg19\rBigwig File containing -log1' --- failed re-building ‘fluentGenomics.Rmd’ SUMMARY: processing the following file failed: ‘fluentGenomics.Rmd’ Error: Vignette re-building failed. Execution halted