This page was generated on 2022-07-07 11:11:46 -0400 (Thu, 07 Jul 2022).
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data psygenet2r
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* checking for file ‘psygenet2r/DESCRIPTION’ ... OK
* preparing ‘psygenet2r’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘case_study.Rmd’ using rmarkdown
Warning in psygenetGene(geneList, database, verbose = verbose) :
One or more of the given genes is not in PsyGeNET ( 'ALL' ):
AKAP13, ANKS1A, ATP6V1G3, C11orf80, CACNB3, CROT, DNAJB4, DUSP22, FAM155A, FLJ16124, FSTL5, GATA5, GNA14, GPR81, IFI44, KDM5B, KIF1A, LOC150197, MAPK10, MCM9, MSI2, ODZ4, PAPOLG, PAX1, PTPRE, PTPRT, RASIP1, RIMBP2, RXRG, SGCG, SIPA1L2, SNX8, SPERT, STK39, THSD7A, TNR, TRANK1, TRIM9, UBE2E3, UBR1, ZMIZ1, ZNF274
Quitting from lines 191-196 (case_study.Rmd)
Error: processing vignette 'case_study.Rmd' failed with diagnostics:
argument 'x' must be a raw vector
--- failed re-building ‘case_study.Rmd’
--- re-building ‘general_overview.Rmd’ using rmarkdown
Warning: The `space` argument of `gradient_n_pal()` only supports be "Lab" as of scales 0.3.0.
This warning is displayed once every 8 hours.
Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated.
Warning in singleInput.genes(diseases$diseases$geneList$genes, psy, universe, :
Jaccard Index for all diseases in PsyGeNET will be calculated.
--- finished re-building ‘general_overview.Rmd’
SUMMARY: processing the following file failed:
‘case_study.Rmd’
Error: Vignette re-building failed.
Execution halted