Entering edit mode
I installed the pqsfinder package but cannot run the example code. Any suggestions? Thanks!!!
pqsfinder(DNAString("CCCCCCGGGTGGGTGGGTGGGTAAAA"))
Searching on sense strand...
Search status: finished
Searching on antisense strand...
Search status: finished
Error in pqsfinder(DNAString("CCCCCCGGGTGGGTGGGTGGGTAAAA")) :
Evaluation error: invalid class “PQSViews” object: undefined class for slot "elementMetadata" ("DataTable_OR_NULL").
sessionInfo( )
─ Session info ──────────────────────────────────────────────────────────────────────────────────
setting value
version R version 4.0.3 (2020-10-10)
os macOS Catalina 10.15.7
system x86_64, darwin17.0
ui RStudio
language (EN)
collate en_US.UTF-8
ctype en_US.UTF-8
tz America/Toronto
date 2021-02-09
─ Packages ──────────────────────────────────────────────────────────────────────────────────────
! package * version date lib source
abind 1.4-5 2016-07-21 [1] CRAN (R 4.0.2)
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askpass 1.1 2019-01-13 [1] CRAN (R 4.0.0)
assertthat 0.2.1 2019-03-21 [1] CRAN (R 4.0.0)
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BiocFileCache 1.14.0 2020-10-27 [1] Bioconductor
BiocGenerics * 0.36.0 2020-10-27 [1] Bioconductor
BiocManager 1.30.10 2019-11-16 [1] CRAN (R 4.0.2)
BiocParallel 1.24.1 2020-11-06 [1] Bioconductor
biomaRt 2.46.0 2020-10-27 [1] Bioconductor
Biostrings * 2.58.0 2020-10-27 [1] Bioconductor
bit 4.0.4 2020-08-04 [1] CRAN (R 4.0.2)
bit64 4.0.5 2020-08-30 [1] CRAN (R 4.0.2)
bitops 1.0-6 2013-08-17 [1] CRAN (R 4.0.0)
blob 1.2.1 2020-01-20 [1] CRAN (R 4.0.0)
broom 0.7.4 2021-01-29 [1] CRAN (R 4.0.2)
callr 3.5.1 2020-10-13 [1] CRAN (R 4.0.2)
car 3.0-10 2020-09-29 [1] CRAN (R 4.0.2)
carData 3.0-4 2020-05-22 [1] CRAN (R 4.0.2)
cellranger 1.1.0 2016-07-27 [1] CRAN (R 4.0.0)
V cli 2.2.0 2021-01-31 [1] CRAN (R 4.0.2)
colorspace 2.0-0 2020-11-11 [1] CRAN (R 4.0.2)
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curl 4.3 2019-12-02 [1] CRAN (R 4.0.0)
data.table 1.13.6 2020-12-30 [1] CRAN (R 4.0.2)
V DBI 1.1.0 2021-01-15 [1] CRAN (R 4.0.2)
V dbplyr 2.0.0 2021-02-03 [1] CRAN (R 4.0.2)
DelayedArray 0.16.0 2020-10-27 [1] Bioconductor
desc 1.2.0 2018-05-01 [1] CRAN (R 4.0.0)
devtools * 2.3.2 2020-09-18 [1] CRAN (R 4.0.2)
digest 0.6.27 2020-10-24 [1] CRAN (R 4.0.2)
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ellipsis 0.3.1 2020-05-15 [1] CRAN (R 4.0.0)
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forcats 0.5.1 2021-01-27 [1] CRAN (R 4.0.2)
foreign 0.8-81 2020-12-22 [1] CRAN (R 4.0.2)
fs 1.5.0 2020-07-31 [1] CRAN (R 4.0.2)
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GenomeInfoDb * 1.26.2 2020-12-08 [1] Bioconductor
GenomeInfoDbData 1.2.4 2020-12-18 [1] Bioconductor
GenomicAlignments 1.26.0 2020-10-27 [1] Bioconductor
GenomicFeatures * 1.42.1 2020-11-11 [1] Bioconductor
GenomicRanges * 1.42.0 2020-10-27 [1] Bioconductor
ggplot2 * 3.3.3 2020-12-30 [1] CRAN (R 4.0.2)
ggpubr * 0.4.0 2020-06-27 [1] CRAN (R 4.0.2)
ggseqlogo * 0.1 2020-08-06 [1] Github (omarwagih/ggseqlogo@4adc8f2)
ggsignif 0.6.0 2019-08-08 [1] CRAN (R 4.0.2)
glue 1.4.2 2020-08-27 [1] CRAN (R 4.0.2)
gtable 0.3.0 2019-03-25 [1] CRAN (R 4.0.0)
haven 2.3.1 2020-06-01 [1] CRAN (R 4.0.0)
V hms 0.5.3 2021-01-13 [1] CRAN (R 4.0.2)
httr 1.4.2 2020-07-20 [1] CRAN (R 4.0.2)
IRanges * 2.24.1 2020-12-12 [1] Bioconductor
lattice 0.20-41 2020-04-02 [1] CRAN (R 4.0.3)
lifecycle 0.2.0 2020-03-06 [1] CRAN (R 4.0.0)
magrittr 2.0.1 2020-11-17 [1] CRAN (R 4.0.2)
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openssl 1.4.3 2020-09-18 [1] CRAN (R 4.0.2)
openxlsx 4.2.3 2020-10-27 [1] CRAN (R 4.0.2)
pillar 1.4.7 2020-11-20 [1] CRAN (R 4.0.2)
pkgbuild 1.2.0 2020-12-15 [1] CRAN (R 4.0.2)
pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 4.0.0)
pkgload 1.1.0 2020-05-29 [1] CRAN (R 4.0.0)
pqsfinder * 2.4.0 2020-04-27 [1] Bioconductor
prettyunits 1.1.1 2020-01-24 [1] CRAN (R 4.0.0)
processx 3.4.5 2020-11-30 [1] CRAN (R 4.0.2)
progress 1.2.2 2019-05-16 [1] CRAN (R 4.0.0)
ps 1.5.0 2020-12-05 [1] CRAN (R 4.0.2)
purrr 0.3.4 2020-04-17 [1] CRAN (R 4.0.0)
R6 2.5.0 2020-10-28 [1] CRAN (R 4.0.2)
V rappdirs 0.3.1 2021-01-31 [1] CRAN (R 4.0.2)
V Rcpp 1.0.5 2021-01-15 [1] CRAN (R 4.0.2)
RCurl 1.98-1.2 2020-04-18 [1] CRAN (R 4.0.0)
readxl 1.3.1 2019-03-13 [1] CRAN (R 4.0.0)
remotes 2.2.0 2020-07-21 [1] CRAN (R 4.0.2)
rio 0.5.16 2018-11-26 [1] CRAN (R 4.0.2)
rlang 0.4.10 2020-12-30 [1] CRAN (R 4.0.2)
rprojroot 2.0.2 2020-11-15 [1] CRAN (R 4.0.2)
Rsamtools * 2.6.0 2020-10-27 [1] Bioconductor
V RSQLite 2.2.2 2021-01-24 [1] CRAN (R 4.0.2)
rstatix 0.6.0 2020-06-18 [1] CRAN (R 4.0.2)
rstudioapi 0.13 2020-11-12 [1] CRAN (R 4.0.2)
rtracklayer * 1.50.0 2020-10-27 [1] Bioconductor
S4Vectors * 0.28.1 2020-12-09 [1] Bioconductor
scales 1.1.1 2020-05-11 [1] CRAN (R 4.0.0)
sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 4.0.0)
stringi 1.5.3 2020-09-09 [1] CRAN (R 4.0.2)
stringr 1.4.0 2019-02-10 [1] CRAN (R 4.0.0)
SummarizedExperiment 1.20.0 2020-10-27 [1] Bioconductor
testthat 3.0.1 2020-12-17 [1] CRAN (R 4.0.3)
V tibble 3.0.4 2021-01-29 [1] CRAN (R 4.0.2)
tidyr 1.1.2 2020-08-27 [1] CRAN (R 4.0.2)
tidyselect 1.1.0 2020-05-11 [1] CRAN (R 4.0.0)
usethis * 2.0.0 2020-12-10 [1] CRAN (R 4.0.2)
vctrs 0.3.6 2020-12-17 [1] CRAN (R 4.0.3)
withr 2.4.1 2021-01-26 [1] CRAN (R 4.0.2)
XML 3.99-0.5 2020-07-23 [1] CRAN (R 4.0.2)
xml2 1.3.2 2020-04-23 [1] CRAN (R 4.0.0)
XVector * 0.30.0 2020-10-28 [1] Bioconductor
yaml 2.2.1 2020-02-01 [1] CRAN (R 4.0.0)
zip 2.1.1 2020-08-27 [1] CRAN (R 4.0.2)
zlibbioc 1.36.0 2020-10-28 [1] Bioconductor
[1] /Library/Frameworks/R.framework/Versions/4.0/Resources/library
V ── Loaded and on-disk version mismatch.
You are right! Thanks a lot!!!