Hi, thanks for the package!
I ran into this issue:
> query(MotifDb, 'nrf2')
MotifDb object of length 1
| Created from downloaded public sources: 2013-Aug-30
| 1 position frequency matrices from 1 source:
| HOMER: 1
| 1 organism/s
Error in 1:nrow(tbl.org) : argument of length 0
It seems to be the problem in the [ operator:
> MotifDb[2746]
MotifDb object of length 1
| Created from downloaded public sources: 2013-Aug-30
| 1 position frequency matrices from 1 source:
| HOMER: 1
| 1 organism/s
Error in 1:nrow(tbl.org) : argument of length 0
> sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: Fedora 28 (Workstation Edition)
Matrix products: default
BLAS/LAPACK: /usr/lib64/R/lib/libRblas.so
locale:
[1] LC_CTYPE=ru_RU.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_DK.UTF-8 LC_COLLATE=ru_RU.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats4 parallel stats graphics grDevices utils datasets
[8] methods base
other attached packages:
[1] stringr_1.3.1 MotifDb_1.22.0 Biostrings_2.48.0
[4] XVector_0.20.0 IRanges_2.14.10 S4Vectors_0.18.2
[7] BiocGenerics_0.26.0 BiocInstaller_1.30.0
loaded via a namespace (and not attached):
[1] magrittr_1.5 GenomicRanges_1.32.3
[3] zlibbioc_1.26.0 GenomicAlignments_1.16.0
[5] BiocParallel_1.14.1 lattice_0.20-35
[7] GenomeInfoDb_1.16.0 tools_3.5.0
[9] SummarizedExperiment_1.10.1 grid_3.5.0
[11] data.table_1.11.4 Biobase_2.40.0
[13] matrixStats_0.53.1 Matrix_1.2-14
[15] GenomeInfoDbData_1.1.0 rtracklayer_1.40.3
[17] bitops_1.0-6 RCurl_1.95-4.10
[19] stringi_1.2.2 DelayedArray_0.6.0
[21] compiler_3.5.0 Rsamtools_1.32.0
[23] XML_3.98-1.11 splitstackshape_1.4.4
Hi, thanks for the package!
I ran into this issue:
It seems to be the problem in the
[operator: