Hello, I am trying the seq2pathway package under Mac OS X.
As requested I have python2.7 installed.
However, I got an error when running the function runseq2gene():
sh: C:/Python27/python: No such file or directory
Error in system(command, intern = TRUE) : error in running command
It seems that under Mac OS X the package is searching for python thinking that it is running under Windows OS instead of OS X.
Best,
Alberto
---
> sessionInfo();
R version 3.2.2 (2015-08-14)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.10.3 (Yosemite)
locale:
[1] it_IT.UTF-8/it_IT.UTF-8/it_IT.UTF-8/C/en_US.UTF-8/it_IT.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] seq2pathway_1.0.0 RSQLite_1.0.0 DBI_0.3.1
loaded via a namespace (and not attached):
[1] fastcluster_1.1.16 reshape2_1.4.1 splines_3.2.2
[4] lattice_0.20-33 colorspace_1.2-6 stats4_3.2.2
[7] survival_2.38-3 XML_3.98-1.3 foreign_0.8-66
[10] BiocGenerics_0.14.0 RColorBrewer_1.1-2 matrixStats_0.14.2
[13] foreach_1.4.2 plyr_1.8.3 GSA_1.03
[16] stringr_1.0.0 munsell_0.4.2 gtable_0.1.2
[19] codetools_0.2-14 seq2pathway.data_1.0.0 latticeExtra_0.6-26
[22] Biobase_2.28.0 IRanges_2.2.7 biomaRt_2.24.1
[25] doParallel_1.0.8 GenomeInfoDb_1.4.2 parallel_3.2.2
[28] AnnotationDbi_1.30.1 preprocessCore_1.30.0 proto_0.3-10
[31] Rcpp_0.12.1 acepack_1.3-3.3 scales_0.3.0
[34] S4Vectors_0.6.5 Hmisc_3.16-0 WGCNA_1.47
[37] XVector_0.8.0 gridExtra_2.0.0 impute_1.42.0
[40] ggplot2_1.0.1 digest_0.6.8 stringi_0.5-5
[43] GenomicRanges_1.20.6 grid_3.2.2 tools_3.2.2
[46] bitops_1.0-6 magrittr_1.5 RCurl_1.95-4.7
[49] dynamicTreeCut_1.62 Formula_1.2-1 cluster_2.0.3
[52] GO.db_3.1.2 MASS_7.3-44 reshape_0.8.5
[55] iterators_1.0.7 rpart_4.1-10 nnet_7.3-11
