On 06/07/2017 11:03 PM, Xiaojie Qiu wrote:
Dear Bioconductor maintainers,
We recently received installation issue reports regarding our Monocle
package from bioconductor. When they use the following code to install the
package,
source("https://bioconductor.org/biocLite.R";)
biocLite("monocle")
They only install the 2.2 version instead of the newest 2.4 version. We
For me I have
> source("https://bioconductor.org/biocLite.R";)
Bioconductor version 3.5 (BiocInstaller 1.26.0), ?biocLite for help
> biocLite("monocle")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.5 (BiocInstaller 1.26.0), R 3.4.0 Patched (2017-05-24
r72729).
Installing package(s) ‘monocle’
trying URL
'https://bioconductor.org/packages/3.5/bioc/src/contrib/monocle_2.4.0.tar.gz'
Content type 'application/x-gzip' length 2073297 bytes (2.0 MB)
...
maybe the problem is that they are using an older version of R and / or
Bioconductor? To get monocle 2.4.0 requires R-3.4.0 and Bioconductor
3.5; see http://bioconductor.org/install
> sessionInfo()
R version 3.4.0 Patched (2017-05-24 r72729)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04.2 LTS
Matrix products: default
BLAS: /home/mtmorgan/bin/R-3-4-branch/lib/libRblas.so
LAPACK: /home/mtmorgan/bin/R-3-4-branch/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.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] stats graphics grDevices utils datasets methods base
other attached packages:
[1] BiocInstaller_1.26.0
loaded via a namespace (and not attached):
[1] compiler_3.4.0 tools_3.4.0
Martin
noticed that there is a building error for our software package which
appears after bioconductor upgraded to R 3.4 (we will fix that tomorrow or
so). This may be related to the above issue but the version mismatch should
not happen. Could you please help us to fix the link to the correct version
please?
Much appreciated!
Xiaojie
[[alternative HTML version deleted]]
_______________________________________________
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
This email message may contain legally privileged and/or...{{dropped:2}}
_______________________________________________
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
