Bjoern,
FYI, I found that package_gatk_1_4 from the main Galaxy toolshed
produces Rscript files for VariantRecalibrator and other commands that
require ggplot_0.8.8 and reshape_0.8.4. This applies to GATK versions
1.4-20 and 1.4-37.
The magic incantation to get a systemwide R v3.1 setup properly
Hi Evan,
unfortunately I have no access to this repository. I'm only the
maintainer of the galaxytools in github. But I have CC'ed Dave, he is
responsible for the devteam packages!
Cheers and thanks for sharing your information!
Bjoern
Am 31.07.2014 um 20:47 schrieb Evan Bollig:
Bjoern,
Btw, I forgot: plyr_1.7.1 is also required for package_gatk_1_4. Hence
the install_url call for it below.
-E
-Evan Bollig
Research Associate | Application Developer | User Support Consultant
Minnesota Supercomputing Institute
599 Walter Library
612 624 1447
e...@msi.umn.edu
boll0...@umn.edu
On
I want to install ggplot2 into package_r. The library ggplot2 is no
longer available from the CRAN mirror for R v2.11.0. How do you guys
handle this situation?
Can I install another package_r and have packages that depend on
package_r_2_11_0 use the newer version?
-Evan Bollig
Research Associate
Hi Evan,
do you have somehow access to this tarball? Than we can put it on
https://github.com/bgruening/download_store
I use that to host R packages to save them for reproducibility.
Can I install another package_r and have packages that depend on
package_r_2_11_0 use the newer version?
I
Hey Bjoern,
I'm trying to use variant_recalibrator, xy_plot and other tools that
depend on package_r_2_11_0 and require ggplot2 to be installed. Since
CRAN support for R 2.11.0 and 2.15.0 is on the out, perhaps its a
better idea to update the packages the depend on those versions to R
3.0 or 3.1?
Am 29.07.2014 um 22:45 schrieb Evan Bollig:
Hey Bjoern,
I'm trying to use variant_recalibrator, xy_plot and other tools that
depend on package_r_2_11_0 and require ggplot2 to be installed. Since
CRAN support for R 2.11.0 and 2.15.0 is on the out, perhaps its a
better idea to update the
