chore: fix conda installs

[rokroskar]

• removes the defaults channel to avoid conda install timeouts
• uses mamba instead of conda

[olevski]

So the renv template does not build. Not because of this change though - or at least I think not:

Step 7/15 : RUN bash .renv_install.sh
 ---> Running in 181ef48e0461
Installing renv
renv.lock file detected
Installing package into ‘/usr/local/lib/R/site-library’
(as ‘lib’ is unspecified)
trying URL 'https://cran.r-project.org/src/contrib/00Archive/renv/renv_0.15.5.tar.gz'
Error in download.file(p, destfile, method, mode = "wb", ...) : 
  cannot open URL 'https://cran.r-project.org/src/contrib/00Archive/renv/renv_0.15.5.tar.gz'
In addition: Warning message:
In download.file(p, destfile, method, mode = "wb", ...) :
  URL 'https://cran.r-project.org/src/contrib/00Archive/renv/renv_0.15.5.tar.gz': status was 'Couldn't resolve host name'
installed renv v0.15.5
Removing intermediate container 181ef48e0461
 ---> a22dc1e7adfe
Step 8/15 : COPY renv.lock /home/rstudio/renv.lock
 ---> f6a734ffc9b9
Step 9/15 : COPY install.R /tmp/
 ---> [385](https://gitlab.dev.renku.ch/tasko.olevski/test-project-30/-/jobs/365489#L385)2af64fa03
Step 10/15 : RUN R -f /tmp/install.R
 ---> Running in dbc974a7b173
R version 4.2.0 (2022-04-22) -- "Vigorous Calisthenics"
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Type 'license()' or 'licence()' for distribution details.
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> # The renv library will be located on the docker image, in the /home/rstudio directory,
> # yet it will use the renv.lock file located in the project's main directory to determine which dependencies to install.
> setwd('/home/rstudio')
> options(renv.consent = TRUE)
> write("options(renv.consent = TRUE)", file="/home/rstudio/.Rprofile", append = TRUE)
> renv::init(force = TRUE)
Error in loadNamespace(x) : there is no package called ‘renv’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
The command '/bin/bash -c -o pipefail R -f /tmp/install.R' returned a non-zero code: 1
Cleaning up project directory and file based variables
00:01
ERROR: Job failed: exit code 1

[olevski]

I will approve because the error in the renv template is in the bash script that installs r packages with renv not in the stuff we changed.

[rokroskar]

Thanks @olevski - @RichardJActon would you be able to have a look at this error?

[RichardJActon]

@rokroskar yes - I'll take a look.

The log suggests it's trying to download renv from an incorrect url ...00Archive... not ...Archive...- not sure why that would have changed but I'll see if I can reproduce it and fix the script

[rokroskar]

Thank you!!