Question: How do I install the R package on GitHub with bioconda
0
gravatar for zhao03
10 months ago by
zhao0330
zhao0330 wrote:

Hi, I try to install 'xxx' package on GitHub with biconda, should i add channels of github, Do I need to add a full the full URL of this package (https://github.com/dviraran/xxx) or just Github URL (https://github.com/)?

~# conda install xxx
Collecting package metadata: done
Solving environment: failed

PackagesNotFoundError: The following packages are not available from current channels:

  - xxx

Current channels:

To search for alternate channels that may provide the conda package you're looking for, navigate to

https://anaconda.org

and use the search bar at the top of the page.

rna-seq bioconda R • 795 views
ADD COMMENTlink modified 10 months ago • written 10 months ago by zhao0330

I added the channels, but it is not correct. Is there some advice

# conda config --add channels https://github.com/dviraran

# conda install xxx
Collecting package metadata: failed

UnavailableInvalidChannel: The channel is not accessible or is invalid.
  channel name: dviraran
  channel url: https://github.com/dviraran
  error code: 404
ADD REPLYlink modified 10 months ago by zx87549.4k • written 10 months ago by zhao0330

What does bioconda have to do with R packages? What are you trying to do? You've asked how to install a lightbulb with a hammer, and I can't see any reasonable answer.

ADD REPLYlink written 10 months ago by karl.stamm3.7k

I got it, thank you very much.

ADD REPLYlink written 10 months ago by zhao0330
3
gravatar for joe
10 months ago by
joe140
joe140 wrote:

Try to install specific packages instead of the entire repository, here is the conda for a package you asked about in your other post... https://anaconda.org/grst/r-xcell

ADD COMMENTlink modified 10 months ago • written 10 months ago by joe140
2
gravatar for WouterDeCoster
10 months ago by
Belgium
WouterDeCoster44k wrote:

You cannot install something directly from GitHub using conda.

You can always search for the tool itself and see if it's available on conda. Why do you make this so difficult for us by removing the name of the package and using xxx? How are we supposed to help you without knowing what you want?

If joe is right and you want xcell, then you could have googled for conda xcell and your first hit would have been this page, explaining you exactly how you should install it.

ADD COMMENTlink written 10 months ago by WouterDeCoster44k
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