Closed HeenaBioinfo closed 1 year ago
travishathaway
commented
1 year ago Hi @HeenaSaini,
Can you please paste the contents of your environment YAML file (heena_blm.yaml). I'm guessing it's not correctly formatted, but I won't know for sure until I see what's inside.
HeenaBioinfo
commented
1 year ago channels:
- conda-forge
- bioconda
- defaults
- local
dependencies:
- python
- r-tidyverse
- r-base
- bioconductor-mutationalpatterns
- bioconductor-genomeinfodb
- bioconductor-bsgenome
- bioconductor-biocgenerics
- bioconductor-bsgenome.hsapiens.ucsc.hg38
- bioconductor-genomeinfodbdata
- r-ggplot2
- r-ggpubr
- r-caret
- r-glmnetutils
- r-glmnet
- r-e1071
- r-catools
- r-survival
- r-survminer
- r-pheatmap
- r-ggplotify
- r-cowplot
- r-biocmanager
- r-reshape
- r-sigminer
- r-devtools
- bioconductor-genefilter
- bioconductor-mofa2This command individually is also not working : conda install -c bioconda bioconductor-genomeinfodb I have tried to create new env and then upadate packages, everything ends up getting this error i mentioned in the post
travishathaway
commented
1 year ago Hi @HeenaSaini,
I still haven't been able to successfully recreate this, but I wanted to give you some practically advise. I tried this with both the classic solver and the new libmamba solver we have available and noticed this problem didn't appear on the later (it was also much faster 🐇 ).
I would suggest that you install and use this solver instead. More information about that can be found here:
Good luck! ✌️
HeenaBioinfo
commented
1 year ago Thanks Travis,
I created a new env with mamba, updated all packages and it worked. According to my experience - mamba works better than conda. Thanks for your efforts and help.
Regards
Heena
On Wed, May 10, 2023 at 2:01 PM Travis Hathaway @.***> wrote:
Hi @HeenaSaini https://github.com/HeenaSaini,
I still haven't been able to successfully recreate this, but I wanted to give you some practically advise. I tried this with both the classic solver and the new libmamba solver we have available and noticed this problem didn't appear on the later (it was also much faster 🐇 ).
I would suggest that you install and use this solver instead. More information about that can be found here:
Good luck! ✌️
— Reply to this email directly, view it on GitHub https://github.com/conda/conda/issues/12633#issuecomment-1542080119, or unsubscribe https://github.com/notifications/unsubscribe-auth/ANWHDT2ZNR3XDU6PXFD6FTLXFN7PXANCNFSM6AAAAAAXTIZAW4 . You are receiving this because you were mentioned.Message ID: @.***>
travishathaway
commented
1 year ago Not going to argue with that 😉.
Will go ahead and close this issue for now.
Checklist
What happened?
I tried updateing env with a .yaml file as well as individually - both of them failed I am pasting the error report here:
Conda Info
Conda Config
Conda list
Additional Context
please help