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conda yaml
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martin-raden authored Jan 21, 2022
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Expand Up @@ -56,7 +56,46 @@ It is also possible to run CopraRNA [via a provided Docker container](#biocontai
<a name="deps" />
## Dependencies

The specified versions are tested and functional.
The following setup was successfully used to build and run CopraRNA via conda:
```yaml
name: CopraRNA-2.1.3

channels:
- conda-forge
- bioconda
- defaults
- r
- conda

dependencies:
- blast-legacy
- bzip2
- clustalo
- coreutils
- domclust
- embassy-phylip
- emboss
- gawk
- grep
- intarna >2.2
- mafft
- perl <6
- perl-bioperl
- perl-bio-eutilities
- perl-getopt-long
- perl-list-moreutils
- perl-parallel-forkmanager
- phantomjs
- python
- r-base <4
- r-pheatmap
- r-robustrankaggreg
- r-seqinr
- sed
- suds-jurko
```
The following package versions were tested and functional during development of CopraRNA2.
- bzip2 1.0.6 (for the core genome archive) // conda install bzip2
- gawk 4.1.3 // conda install gawk
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