|
|
# Dependencies
|
|
# Installation
|
|
|
|
## Install from bioconda
|
|
|
|
Make sure you download the latest recipe version (currently `magneto-1.2-pyhdfd78af_2`).
|
|
|
|
```bash
|
|
|
|
conda install -c bioconda magneto
|
|
|
|
```
|
|
|
|
## Install from source
|
|
|
|
### Dependencies
|
|
|
|
|
|
|
|
A working installation of **conda** and **git** is mandatory to build magneto. If you have **mamba** already install on your system, the creation of the main environment will be faster.
|
|
A working installation of **conda** and **git** is mandatory to build magneto. If you have **mamba** already install on your system, the creation of the main environment will be faster.
|
|
|
|
|
|
| ... | @@ -12,12 +19,6 @@ Other dependencies (such as python libraries for analysis, or to compute program |
... | @@ -12,12 +19,6 @@ Other dependencies (such as python libraries for analysis, or to compute program |
|
|
The default conda libraries management for snakemake is mamba, since a couple of month now. Even if it is possible to use conda instead of mamba for conda libraries management, the design of Magneto set mamba mandatory, as `--conda-frontend conda` does not propagate to the subworkflows.\
|
|
The default conda libraries management for snakemake is mamba, since a couple of month now. Even if it is possible to use conda instead of mamba for conda libraries management, the design of Magneto set mamba mandatory, as `--conda-frontend conda` does not propagate to the subworkflows.\
|
|
|
Except if you use your own databases or already have downloaded them, MAGNETO will also require an internet connection.
|
|
Except if you use your own databases or already have downloaded them, MAGNETO will also require an internet connection.
|
|
|
|
|
|
|
|
# Installation
|
|
|
|
|
## Install from bioconda
|
|
|
|
|
```bash
|
|
|
|
|
conda install -c bioconda magneto
|
|
|
|
|
```
|
|
|
|
|
## Install from source
|
|
|
|
|
### Main conda environment installation
|
|
### Main conda environment installation
|
|
|
|
|
|
|
|
Start by creating a conda environment containing snakemake, mamba and the python module click:
|
|
Start by creating a conda environment containing snakemake, mamba and the python module click:
|
| ... | |
... | |
| ... | | ... | |