spades-software
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spades-software [2017/12/25 20:46] – aorth | spades-software [2022/09/20 07:38] (current) – aorth | ||
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===== Information ===== | ===== Information ===== | ||
- | * Version: 3.11.1 | + | * Version: 3.15 (3.15.5) |
* Added: September, 2014 | * Added: September, 2014 | ||
- | * Updated: | + | * Updated: |
- | * Link: http://cab.spbu.ru/software/spades/ | + | * Link: https://github.com/ablab/spades |
===== Usage ===== | ===== Usage ===== | ||
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< | < | ||
- | After loading the module, consult the built-in help: | + | Load one version into your environment and run it: |
- | < | + | < |
+ | $ spades.py --help | ||
+ | $ spades.py --test</ | ||
=== Example batch job === | === Example batch job === | ||
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#SBATCH -J spades | #SBATCH -J spades | ||
- | module load spades/3.6.1 | + | module load spades/3.13.0 |
readonly DATADIR=~/ | readonly DATADIR=~/ | ||
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echo | echo | ||
- | echo " | + | echo " |
echo | echo | ||
echo " | echo " | ||
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< | < | ||
- | $ wget http://cab.spbu.ru/files/release3.11.1/SPAdes-3.11.1.tar.gz | + | $ wget https://github.com/ |
- | $ tar xf SPAdes-3.11.1.tar.gz | + | $ tar xf SPAdes-3.15.5-Linux.tar.gz |
- | $ cd SPAdes-3.11.1 | + | $ sudo mv / |
- | $ sudo mkdir / | + | $ sed -i '1s/python/python3/' SPAdes-3.15.5-Linux/bin/spades.py |
- | $ sudo chown aorth / | + | $ sudo cp -r SPAdes-3.15.5-Linux |
- | $ PREFIX=/export/apps/spades/3.11.1 ./spades_compile.sh | + | |
- | $ sudo chown -R root: | + | |
Note: if you get the error '' | Note: if you get the error '' |
spades-software.txt · Last modified: 2022/09/20 07:38 by aorth