spades-software
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| Both sides previous revisionPrevious revisionNext revision | Previous revisionLast revisionBoth sides next revision | ||
| spades-software [2017/12/25 20:45] – aorth | spades-software [2022/02/21 17:48] – aorth | ||
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| ===== Information ===== | ===== Information ===== | ||
| - | * Version: 3.10.1 | + | * Version: 3.15 (3.15.4) |
| * Added: September, 2014 | * Added: September, 2014 | ||
| - | * Updated: | + | * Updated: |
| - | * Link: http://cab.spbu.ru/software/spades/ | + | * Link: https://github.com/ablab/spades |
| ===== Usage ===== | ===== Usage ===== | ||
| Line 14: | Line 14: | ||
| < | < | ||
| - | 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 === | ||
| Line 24: | Line 26: | ||
| #SBATCH -J spades | #SBATCH -J spades | ||
| - | module load spades/3.6.1 | + | module load spades/3.13.0 |
| readonly DATADIR=~/ | readonly DATADIR=~/ | ||
| Line 37: | Line 39: | ||
| echo | echo | ||
| - | echo " | + | echo " |
| echo | echo | ||
| echo " | echo " | ||
| Line 45: | Line 47: | ||
| < | < | ||
| - | $ 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-3.15.4.tar.gz |
| - | $ cd SPAdes-3.11.1 | + | $ cd SPAdes-3.15.4 |
| - | $ sudo mkdir / | + | $ sudo chown aorth / |
| - | $ sudo chown aorth / | + | $ sudo mkdir -p / |
| - | $ PREFIX=/ | + | $ scl enable devtoolset-7 bash |
| - | $ sudo chown -R root:root / | + | $ module load python/3.9 |
| + | $ sed -i ' | ||
| + | $ PREFIX=/ | ||
| + | $ sudo chown -R root: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