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Use our summer school reservation (CoreNGS-Thu) core-ngs-class-0605) for today when submitting batch jobs to get higher priority on the ls6 normal queue. | Code Block |
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| language | bash |
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| title | Request an interactive (idev) node |
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| # Request a 180 minute interactive node on the normal queue using our reservation
idev -m 120 -N 1 -A OTH21164 -r CoreNGS-Thucore-ngs-class-0605
# Request a 120 minute idev node on the development queue
idev -m 120 -N 1 -A OTH21164 -p development
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| Code Block |
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| language | bash |
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| title | Submit a batch job |
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| # Using our reservation
sbatch --reseservation=CoreNGS-Thucore-ngs-class-0605 <batch_file>.slurm |
Note that the today's reservation name (CoreNGScore-ngs-class-0605) is different from the TACC allocation/project for this class, which is OTH21164.
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| Code Block |
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| language | bash |
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| title | Start an idev session |
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idev -m 180 -N 1 -A OTH21164 -r CoreNGS-Thucore-ngs-class-0605 |
Then stage the sample datasets and references we will use.
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| Code Block |
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| language | bash |
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| title | Start an idev session |
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idev -m 180 -N 1 -A OTH21164 -r CoreNGS-Thucore-ngs-class-0605
idev -m 120 -N 1 -A OTH21164 -p development |
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| Expand |
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| title | Make sure you're in a idev session |
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| Code Block |
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| language | bash |
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| title | Start an idev session |
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| idev -m 120 -N 1 -A OTH21164 -r CoreNGS # or -A TRA23004
core-ngs-class-0605
idev -m 90 -N 1 -A OTH21164 -p development # or -A TRA23004 |
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# If not already loaded
module load biocontainers # takes a while
module load samtools
samtools |
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