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When I run a script on an HPC with a scheduler such as SGE, my script might contain flags like these:
```bash
#!/bin/bash
#$ -pe openmpi 32
#$ -A TensorFlow
#$ -N rqsub_tile
#$ -cwd
#$ -S /bi…
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Hi,
I am trying to run scan-snv for whole chromosome in slurm cluster, I don't get any error or output. The config.yaml seems to be correct and coreXXX binary file is generated, and I don't see any …
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I'm having an issue with Galaxy on Jetstream. TopHat seems to be killing my instance (it shuts off spontaneously), a separate issue which I'm working with Jetstream admins on. When I restart the insta…
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The goal of ticket is to gather ideas on improving HPC batch system support beyond the work done in #2959
┆Issue is synchronized with this [Jira Epic](https://ucsc-cgl.atlassian.net/browse/TOIL-535)…
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**Original report ([archived issue](https://hoffmangroup.github.io/genomedata-bitbucket-backup/#!/hoffmanlab/genomedata/issues/3)) by Eric Roberts (Bitbucket: [ericr86](https://bitbucket.org/%7Bcd8c1f…
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The `cleanup` argument to grid_map and the Job class does not actually work when it's set to true. This is because we are trying to delete the output files from the same process that is writing to the…
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Travis CI has [announced they will be dropping Ubuntu Precise and moving to Ubuntu Trusty]( https://blog.travis-ci.com/2017-08-31-trusty-as-default-status ). As we setup a DRMAA compatible cluster her…
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This is so we can remove custom code from https://github.com/OSC/ood-dashboard/blob/4b7b7f77caafb184de25fdb69250e1813342d6b9/lib/smart_attributes/attributes/bc_num_slots.rb#L55-L70 and we can remove u…
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Would be nice if there was a good way to plug in version information for the underlying cluster implementation. Also could be nice to include other configuration information. In the case of `dask-drma…
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The `dask-worker` process can be configured in a variety of ways:
- How many cores should it use?
- With what mix of threads and processes should it use those cores?
- How much RAM should it use? …