-
@johanneskoester I would love to be able to orchestrate AWS batch jobs with Snakemake.
This would be very similar to submitting jobs to a SLURM/SGE cluster, but instead, to AWS Batch.
I alread…
nh13 updated
11 months ago
-
Continue code review of PR #92.
List of tests to perform:
- [x] single-session dataset;
- [x] `babs-submit` other options
- [x] `--count`
- [x] `--job`
- [x] `babs-status` other options, i…
-
bcbio currently supports several schedulers (lsf, sge, torque, slurm, pbspro)
https://bcbio-nextgen.readthedocs.io/en/latest/contents/parallel.html
aws parallelcluster also supports several schedu…
-
```
I plan to run gc3pie and ggeotop on a cluster (SGE) where (a) each node has
access to the same disk, and (b) later, this can scale to include nodes without
access to this disk.
Can you add a fl…
-
I'm interested in running `panDB` to use with `Kraken`, however, I only have access to a file server or a compute cluster running SGE. Are you considering a more agnostic implementation of `panDB`?
…
-
Hi, amazing resource of tools built here!
I have a question regarding the seqParallel function. I can see the `cl` arguement takes a BiocParallelParam object. I attempted to use it with a [Batchtoo…
-
Submitting jobs to UGER should use an array:
> You are limited to 100 job in the cluster at once. This is to encourage the use of Task Arrays. Task arrays use the variable $SGE_TASK_ID which can be…
-
Hi
I am trying to get the distributed example working on an aws cluster i started with starcluster.
I'm using the starcluster ubuntu 12.04 ami and have installed numpy, mongodb, pymongo and spearmint…
-
Dear ElastiCluster developer;
I have used ElastiCluster to create an SGE cluster successfully. I still need to install some dependencies to run some Snakemake jobs on the cluster. It is OK for m…
-
**Describe the bug**
Forgive me if already discussed - I could only find topics addressing FSL FIRST with SGE but not SLURM on the community forum. Thought it was worth highlighting. Having a simil…