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mschubert committed Jun 5, 2019
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22 changes: 11 additions & 11 deletions vignettes/userguide.Rmd
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Expand Up @@ -89,11 +89,11 @@ processing. This will work in most, but not all cases.

To set up a scheduler explicitly, see the following links:

* [LSF](LSF)
* [SGE](SGE)
* [Slurm](SLURM)
* [Torque](Torque)
* [PBS](PBS)
* [LSF](#LSF)
* [SGE](#SGE)
* [Slurm](#SLURM)
* [Torque](#Torque)
* [PBS](#PBS)
* if you want another scheduler, [open an
issue](https://github.com/mschubert/clustermq/issues/new)

Expand Down Expand Up @@ -350,7 +350,7 @@ Examples for such environments or containers are:

It should be possible to activate them in the job submission script (i.e., the
template file). This is widely untested, but would look the following for the
[LSF](LSF) scheduler (analogous for others):
[LSF](#LSF) scheduler (analogous for others):

```r
#BSUB-J {{ job_name }}[1-{{ n_jobs }}] # name of the job / array jobs
Expand Down Expand Up @@ -384,7 +384,7 @@ options(

## Scheduler templates

### LSF
### LSF {#LSF}

In your `~/.Rprofile` on your computing cluster, set the following options:

Expand Down Expand Up @@ -432,7 +432,7 @@ In this file, `#BSUB-*` defines command-line arguments to the `bsub` program.
Once this is done, the package will use your settings and no longer warn you of
the missing options.

### SGE
### SGE {#SGE}

In your `~/.Rprofile` on your computing cluster, set the following options:

Expand Down Expand Up @@ -472,7 +472,7 @@ In this file, `#$-*` defines command-line arguments to the `qsub` program.
Once this is done, the package will use your settings and no longer warn you of
the missing options.

### SLURM
### SLURM {#SLURM}

In your `~/.Rprofile` on your computing cluster, set the following options:

Expand Down Expand Up @@ -513,7 +513,7 @@ In this file, `#SBATCH` defines command-line arguments to the `sbatch` program.
Once this is done, the package will use your settings and no longer warn you of
the missing options.

### PBS
### PBS {#PBS}

In your `~/.Rprofile` on your computing cluster, use the SGE scheduler with a
PBS template:
Expand Down Expand Up @@ -552,7 +552,7 @@ In this file, `#PBS-*` defines command-line arguments to the `qsub` program.
Once this is done, the package will use your settings and no longer warn you of
the missing options.

### Torque
### Torque {#Torque}

In your `~/.Rprofile` on your computing cluster, use the SGE scheduler with a
Torque template:
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