Update cryosparc advanced settings text.
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@@ -39,8 +39,10 @@ share a license ID will cause jobs to fail. If you have multiple CryoSPARC sess
@@ -39,8 +39,10 @@ share a license ID will cause jobs to fail. If you have multiple CryoSPARC sess
- **CryoSPARC session path**: The default location of the CryoSPARC database and configuration files is `$WORK/cryosparc`. You can change this location using the *Select Path* button. You can select any of the [available file systems on Swan]({{< relref "../handling_data/data_storage/" >}}) aside from the `$HOME` filesystem. _We do not recommend using `$HOME` for the session folder_. Please note that each file system has its own advantages and disadvantages. **Note this location is \*not\* the same as the project path(s) where projects are stored.** This location is used for CryoSPARC's internal database and configuration. Do not change this value unless you are absolutely sure of the ramifications.
- **CryoSPARC session path**: The default location of the CryoSPARC database and configuration files is `$WORK/cryosparc`. You can change this location using the *Select Path* button. You can select any of the [available file systems on Swan]({{< relref "../handling_data/data_storage/" >}}) aside from the `$HOME` filesystem. _We do not recommend using `$HOME` for the session folder_. Please note that each file system has its own advantages and disadvantages. **Note this location is \*not\* the same as the project path(s) where projects are stored.** This location is used for CryoSPARC's internal database and configuration. Do not change this value unless you are absolutely sure of the ramifications.
- **Specify partition for CryoSPARC GPU jobs**: This parameter defines the GPU partition used for the GPU CryoSPARC jobs submitted to the cluster via SLURM through the interactive Desktop. If not specified, by default, these jobs are submitted to the general `gpu` partition. If you have access to a priority access partition with GPU resources, you may specify that partition here to reduce queue time.
- **Specify partition for CryoSPARC GPU jobs**: This parameter defines the GPU partition used for the GPU CryoSPARC jobs submitted to the cluster via SLURM through the interactive Desktop. If not specified, by default, these jobs are submitted to the general `gpu` partition. If you have access to a priority access partition with GPU resources, you may specify that partition here to reduce queue time.
- **Highmem factor**: This parameter defines the multiplicative factor used to increase the memory (RAM) request for the `highmem` cluster lane (described below). That is, the preset memory values within CryoSPARC for each job type will be multiplied by this factor. Certain input sets combined with particular options may require more memory than the preset CryoSPARC values, and will otherwise fail. Use this value in combination with using the `highmem` cluster lane to increase the requested memory on specified jobs to allow them to complete successfully. The valid range are integer values from 1 to 10.
- **Highmem factor**: This parameter defines the multiplicative factor used to increase the memory (RAM) request for the `highmem` cluster lane (described below). That is, the preset memory values within CryoSPARC for each job type will be multiplied by this factor. Certain input sets combined with particular options may require more memory than the preset CryoSPARC values, and will otherwise fail. Use this value in combination with using the `highmem` cluster lane to increase the requested memory on specified jobs to allow them to complete successfully. The valid range are integer values from 1 to 10.
- **Batch job maximum runtime**: This parameter controls the maximum runtime of the batch jobs CryoSPARC submits to SLURM via the cluster lanes. This value must be greater than the longest CryoSPARC task submitted to the cluster lanes else those tasks will be killed by the scheduler. Smaller values will generally decrease queue time, so if you are confident all tasks for your particular datasets will complete sooner, you may lower this value to improve job throughput and decrease queue time.
- **Allow multiple CryoSPARC masters**: By default only one instance of the CryoSPARC app can be run at a time, as the app launches the CryoSPARC master process. Selecting this box overrides this limitation and allows multiple copies of the app (i.e. master) to run. This can be useful for testing a newer CryoSPARC version side by side with an existing version for example. **In order to avoid data corruption and loss, you must use a distinct session path for each master. Multiple masters cannot share a session path!** _HCC strongly recommends against using this option unless you know exactly what you're doing and have a secure backup of both your project(s) and CryoSPARC database(s)._