diff --git a/docs/params.md b/docs/params.md index b3529b8..a3a8bdb 100644 --- a/docs/params.md +++ b/docs/params.md @@ -73,7 +73,7 @@ Parameters for the lineage subworkflow | `run_poppunk_qc` | Whether to run the QC step for PopPunk | `boolean` | | | `enable_subsetting` | Enable subsetting workflow based on genome similarity | `boolean` | | | `core_similarity` | Similarity threshold for core genomes | `number` | 99.9 | -| `accessory_similarity` | Similarity threshold for accessory genes | `number` | 99 | +| `accessory_similarity` | Similarity threshold for accessory genes | `number` | 99.0 | ## Gene Order @@ -141,9 +141,9 @@ Set the top limit for requested resources for any single job. | Parameter | Description | Type | Default | |-----------|-----------|-----------|-----------| -| `max_cpus` | Maximum number of CPUs that can be requested for any single job.
HelpUse to set an upper-limit for the CPU requirement for each process. Should be an integer e.g. `--max_cpus 1`
| `integer` | 16 | -| `max_memory` | Maximum amount of memory that can be requested for any single job.
HelpUse to set an upper-limit for the memory requirement for each process. Should be a string in the format integer-unit e.g. `--max_memory '8.GB'`
| `string` | 128.GB | -| `max_time` | Maximum amount of time that can be requested for any single job.
HelpUse to set an upper-limit for the time requirement for each process. Should be a string in the format integer-unit e.g. `--max_time '2.h'`
| `string` | 240.h | +| `max_cpus` | Maximum number of CPUs that can be requested for any single job.
HelpUse to set an upper-limit for the CPU requirement for each process. Should be an integer e.g. `--max_cpus 1`
| `integer` | 72 | +| `max_memory` | Maximum amount of memory that can be requested for any single job.
HelpUse to set an upper-limit for the memory requirement for each process. Should be a string in the format integer-unit e.g. `--max_memory '8.GB'`
| `string` | 125.GB | +| `max_time` | Maximum amount of time that can be requested for any single job.
HelpUse to set an upper-limit for the time requirement for each process. Should be a string in the format integer-unit e.g. `--max_time '2.h'`
| `string` | 168.h | ## Generic options diff --git a/nextflow_schema.json b/nextflow_schema.json index 6e3a975..41177ce 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -226,7 +226,7 @@ }, "accessory_similarity": { "type": "number", - "default": 99, + "default": 99.0, "fa_icon": "far fa-clone", "description": "Similarity threshold for accessory genes" } @@ -440,7 +440,7 @@ "max_cpus": { "type": "integer", "description": "Maximum number of CPUs that can be requested for any single job.", - "default": 16, + "default": 72, "fa_icon": "fas fa-microchip", "hidden": true, "help_text": "Use to set an upper-limit for the CPU requirement for each process. Should be an integer e.g. `--max_cpus 1`" @@ -448,7 +448,7 @@ "max_memory": { "type": "string", "description": "Maximum amount of memory that can be requested for any single job.", - "default": "128.GB", + "default": "125.GB", "fa_icon": "fas fa-memory", "pattern": "^\\d+(\\.\\d+)?\\.?\\s*(K|M|G|T)?B$", "hidden": true, @@ -457,7 +457,7 @@ "max_time": { "type": "string", "description": "Maximum amount of time that can be requested for any single job.", - "default": "240.h", + "default": "168.h", "fa_icon": "far fa-clock", "pattern": "^(\\d+\\.?\\s*(s|m|h|day)\\s*)+$", "hidden": true,