From 83ea1ccf903157d3bd8cb3134c4812d6e539cfad Mon Sep 17 00:00:00 2001 From: Mohammed Faizal Eeman Mootor <68152431+Faizal-Eeman@users.noreply.github.com> Date: Thu, 4 Jul 2024 19:11:02 -0700 Subject: [PATCH] Release v5.2.0 (#166) * update node configurations in README * bump pipeline version * update README.md * remove asterisk --------- Co-authored-by: Mootor --- CHANGELOG.md | 4 ++++ README.md | 9 +++++---- nextflow.config | 2 +- 3 files changed, 10 insertions(+), 5 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 2c8f96a..7b67d4c 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,10 @@ All notable changes to the call-gSV pipeline. --- ## [Unreleased] + +--- + +## [5.2.0] - 2024-07-03 ### Added - Add `methods.modify_base_allocations()` to update resource allocation diff --git a/README.md b/README.md index 67a6c26..60890a8 100644 --- a/README.md +++ b/README.md @@ -31,10 +31,11 @@ The call-gSV nextflow pipeline, calls structural variants (SVs) and copy number | Config File | Available Node cpus / memory | Designated Process 1; cpus / memory | Designated Process 2; cpus / memory | Designated Process 3; cpus / memory | |:------------|:---------|:-------------------------|:-------------------------|:-------------------------| -| `F2.config` | 2 / 3 GB | call_gSV_Delly; 1 / 2 GB | call_gSV_Manta; 1 / 2 GB\* | validate_file; 1 / 1 GB | -| `F32.config` | 32 / 62.8 GB | call_gSV_Delly; 1 / 30 GB | call_gSV_Manta; 1 / 30 GB | validate_file; 1 / 1 GB | -| `F72.config` | 72 / 136.8 GB | call_gSV_Delly; 1 / 65 GB | call_gSV_Manta; 1 / 65 GB | validate_file; 1 / 1 GB | -| `M64.config` | 64 / 950 GB | call_gSV_Delly; 1 / 470 GB | call_gSV_Manta; 1 / 470 GB | validate_file; 1 / 1 GB | +| `F2.config` | 2 / 3 GB | call_gSV_Delly; 1 / 2 GB | call_gCNV_Delly; 1 / 2 GB | call_gSV_Manta; 1 / 2 GB\* | +| `F16.config` | 16 / 26 GB | call_gSV_Delly; 1 / 8 GB | call_gCNV_Delly; 1 / 8 GB | call_gSV_Manta; 6 / 8 GB | +| `F32.config` | 32 / 62.8 GB | call_gSV_Delly; 1 / 15 GB | call_gCNV_Delly; 1 / 15 GB | call_gSV_Manta; 12 / 15 GB | +| `F72.config` | 72 / 136.8 GB | call_gSV_Delly; 1 / 30 GB | call_gCNV_Delly; 1 / 30 GB | call_gSV_Manta; 24 / 30 GB | +| `M64.config` | 64 / 950 GB | call_gSV_Delly; 1 / 60 GB | call_gCNV_Delly; 1 / 60 GB | call_gSV_Manta; 30 / 60 GB | --- \* Manta SV calling wouldn't work on an F2 node due to incompatible resources. In order to test the pipeline for tasks not relevant to Manta, please set `run_manta = false` in the sample specific [config](config/template.config) file. diff --git a/nextflow.config b/nextflow.config index 870d042..4f30032 100644 --- a/nextflow.config +++ b/nextflow.config @@ -4,5 +4,5 @@ manifest { name = 'call-gSV' author = 'Yu Pan, Tim Sanders, Yael Berkovich, Mohammed Faizal Eeman Mootor' description = 'A pipeline to call germline structural variants utilizing Delly and Manta' - version = '5.1.0' + version = '5.2.0' }