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Updating link to sentieonDNAscopeModel file #1280

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merged 2 commits into from
Oct 11, 2023
Merged

Updating link to sentieonDNAscopeModel file #1280

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29c5d4d
Updating link to entieonDNAscopeModel file
asp8200 Oct 11, 2023
c325cd4
Updating changelog
asp8200 Oct 11, 2023
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4 changes: 3 additions & 1 deletion CHANGELOG.md
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Expand Up @@ -9,11 +9,13 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0

### Added

- [#1193](https://github.com/nf-core/sarek/pull/1193) - Adding support for Sentieon's DnaScope for germline variant-calling including joint-germline.
- [#1193](https://github.com/nf-core/sarek/pull/1193) - Adding support for Sentieon's DnaScope for germline variant-calling including joint-germline
- [#1271](https://github.com/nf-core/sarek/pull/1271) - Back to dev

### Changed

- [#1280](https://github.com/nf-core/sarek/pull/1280) - Replacing link to `SentieonDNAscopeModel1.1.model` in Sentieon's S3 with link to same file in igenomes' S3

### Fixed

### Dependencies
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2 changes: 1 addition & 1 deletion nextflow.config
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Expand Up @@ -70,7 +70,7 @@ params {
joint_mutect2 = false // if true, enables patient-wise multi-sample somatic variant calling
only_paired_variant_calling = false // if true, skips germline variant calling for normal-paired sample
sentieon_dnascope_emit_mode = "variant" // default value for Sentieon dnascope
sentieon_dnascope_model = "https://s3.amazonaws.com/sentieon-release/other/SentieonDNAscopeModel1.1.model"
sentieon_dnascope_model = "s3://ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/Sentieon/SentieonDNAscopeModel1.1.model"
sentieon_dnascope_pcr_indel_model = "CONSERVATIVE"
sentieon_haplotyper_emit_mode = "variant" // default value for Sentieon haplotyper
wes = false // Set to true, if data is exome/targeted sequencing data. Used to use correct models in various variant callers
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